R3980B last accessed: 2022-11-04

Other names: MassIVE, Mass Spectrometry Interactive Virtual Environment

MassIVE is a community resource developed by the NIH-funded Center for Computational Mass Spectrometry to promote the global, free exchange of mass spectrometry data. MassIVE datasets can be assigned ProteomeXchange accessions to satisfy publication requirements.

Webpage:

https://massive.ucsd.edu

Licence:

Name: Creative Commons CC0 1.0 Universal (CC0 1.0) Public Domain Dedication
URL: https://creativecommons.org/publicdomain/zero/1.0/

Publications:

Publications
More detailed information about this field from each metasource.

Sharing and community curation of mass spectrometry data with Global Natural Products Social Molecular Networking
PMID: 27504778
metasource: Fairsharing.org
version: FAIRsharing.org: MassIVE; Mass Spectrometry Virtual Interactive Environment; DOI: https://doi.org/10.25504/FAIRsharing.LYsiMd; Last edited: March 29, 2021, 11:03 a.m.; Last accessed: Jan 03 2022 7:06 p.m.

The ProteomeXchange consortium in 2017: supporting the cultural change in proteomics public data deposition
PMID: 27924013
metasource: Fairsharing.org
version: FAIRsharing.org: MassIVE; Mass Spectrometry Virtual Interactive Environment; DOI: https://doi.org/10.25504/FAIRsharing.LYsiMd; Last edited: March 29, 2021, 11:03 a.m.; Last accessed: Jan 03 2022 7:06 p.m.

The ProteomeXchange consortium in 2020: enabling 'big data' approaches in proteomics
PMID: 31686107
metasource: Fairsharing.org
version: FAIRsharing.org: MassIVE; Mass Spectrometry Virtual Interactive Environment; DOI: https://doi.org/10.25504/FAIRsharing.LYsiMd; Last edited: March 29, 2021, 11:03 a.m.; Last accessed: Jan 03 2022 7:06 p.m.

MassIVE.quant: a community resource of quantitative mass spectrometry-based proteomics datasets
PMID: 32929271
metasource: Fairsharing.org
version: FAIRsharing.org: MassIVE; Mass Spectrometry Virtual Interactive Environment; DOI: https://doi.org/10.25504/FAIRsharing.LYsiMd; Last edited: March 29, 2021, 11:03 a.m.; Last accessed: Jan 03 2022 7:06 p.m.

Sharing and community curation of mass spectrometry data with Global Natural Products Social Molecular Networking PubMed citations: 903.

903 articles citing: Sharing and community curation of mass spectrometry data with Global Natural Products Social Molecular Networking

TidyMass an object-oriented reproducible analysis framework for LC-MS data. PMID:35902589
Metabolomic Profiling and Molecular Networking of Nudibranch-Associated Streptomyces sp. SCSIO 001680. PMID:35889415
Untargeted LC-MS/MS-Based Multi-Informative Molecular Networking for Targeting the Antiproliferative Ingredients in Tetradium ruticarpum Fruit. PMID:35889335
Molecular Network-Based Identification of Tramadol Metabolites in a Fatal Tramadol Poisoning. PMID:35888789
A Current Encyclopedia of Bioinformatics Tools, Data Formats and Resources for Mass Spectrometry Lipidomics. PMID:35888710
Pharmacokinetics and Metabolomic Profiling of Metformin and Andrographis paniculata: A Protocol for a Crossover Randomised Controlled Trial. PMID:35887695
Computation-Assisted Identification of Bioactive Compounds in Botanical Extracts: A Case Study of Anti-Inflammatory Natural Products from Hops. PMID:35883889
Investigation on Metabolites in Structural Diversity from the Deep-Sea Sediment-Derived Bacterium Agrococcus sp. SCSIO 52902 and Their Biosynthesis. PMID:35877724
Insights into the Antimicrobial Activities and Metabolomes of Aquimarina (Flavobacteriaceae, Bacteroidetes) Species from the Rare Marine Biosphere. PMID:35877716
An integrated strategy for the comprehensive profiling of the chemical constituents of Aspongopus chinensis using UPLC-QTOF-MS combined with molecular networking. PMID:35868020
Platyphylloside, a potential inhibitor from epicarp of B. aegyptiaca against CYP450 protein in T. rubrum - In vitro and in silico approaches. PMID:35844431
Multi-omics study identifies novel signatures of DNA/RNA, amino acid, peptide, and lipid metabolism by simulated diabetes on coronary endothelial cells. PMID:35835939
Integrated Metabolomic, Molecular Networking, and Genome Mining Analyses Uncover Novel Angucyclines From Streptomyces sp. RO-S4 Strain Isolated From Bejaia Bay, Algeria. PMID:35814649
Molecular Networking, Network Pharmacology, and Molecular Docking Approaches Employed to Investigate the Changes in Ephedrae Herba before and after Honey-Processing. PMID:35807303
Anthocyanins, Carotenoids and Chlorophylls in Edible Plant Leaves Unveiled by Tandem Mass Spectrometry. PMID:35804744
Enhancing untargeted metabolomics using metadata-based source annotation. PMID:35798960
Structure and Biosynthesis of Desmamides A-C, Lipoglycopeptides from the Endophytic Cyanobacterium Desmonostoc muscorum LEGE 12446. PMID:35793792
Microbial liberation of N-methylserotonin from orange fiber in gnotobiotic mice and humans. PMID:35764090
Deep kernel learning improves molecular fingerprint prediction from tandem mass spectra. PMID:35758813
Metabolomics studies of cell-cell interactions using single cell mass spectrometry combined with fluorescence microscopy. PMID:35756524
Substrate Utilization and Competitive Interactions Among Soil Bacteria Vary With Life-History Strategies. PMID:35756023
Allopeptimicins: unique antibacterial metabolites generated by hybrid PKS-NRPS, with original self-defense mechanism in Actinoallomurus. PMID:35754877
The molecular impact of life in an indoor environment. PMID:35749501
Applying molecular networking for targeted isolation of depsipeptides. PMID:35747077
A Combination of Metabolomics and Machine Learning Results in the Identification of a New Cyst Nematode Hatching Factor. PMID:35736484
Computational Metabolomics Tools Reveal Metabolic Reconfigurations Underlying the Effects of Biostimulant Seaweed Extracts on Maize Plants under Drought Stress Conditions. PMID:35736420
Metabolomics with multi-block modelling of mass spectrometry and nuclear magnetic resonance in order to discriminate Haplosclerida marine sponges. PMID:35725831
Pseudomonas aeruginosa Ld-08 isolated from Lilium davidii exhibits antifungal and growth-promoting properties. PMID:35714148
PeakForest: a multi-platform digital infrastructure for interoperable metabolite spectral data and metadata management. PMID:35699774
A Defined Medium for Cultivation and Exometabolite Profiling of Soil Bacteria. PMID:35694313
Combined LC-MS/MS and Molecular Networking Approach Reveals Antioxidant and Antimicrobial Compounds from Erismadelphus exsul Bark. PMID:35684277
Phoenicin Switch: Discovering the Trigger for Radical Phoenicin Production in Multiple Wild-Type Penicillium Species. PMID:35670582
Bacillus subtilis biofilm matrix components target seed oil bodies to promote growth and anti-fungal resistance in melon. PMID:35668112
Implementation of a MS/MS database for isoquinoline alkaloids and other annonaceous metabolites. PMID:35668110
Genome Mining and Metabolomics Unveil Pseudonochelin: A Siderophore Containing 5-Aminosalicylate from a Marine-Derived Pseudonocardia sp. Bacterium. PMID:35649263
MSNovelist: de novo structure generation from mass spectra. PMID:35637304
Chrysosporazines Revisited: Regioisomeric Phenylpropanoid Piperazine P-Glycoprotein Inhibitors from Australian Marine Fish-Derived Fungi. PMID:35630649
Exploring the Diversity and Antibacterial Potentiality of Cultivable Actinobacteria from the Soil of the Saxaul Forest in Southern Gobi Desert in Mongolia. PMID:35630432
Comprehensive Metabolomic Comparison of Five Cereal Vinegars Using Non-Targeted and Chemical Isotope Labeling LC-MS Analysis. PMID:35629931
Reprogramming of Plant Central Metabolism in Response to Abiotic Stresses: A Metabolomics View. PMID:35628526
Pre-Pandemic Dietary Assessment of Elderly Persons Residing in Nursing Homes-Silesia (Poland). PMID:35627902
Bioactivity-Guided Screening of Antimicrobial Secondary Metabolites from Antarctic Cultivable Fungus Acrostalagmus luteoalbus CH-6 Combined with Molecular Networking. PMID:35621985
Application of MS-Based Metabolomic Approaches in Analysis of Starfish and Sea Cucumber Bioactive Compounds. PMID:35621972
Untargeted Metabolomic Profiling of Fungal Species Populations. PMID:35612754
A Conserved Biosynthetic Gene Cluster Is Regulated by Quorum Sensing in a Shipworm Symbiont. PMID:35611654
CFM-ID 4.0 - a web server for accurate MS-based metabolite identification. PMID:35610037
Time-related multivariate strategy for the comprehensive evaluation of microbial chemical data. PMID:35608707
Fine scale transitions of the microbiota and metabolome along the gastrointestinal tract of herbivorous fishes. PMID:35606844
Intrapopulation adaptive variance supports thermal tolerance in a reef-building coral. PMID:35589814
Surviving in the Brine: A Multi-Omics Approach for Understanding the Physiology of the Halophile Fungus Aspergillus sydowii at Saturated NaCl Concentration. PMID:35586858
Study on Secondary Metabolites of Endophytic Fungus, Aspergillus fumigatus, from Crocus sativus L. Guided byUHPLC-HRMS/MS-Based Molecular Network. PMID:35586120
Deciphering bioactive compounds of complex natural products by tandem mass spectral molecular networking combined with an aggregation-induced emission based probe. PMID:35573878
Great diversity of KSα sequences from bat-associated microbiota suggests novel sources of uncharacterized natural products. PMID:35573391
Potential Inhibitors of CYP51 Enzyme in Dermatophytes by Red Sea Soft Coral Nephthea sp.: In Silico and Molecular Networking Studies. PMID:35559152
Endophytic fungus Pseudofusicoccum stromaticum produces cyclopeptides and plant-related bioactive rotenoids. PMID:35547902
Molecular networking prospection and characterization of terpenoids and C15-acetogenins in Brazilian seaweed extracts. PMID:35547298
SIMILE enables alignment of tandem mass spectra with statistical significance. PMID:35523965
Circulating gut microbiota-related metabolites influence endothelium plaque lesion formation in ApoE knockout rats. PMID:35522651
Bioactivities and molecular networking-based elucidation of metabolites of potent actinobacterial strains isolated from the Unkeshwar geothermal springs in India. PMID:35520740
Untargeted Metabolomics Sheds Light on the Diversity of Major Classes of Secondary Metabolites in the Malpighiaceae Botanical Family. PMID:35498703
An integrated approach for structural characterization of Gui Ling Ji by traveling wave ion mobility mass spectrometry and molecular network. PMID:35481180
UHPLC-HRMS/MS on untargeted metabolomics: a case study with Copaifera (Fabaceae). PMID:35481022
The sustainable cycle of a new cacao-based bioplastic: from manufacturing to exploitable biodegradation products. PMID:35480269
Single cell mass spectrometry studies reveal metabolomic features and potential mechanisms of drug-resistant cancer cell lines. PMID:35473873
Sustainable Use of Greek Herbs By-Products, as an Alternative Source of Biologically Active Ingredients for Innovative Products. PMID:35464010
Analysis of botanicals and botanical supplements by LC-MS/MS-based molecular networking: Approaches for annotating plant metabolites and authentication. PMID:35460834
Mapping Molecular Networks within Clitoria ternatea Linn. against LPS-Induced Neuroinflammation in Microglial Cells, with Molecular Docking and In Vivo Toxicity Assessment in Zebrafish. PMID:35455463
Secondary Metabolite Variation and Bioactivities of Two Marine Aspergillus Strains in Static Co-Culture Investigated by Molecular Network Analysis and Multiple Database Mining Based on LC-PDA-MS/MS. PMID:35453264
Insights into the Chemical Diversity of Selected Fungi from the Tza Itzá Cenote of the Yucatan Peninsula. PMID:35449929
First identification, chemical analysis and pharmacological characterization of N-piperidinyl etonitazene (etonitazepipne), a recent addition to the 2-benzylbenzimidazole opioid subclass. PMID:35449307
On the Hunt for New Toxin Families Produced by a Mediterranean Strain of the Benthic Dinoflagellate Ostreopsis cf. ovata. PMID:35448843
A Novel Strategy for Unveiling Spatial Distribution Pattern of Gallotannins in Paeonia rockii and Paeonia ostii Based on LC-QTRAP-MS. PMID:35448513
Amplified Drought and Seasonal Cycle Modulate Quercus pubescens Leaf Metabolome. PMID:35448494
Antibiotic Isoflavonoids, Anthraquinones, and Pterocarpanoids from Pigeon Pea (Cajanus cajan L.) Seeds against Multidrug-Resistant Staphylococcus aureus. PMID:35448466
Discovery of New Secondary Metabolites from Marine Bacteria Hahella Based on an Omics Strategy. PMID:35447942
Biomaterials and Bioactive Natural Products from Marine Invertebrates: From Basic Research to Innovative Applications. PMID:35447892
foodMASST a mass spectrometry search tool for foods and beverages. PMID:35444218
The impact of maternal asthma on the preterm infants' gut metabolome and microbiome (MAP study). PMID:35440708
DEIMoS: An Open-Source Tool for Processing High-Dimensional Mass Spectrometry Data. PMID:35430813
Metabolic Profiling of Interspecies Interactions During Sessile Bacterial Cultivation Reveals Growth and Sporulation Induction in Paenibacillus amylolyticus in Response to Xanthomonas retroflexus. PMID:35425721
N-Acetyl-Cysteinylated Streptophenazines from Streptomyces. PMID:35422124
GNPS-Guided Discovery of Madurastatin Siderophores from the Termite-Associated Actinomadura sp. RB99. PMID:35404539
Production of Epoxyketone Peptide-Based Proteasome Inhibitors by Streptomyces sp. BRA-346: Regulation and Biosynthesis. PMID:35401454
UHPLC-MS/MS-GNPS based phytochemical investigation of Equisetum arvense L. And evaluation of cytotoxicity against human melanoma and ovarian cancer cells. PMID:35392596
Utilizing imaging mass spectrometry to analyze microbial biofilm chemical responses to exogenous compounds. PMID:35379438
Reactivity-based screening for natural product discovery. PMID:35379434
In Silico Collision Cross Section Calculations to Aid Metabolite Annotation. PMID:35378036
Microbial metabolites in the marine carbon cycle. PMID:35365785
Finding Correspondence between Metabolomic Features in Untargeted Liquid Chromatography-Mass Spectrometry Metabolomics Datasets. PMID:35360896
Networks and Graphs Discovery in Metabolomics Data Analysis and Interpretation. PMID:35350714
Antioxidant and Cytotoxic Activities of Kudzu Roots and Soy Molasses against Pediatric Tumors and Phytochemical Analysis of Isoflavones Using HPLC-DAD-ESI-HRMS. PMID:35336625
Identification of Antibacterial Sterols from Korean Wild Mushroom Daedaleopsis confragosa via Bioactivity- and LC-MS/MS Profile-Guided Fractionation. PMID:35335230
Chemical Composition of Leaves, Stem, and Roots of Peperomia pellucida (L.) Kunth. PMID:35335210
Fruity, sticky, stinky, spicy, bitter, addictive, and deadly: evolutionary signatures of metabolic complexity in the Solanaceae. PMID:35332352
Optimization of LC-MS2 Data Acquisition Parameters for Molecular Networking Applied to Marine Natural Products. PMID:35323688
A Multi-Label Classifier for Predicting the Most Appropriate Instrumental Method for the Analysis of Contaminants of Emerging Concern. PMID:35323641
Application of Feature-Based Molecular Networking for Comparative Metabolomics and Targeted Isolation of Stereoisomers from Algicolous Fungi. PMID:35323509
New Metabolites from the Marine Sponge Scopalina hapalia Collected in Mayotte Lagoon. PMID:35323485
A Nrf-2 Stimulatory Hydroxylated Cannabidiol Derivative from Hemp (Cannabis sativa). PMID:35316044
Multi-Omics-Guided Discovery of Omicsynins Produced by Streptomyces sp. 1647: Pseudo-Tetrapeptides Active Against Influenza A Viruses and Coronavirus HCoV-229E. PMID:35309096
Single cell mass spectrometry analysis of drug-resistant cancer cells: Metabolomics studies of synergetic effect of combinational treatment. PMID:35300794
Strategies to access biosynthetic novelty in bacterial genomes for drug discovery. PMID:35296832
DIAMetAlyzer allows automated false-discovery rate-controlled analysis for data-independent acquisition in metabolomics. PMID:35292629
Impact of phosphate concentration on the metabolome of biofilms of the marine bacterium Pseudoalteromonas lipolytica. PMID:35290545
Salivary bacterial signatures in depression-obesity comorbidity are associated with neurotransmitters and neuroactive dipeptides. PMID:35287577
Multi-Omics Strategies for Investigating the Microbiome in Toxicology Research. PMID:35285497
Natural product drug discovery in the artificial intelligence era. PMID:35282622
Genetic and chemical markers for authentication of three Artemisia species: A. capillaris, A. gmelinii, and A. fukudo. PMID:35271607
Combination of GC-MS Molecular Networking and Larvicidal Effect against Aedes aegypti for the Discovery of Bioactive Substances in Commercial Essential Oils. PMID:35268689
Metabolome and transcriptome related dataset for pheromone biosynthesis in an aggressive forest pest Ips typographus. PMID:35242907
Metabolome of Ceratodon purpureus (Hedw.) Brid., a cosmopolitan moss: the influence of seasonality. PMID:35239061
Metabolomics on the study of marine organisms. PMID:35235054
NP Analyst: An Open Online Platform for Compound Activity Mapping. PMID:35233454
Nigericin and Geldanamycin Are Phytotoxic Specialized Metabolites Produced by the Plant Pathogen Streptomyces sp. 11-1-2. PMID:35225656
Advances in Microbiome-Derived Solutions and Methodologies Are Founding a New Era in Skin Health and Care. PMID:35215065
Rare actinobacteria isolated from the hypersaline Ojo de Liebre Lagoon as a source of novel bioactive compounds with biotechnological potential. PMID:35213299
Antiparasitic Ovalicin Derivatives from Pseudallescheria boydii, a Mutualistic Fungus of French Guiana Termites. PMID:35208983
TransDiscovery: Discovering Biotransformation from Human Microbiota by Integrating Metagenomic and Metabolomic Data. PMID:35208194
Vertical Transfer of Metabolites Detectable from Newborn's Dried Blood Spot Samples Using UPLC-MS: A Chemometric Study. PMID:35208170
Identification of Antimycobacterial Natural Products from a Library of Marine Invertebrate Extracts. PMID:35200753
Predicting Antifouling Activity and Acetylcholinesterase Inhibition of Marine-Derived Compounds Using a Computer-Aided Drug Design Approach. PMID:35200658
Cloud-based archived metabolomics data: A resource for in-source fragmentation/annotation, meta-analysis and systems biology. PMID:35190800
Integrative OMICS Data-Driven Procedure Using a Derivatized Meta-Analysis Approach. PMID:35186042
Discovery of actinomycin L, a new member of the actinomycin family of antibiotics. PMID:35181725
Automated Annotation of Untargeted All-Ion Fragmentation LC-MS Metabolomics Data with MetaboAnnotatoR. PMID:35180347
Reproducible untargeted metabolomics workflow for exhaustive MS2 data acquisition of MS1 features. PMID:35172886
Identification of Antibacterial Metabolites from Endophytic Fungus Aspergillus fumigatus, Isolated from Albizia lucidior Leaves (Fabaceae), Utilizing Metabolomic and Molecular Docking Techniques. PMID:35164382
Chemical Characterization of Flowers and Leaf Extracts Obtained from Turnera subulata and Their Immunomodulatory Effect on LPS-Activated RAW 264.7 Macrophages. PMID:35164352
Dereplication and Quantification of Major Compounds of Convolvulus arvensis L. Extracts and Assessment of Their Effect on LPS-Activated J774 Macrophages. PMID:35164229
Gastrointestinal Stability and Cytotoxicity of Bacteriocins From Gram-Positive and Gram-Negative Bacteria: A Comparative in vitro Study. PMID:35145490
Comparative metabolomics with Metaboseek reveals functions of a conserved fat metabolism pathway in C. elegans. PMID:35145075
Developments in high-resolution mass spectrometric analyses of new psychoactive substances. PMID:35141767
Chemical Cartography Approaches to Study Trypanosomatid Infection. PMID:35129167
Differential Regulation and Production of Secondary Metabolites among Isolates of the Fungal Wheat Pathogen Zymoseptoria tritici. PMID:35108092
Comparative metabolomic analysis reveals shared and unique chemical interactions in sponge holobionts. PMID:35105377
Distinguishing the molecular diversity, nutrient content, and energetic potential of exometabolomes produced by macroalgae and reef-building corals. PMID:35101918
Aulosirazoles B and C from the Cyanobacterium Nostoc sp. UIC 10771: Analogues of an Isothiazolonaphthoquinone Scaffold that Activate Nuclear Transcription Factor FOXO3a in Ovarian Cancer Cells. PMID:35100504
A multi-omics approach unravels metagenomic and metabolic alterations of a probiotic and synbiotic additive in rainbow trout (Oncorhynchus mykiss). PMID:35094708
Multi-omics analyses of the ulcerative colitis gut microbiome link Bacteroides vulgatus proteases with disease severity. PMID:35087228
Umbu Fruit Peel as Source of Antioxidant, Antimicrobial and α-Amylase Inhibitor Compounds. PMID:35056726
Modern Approaches in the Discovery and Development of Plant-Based Natural Products and Their Analogues as Potential Therapeutic Agents. PMID:35056662
Induction of Isochromanones by Co-Cultivation of the Marine Fungus Cosmospora sp. and the Phytopathogen Magnaporthe oryzae. PMID:35054969
How Does LC/MS Compare to UV in Coffee Authentication and Determination of Antioxidant Effects? Brazilian and Middle Eastern Coffee as Case Studies. PMID:35052637
Unveiling the Chemical Diversity of the Deep-Sea Sponge Characella pachastrelloides. PMID:35049906
The Diversity, Metabolomics Profiling, and the Pharmacological Potential of Actinomycetes Isolated from the Estremadura Spur Pockmarks (Portugal). PMID:35049876
Potential Anti-Obesity, Anti-Steatosis, and Anti-Inflammatory Properties of Extracts from the Microalgae Chlorella vulgaris and Chlorococcum amblystomatis under Different Growth Conditions. PMID:35049863
Illuminating the lineage-specific diversification of resin glycoside acylsugars in the morning glory (Convolvulaceae) family using computational metabolomics. PMID:35039851
Erythrina velutina Willd. alkaloids: Piecing biosynthesis together from transcriptome analysis and metabolite profiling of seeds and leaves. PMID:35024185
Feature-Based Molecular Networks Identification of Bioactive Metabolites from Three Plants of the Polynesian Cosmetopoeia Targeting the Dermal Papilla Cells of the Hair Cycle. PMID:35011341
LC-MS Characterization and Biological Activities of Cuban Cultivars of Plectranthus neochilus Schltr. PMID:35009137
Molecular Networking for Drug Toxicities Studies: The Case of Hydroxychloroquine in COVID-19 Patients. PMID:35008505
Emergence of methicillin resistance predates the clinical use of antibiotics. PMID:34987223
18:0 Lyso PC Derived by Bioactivity-Based Molecular Networking from Lentil Mutant Lines and Its Effects on High-Fat Diet-Induced Obese Mice. PMID:34946633
Discovery of Novel Cyclic Ethers with Synergistic Antiplasmodial Activity in Combination with Valinomycin. PMID:34946577
LC-QTOF-MS/MS Based Molecular Networking Approach for the Isolation of α-Glucosidase Inhibitors and Virucidal Agents from Coccinia grandis (L.) Voigt. PMID:34945591
Metabolomics Tools Assisting Classic Screening Methods in Discovering New Antibiotics from Mangrove Actinomycetia in Leizhou Peninsula. PMID:34940687
Exploring Chemical Diversity of Phorbas Sponges as a Source of Novel Lead Compounds in Drug Discovery. PMID:34940666
Species- and Caste-Specific Gut Metabolomes in Fungus-Farming Termites. PMID:34940597
A Global Metabolic Map Defines the Effects of a Si-Based Biostimulant on Tomato Plants under Normal and Saline Conditions. PMID:34940578
Plant Copper Metalloenzymes As Prospects for New Metabolism Involving Aromatic Compounds. PMID:34925392
Streptozotocin-induced hyperglycemia alters the cecal metabolome and exacerbates antibiotic-induced dysbiosis. PMID:34910917
Mammalian gut metabolomes mirror microbiome composition and host phylogeny. PMID:34903850
A Meta-Omics Analysis Unveils the Shift in Microbial Community Structures and Metabolomics Profiles in Mangrove Sediments Treated with a Selective Actinobacterial Isolation Procedure. PMID:34885912
Chemical Diversity and Antimicrobial Potential of Cultivable Fungi from Deep-Sea Sediments of the Gulf of Mexico. PMID:34885908
Oxandrastins: Antibacterial Meroterpenes from an Australian Mud Dauber Wasp Nest-Associated Fungus, Penicillium sp. CMB-MD14. PMID:34885725
Structural and Functional Analysis of Bacterial Sulfonosphingolipids and Rosette-Inducing Factor 2 (RIF-2) by Mass Spectrometry-Guided Isolation and Total Synthesis. PMID:34863043
GNPS Dashboard: collaborative exploration of mass spectrometry data in the web browser. PMID:34862502
Siderophore-mediated zinc acquisition enhances enterobacterial colonization of the inflamed gut. PMID:34853318
Metabolites with SARS-CoV-2 Inhibitory Activity Identified from Human Microbiome Commensals. PMID:34851166
Living with a giant, flowering parasite: metabolic differences between Tetrastigma loheri Gagnep. (Vitaceae) shoots uninfected and infected with Rafflesia (Rafflesiaceae) and potential applications for propagation. PMID:34841446
Plants Metabolome Study: Emerging Tools and Techniques. PMID:34834772
Exploring the Universe of Natural Products: Recent Advances in Synthesis, Isolation and Structural Elucidation. PMID:34834731
Anti-Hyperglycemic Effects of Refined Fractions from Cyclocarya paliurus Leaves on Streptozotocin-Induced Diabetic Mice. PMID:34833980
Anti-NAFLD Effect of Djulis Hull and Its Major Compound, Rutin, in Mice with High-Fat Diet (HFD)-Induced Obesity. PMID:34829565
A restructuring of microbiome niche space is associated with Elexacaftor-Tezacaftor-Ivacaftor therapy in the cystic fibrosis lung. PMID:34824018
Human gut bacterial metabolism drives Th17 activation and colitis. PMID:34822777
Feature-Based Molecular Networking-An Exciting Tool to Spot Species of the Genus Cortinarius with Hidden Photosensitizers. PMID:34822449
Synthetic Biology Advanced Natural Product Discovery. PMID:34822443
Metabolomics and Molecular Networking to Characterize the Chemical Space of Four Momordica Plant Species. PMID:34822421
Dynamics of the Metabolome of Aliinostoc sp. PMC 882.14 in Response to Light and Temperature Variations. PMID:34822403
Advances in decomposing complex metabolite mixtures using substructure- and network-based computational metabolomics approaches. PMID:34821250
Multimodal Identification by Transcriptomics and Multiscale Bioassays of Active Components in Xuanfeibaidu Formula to Suppress Macrophage-Mediated Immune Response. PMID:34815890
Foodomics: Analytical Opportunities and Challenges. PMID:34813295
Discovery and biosynthesis of cyclic plant peptides via autocatalytic cyclases. PMID:34811516
Integrated Strategy of UHPLC-Q-TOF-MS and Molecular Networking for Identification of Diterpenoids from Euphorbia fischeriana Steud. and Prediction of the Anti-Breast-Cancer Mechanism by the Network Pharmacological Method. PMID:34804177
Native mass spectrometry-based metabolomics identifies metal-binding compounds. PMID:34795435
Physicochemical properties determining drug detection in skin. PMID:34793633
Pan-genome analysis identifies intersecting roles for Pseudomonas specialized metabolites in potato pathogen inhibition. PMID:34792466
Metabolomics and genomics in natural products research: complementary tools for targeting new chemical entities. PMID:34787623
Sustainable Hues: Exploring the Molecular Palette of Biowaste Dyes through LC-MS Metabolomics. PMID:34771057
Activation and Identification of a Griseusin Cluster in Streptomyces sp. CA-256286 by Employing Transcriptional Regulators and Multi-Omics Methods. PMID:34770989
Restorative potential of (-)-epicatechin in a rat model of Gulf War illness muscle atrophy and fatigue. PMID:34750405
Mining plant metabolomes: Methods, applications, and perspectives. PMID:34746766
Combination of Pseudo-LC-NMR and HRMS/MS-Based Molecular Networking for the Rapid Identification of Antimicrobial Metabolites From Fusarium petroliphilum. PMID:34746230
Multi-omics of human plasma reveals molecular features of dysregulated inflammation and accelerated aging in schizophrenia. PMID:34741130
Identification of Effector Metabolites Using Exometabolite Profiling of Diverse Microalgae. PMID:34726483
Functional genomics and metabolomics advance the ethnobotany of the Samoan traditional medicine "matalafi". PMID:34725148
The S Protein of Group B Streptococcus Is a Critical Virulence Determinant That Impacts the Cell Surface Virulome. PMID:34721327
Heterogeneity in the transcriptional response of the human pathogen Aspergillus fumigatus to the antifungal agent caspofungin. PMID:34718550
MS2DeepScore: a novel deep learning similarity measure to compare tandem mass spectra. PMID:34715914
Metabolite discovery through global annotation of untargeted metabolomics data. PMID:34711973
Building Natural Product Libraries Using Quantitative Clade-Based and Chemical Clustering Strategies. PMID:34698546
Defining NASH from a Multi-Omics Systems Biology Perspective. PMID:34682795
Saliniquinone Derivatives, Saliniquinones G-I and Heraclemycin E, from the Marine Animal-Derived Nocardiopsis aegyptia HDN19-252. PMID:34677474
Nerpa: A Tool for Discovering Biosynthetic Gene Clusters of Bacterial Nonribosomal Peptides. PMID:34677408
Oak Species Quercus robur L. and Quercus petraea Liebl. Identification Based on UHPLC-HRMS/MS Molecular Networks. PMID:34677399
Differential response to prey quorum signals indicates predatory specialization of myxobacteria and ability to predate Pseudomonas aeruginosa. PMID:34674390
High-coverage metabolomics uncovers microbiota-driven biochemical landscape of interorgan transport and gut-brain communication in mice. PMID:34667167
Recommendations for good practice in MS-based lipidomics. PMID:34662536
Defining the Scope of Exposome Studies and Research Needs from a Multidisciplinary Perspective. PMID:34660833
Improved broad-spectrum antibiotics against Gram-negative pathogens via darobactin biosynthetic pathway engineering. PMID:34659729
A metabolome atlas of the aging mouse brain. PMID:34654818
High-confidence structural annotation of metabolites absent from spectral libraries. PMID:34650271
Unambiguous Stereochemical Assignment of Cyclo(Phe-Pro), Cyclo(Leu-Pro), and Cyclo(Val-Pro) by Electronic Circular Dichroic Spectroscopy. PMID:34641525
Chemical Evaluation, Antioxidant, Antiproliferative, Anti-Inflammatory and Antibacterial Activities of Organic Extract and Semi-Purified Fractions of the Adriatic Sea Fan, Eunicella cavolini. PMID:34641295
Substances of emerging concern in Baltic Sea water: Review on methodological advances for the environmental assessment and proposal for future monitoring. PMID:34637089
Metabolic Fate of Dietary Glucosinolates and Their Metabolites: A Role for the Microbiome. PMID:34631775
Advancements in capturing and mining mass spectrometry data are transforming natural products research. PMID:34612288
Spatial metabolomics identifies localized chemical changes in heart tissue during chronic cardiac Chagas Disease. PMID:34606502
Neurobehavioral alternations of the female offspring born to polycystic ovary syndrome model rats administered by Chinese herbal medicine. PMID:34600579
Total Synthesis and Antimicrobial Evaluation of Pagoamide A. PMID:34595153
BiG-MAP: an Automated Pipeline To Profile Metabolic Gene Cluster Abundance and Expression in Microbiomes. PMID:34581602
Applications and Restrictions of Integrated Genomic and Metabolomic Screening: An Accelerator for Drug Discovery from Actinomycetes? PMID:34576921
Characterization of Pseudomonas aeruginosa Quorum Sensing Inhibitors from the Endophyte Lasiodiplodia venezuelensis and Evaluation of Their Antivirulence Effects by Metabolomics. PMID:34576706
Genome Analysis of Streptomyces nojiriensis JCM 3382 and Distribution of Gene Clusters for Three Antibiotics and an Azasugar across the Genus Streptomyces. PMID:34576698
Methods in Microbial Biodiscovery. PMID:34564165
Secondary Metabolites with α-Glucosidase Inhibitory Activity from Mangrove Endophytic Fungus Talaromyces sp. CY-3. PMID:34564154
Mass spectrometry-based metabolomics in microbiome investigations. PMID:34552265
Host and microbiota metabolic signals in aging and longevity. PMID:34552221
Recent Developments Toward Integrated Metabolomics Technologies (UHPLC-MS-SPE-NMR and MicroED) for Higher-Throughput Confident Metabolite Identifications. PMID:34540897
Marine dissolved organic matter: a vast and unexplored molecular space. PMID:34536106
Comparative Metabolomics of Fruits and Leaves in a Hyperdiverse Lineage Suggests Fruits Are a Key Incubator of Phytochemical Diversification. PMID:34527005
Integrating perspectives in actinomycete research: an ActinoBase review of 2020-21. PMID:34515628
Genome Mining and Molecular Networking-Based Metabolomics of the Marine Facultative Aspergillus sp. MEXU 27854. PMID:34500798
Evaluation of antimicrobial and antiproliferative activities of Actinobacteria isolated from the saline lagoons of northwestern Peru. PMID:34495972
Vision, challenges and opportunities for a Plant Cell Atlas. PMID:34491200
Tooth biomarkers to characterize the temporal dynamics of the fetal and early-life exposome. PMID:34482270
Natural products dereplication by diffusion ordered NMR spectroscopy (DOSY). PMID:34476071
Multi-Omic Analysis of Symbiotic Bacteria Associated With Aedes aegypti Breeding Sites. PMID:34475861
Intra-Ramanome Correlation Analysis Unveils Metabolite Conversion Network from an Isogenic Population of Cells. PMID:34465024
Isolation and Identification of Isocoumarin Derivatives With Specific Inhibitory Activity Against Wnt Pathway and Metabolome Characterization of Lasiodiplodia venezuelensis. PMID:34458231
Investigation of Chemical Profiles of Different Parts of Morus alba Using a Combination of Molecular Networking Methods with Mass Spectral Data from Two Ionization Modes of LC/MS. PMID:34451756
Biology and applications of co-produced, synergistic antimicrobials from environmental bacteria. PMID:34446927
Combining OSMAC Approach and Untargeted Metabolomics for the Identification of New Glycolipids with Potent Antiviral Activity Produced by a Marine Rhodococcus. PMID:34445761
Gene-Metabolite Network Analysis Revealed Tissue-Specific Accumulation of Therapeutic Metabolites in Mallotus japonicus. PMID:34445541
Influence of Amino Acid Feeding on Production of Calcimycin and Analogs in Streptomyces chartreusis. PMID:34444489
Expanding Urinary Metabolite Annotation through Integrated Mass Spectral Similarity Networking. PMID:34436864
Using Porcine Jejunum Ex Vivo to Study Absorption and Biotransformation of Natural Products in Plant Extracts: Pueraria lobata as a Case Study. PMID:34436482
An Oenothera biennis Cell Cultures Extract Endowed with Skin Anti-Ageing Activity Improves Cell Mechanical Properties. PMID:34436468
Facilitating Imaging Mass Spectrometry of Microbial Specialized Metabolites with METASPACE. PMID:34436418
A Soft Spot for Chemistry-Current Taxonomic and Evolutionary Implications of Sponge Secondary Metabolite Distribution. PMID:34436287
Insights into the Variation in Bioactivities of Closely Related Streptomyces Strains from Marine Sediments of the Visayan Sea against ESKAPE and Ovarian Cancer. PMID:34436280
Molecular Networking-Guided Isolation of New Etzionin-Type Diketopiperazine Hydroxamates from the Persian Gulf Sponge Cliona celata. PMID:34436278
Highlighting the Biotechnological Potential of Deep Oceanic Crust Fungi through the Prism of Their Antimicrobial Activity. PMID:34436250
Structures and Biological Activities of Diketopiperazines from Marine Organisms: A Review. PMID:34436242
Metabolomics for personalized medicine: the input of analytical chemistry from biomarker discovery to point-of-care tests. PMID:34432105
Comprehensive Large-Scale Integrative Analysis of Omics Data To Accelerate Specialized Metabolite Discovery. PMID:34427506
Investigating the Role of Vanadium-Dependent Haloperoxidase Enzymology in Microbial Secondary Metabolism and Chemical Ecology. PMID:34427499
Towards the sustainable discovery and development of new antibiotics. PMID:34426795
Meeting report of the fourth annual Tri-Service Microbiome Consortium symposium. PMID:34419149
Cocultivation of Anaerobic Fungi with Rumen Bacteria Establishes an Antagonistic Relationship. PMID:34399620
Impact of Artificial Sputum Medium Formulation on Pseudomonas aeruginosa Secondary Metabolite Production. PMID:34398662
Characterization of Endophytic Fungi, Acremonium sp., from Lilium davidii and Analysis of Its Antifungal and Plant Growth-Promoting Effects. PMID:34395628
Mining and Biosynthesis of Bioactive Lanthipeptides From Microorganisms. PMID:34395400
Functional genomics study of Pseudomonas putida to determine traits associated with avoidance of a myxobacterial predator. PMID:34385565
Dereplication of antimicrobial biosurfactants from marine bacteria using molecular networking. PMID:34381106
In Vitro Metabolism Study of Seongsanamide A in Human Liver Microsomes Using Non-Targeted Metabolomics and Feature-Based Molecular Networking. PMID:34371722
Current Approaches for Advancement in Understanding the Molecular Mechanisms of Mycotoxin Biosynthesis. PMID:34360643
Monitoring Cyanobacterial Blooms during the COVID-19 Pandemic in Campania, Italy: The Case of Lake Avernus. PMID:34357943
Identification and Functional Characterization of the Gene Cluster Responsible for Fusaproliferin Biosynthesis in Fusarium proliferatum. PMID:34357940
Metabolomics-Guided Elucidation of Plant Abiotic Stress Responses in the 4IR Era: An Overview. PMID:34357339
Dereplication, Annotation, and Characterization of 74 Potential Antimicrobial Metabolites from Penicillium Sclerotiorum Using t-SNE Molecular Networks. PMID:34357338
Metabolomic Characterization of a cf. Neolyngbya Cyanobacterium from the South China Sea Reveals Wenchangamide A, a Lipopeptide with In Vitro Apoptotic Potential in Colon Cancer Cells. PMID:34356822
Deep-Sea Coral Garden Invertebrates and Their Associated Fungi Are Genetic Resources for Chronic Disease Drug Discovery. PMID:34356815
Biosynthetic Potential of Streptomyces Rationalizes Genome-Based Bioprospecting. PMID:34356794
Bacterial Natural Product Drug Discovery for New Antibiotics: Strategies for Tackling the Problem of Antibiotic Resistance by Efficient Bioprospecting. PMID:34356763
Enhanced detection and annotation of small molecules in metabolomics using molecular-network-oriented parameter optimization. PMID:34355227
Apicidin biosynthesis is linked to accessory chromosomes in Fusarium poae isolates. PMID:34348672
Chemical Gradients of Plant Substrates in an Atta texana Fungus Garden. PMID:34342533
GC-TOF/MS-based metabolomics analysis to investigate the changes driven by N-Acetylcysteine in the plant-pathogen Xanthomonas citri subsp. citri. PMID:34330957
The utility of metabolomics as a tool to inform maize biology. PMID:34327322
Navigating through chemical space and evolutionary time across the Australian continent in plant genus Eremophila. PMID:34324744
A phenolic-rich extract from Ugni molinae berries reduces abnormal protein aggregation in a cellular model of Huntington's disease. PMID:34324551
Lipidomics of Environmental Microbial Communities. II: Characterization Using Molecular Networking and Information Theory. PMID:34322097
Chemical interplay and complementary adaptative strategies toggle bacterial antagonism and co-existence. PMID:34320359
Phormidepistatin from the Cyanobacterium UIC 10484: Assessing the Phylogenetic Distribution of the Statine Pharmacophore. PMID:34314586
Aspergillus fumigatus Acetate Utilization Impacts Virulence Traits and Pathogenicity. PMID:34311583
Feature-based molecular networking for identification of organic micropollutants including metabolites by non-target analysis applied to riverbank filtration. PMID:34286355
Renewed interests in the discovery of bioactive actinomycete metabolites driven by emerging technologies. PMID:34265147
Quick-start infrastructure for untargeted metabolomics analysis in GNPS. PMID:34244695
Untargeted metabolomics approach to discriminate mistletoe commercial products. PMID:34244531
Coupling proteomics and metabolomics for the unsupervised identification of protein-metabolite interactions in Chaetomium thermophilum. PMID:34242379
Insight into chemical basis of traditional Chinese medicine based on the state-of-the-art techniques of liquid chromatography-mass spectrometry. PMID:34221863
Nicotinic Acetylcholine Receptor Partial Antagonist Polyamides from Tunicates and Their Predatory Sea Slugs. PMID:34213884
Untargeted Metabolomics Approach for the Discovery of Environment-Related Pyran-2-ones Chemodiversity in a Marine-Sourced Penicillium restrictum. PMID:34210084
Antiviral Activity of Vitis vinifera Leaf Extract against SARS-CoV-2 and HSV-1. PMID:34209556
Guide to Semi-Quantitative Non-Targeted Screening Using LC/ESI/HRMS. PMID:34207787
Solid-Phase Extraction Embedded Dialysis (SPEED), an Innovative Procedure for the Investigation of Microbial Specialized Metabolites. PMID:34206861
What We Know So Far about the Metabolite-Mediated Microbiota-Intestinal Immunity Dialogue and How to Hear the Sound of This Crosstalk. PMID:34205653
In Vitro Metabolism of Donepezil in Liver Microsomes Using Non-Targeted Metabolomics. PMID:34201744
Açai (Euterpe oleracea Mart.) Seed Extract Induces ROS Production and Cell Death in MCF-7 Breast Cancer Cell Line. PMID:34200718
Promising Activities of Marine Natural Products against Hematopoietic Malignancies. PMID:34198841
Intermittent Hypoxia and Hypercapnia Alter Diurnal Rhythms of Luminal Gut Microbiome and Metabolome. PMID:34184915
Acaricidal Activity of Annonaceae Plants for Dermanyssus gallinae (Acari: Dermanyssidae) and Metabolomic Profile by HPLC-MS/MS. PMID:34184236
Large-scale tandem mass spectrum clustering using fast nearest neighbor searching. PMID:34169593
Ion identity molecular networking for mass spectrometry-based metabolomics in the GNPS environment. PMID:34158495
A metabolomic study of Gomphrena agrestis in Brazilian Cerrado suggests drought-adaptive strategies on metabolism. PMID:34155311
Two Distinct Bacterial Biofilm Components Trigger Metamorphosis in the Colonial Hydrozoan Hydractinia echinata. PMID:34154406
New Micropeptins with Anti-Neuroinflammatory Activity Isolated from a Cyanobacterial Bloom. PMID:34151125
Bio-Guided Fractionation and Molecular Networking Reveal Fatty Acids to Be Principal Anti-Parasitic Compounds in Nordic Seaweeds. PMID:34149425
Discovery of Surfactins as Inhibitors of MicroRNA Processing Using Cat-ELCCA. PMID:34141065
MolDiscovery: learning mass spectrometry fragmentation of small molecules. PMID:34140479
Metabolites as predictive biomarkers for Trypanosoma cruzi exposure in triatomine bugs. PMID:34136103
Metabolic Profiling of Rhizobacteria Serratia plymuthica and Bacillus subtilis Revealed Intra- and Interspecific Differences and Elicitation of Plipastatins and Short Peptides Due to Co-cultivation. PMID:34135882
Mining genomes to illuminate the specialized chemistry of life. PMID:34083778
Synergistic Effect of Mandarin Peels and Hesperidin with Sodium Nitrite against Some Food Pathogen Microbes. PMID:34073447
Advances in the Study of Metabolomics and Metabolites in Some Species Interactions. PMID:34072976
Mining Indonesian Microbial Biodiversity for Novel Natural Compounds by a Combined Genome Mining and Molecular Networking Approach. PMID:34071728
Molecular Networking Leveraging the Secondary Metabolomes Space of Halophila stipulaceae (Forsk.) Aschers. and Thalassia hemprichii (Ehrenb. ex Solms) Asch. in Tandem with Their Chemosystematics and Antidiabetic Potentials. PMID:34069768
Constituents of Chamaecrista diphylla (L.) Greene Leaves with Potent Antioxidant Capacity: A Feature-Based Molecular Network Dereplication Approach. PMID:34068527
Dysregulation of Glycerophosphocholines in the Cutaneous Lesion Caused by Leishmania major in Experimental Murine Models. PMID:34068119
Aloe djiboutiensis: Antioxidant Activity, Molecular Networking-Based Approach and In Vivo Toxicity of This Endemic Species in Djibouti. PMID:34065292
Antiproliferative activity of Syzygium coriaceum, an endemic plant of Mauritius, with its UPLC-MS metabolite fingerprint: A mechanistic study. PMID:34061874
MetFish: a Metabolomics Pipeline for Studying Microbial Communities in Chemically Extreme Environments. PMID:34061574
Synthetic biology approaches to actinomycete strain improvement. PMID:34057181
Genomic and Metabolomic Analysis of the Potato Common Scab Pathogen Streptomyces scabiei. PMID:34056303
Integrating genomics and metabolomics for scalable non-ribosomal peptide discovery. PMID:34050176
GNPS-guided discovery of xylacremolide C and D, evaluation of their putative biosynthetic origin and bioactivity studies of xylacremolide A and B. PMID:34046176
Biocatalytic synthesis of peptidic natural products and related analogues. PMID:34041453
Small in size, big on taste: Metabolomics analysis of flavor compounds from Philippine garlic. PMID:34014935
A general non-self response as part of plant immunity. PMID:34007033
Synergizing the potential of bacterial genomics and metabolomics to find novel antibiotics. PMID:33995996
Nocathioamides, Uncovered by a Tunable Metabologenomic Approach, Define a Novel Class of Chimeric Lanthipeptides. PMID:33991039
antiSMASH 6.0: improving cluster detection and comparison capabilities. PMID:33978755
Ultra-high-performance liquid chromatography high-resolution mass spectrometry variants for metabolomics research. PMID:33972782
TOMATOMET: A metabolome database consists of 7118 accurate mass values detected in mature fruits of 25 tomato cultivars. PMID:33969254
Metabolomic fingerprinting of Brazilian marine sponges: a case study of Plakinidae species from Fernando de Noronha Archipelago. PMID:33963881
Marine Community Metabolomes Carry Fingerprints of Phytoplankton Community Composition. PMID:33947800
Feature-Based Molecular Network-Guided Dereplication of Natural Bioactive Products from Leaves of Stryphnodendron pulcherrimum (Willd.) Hochr. PMID:33946668
Ranking microbial metabolomic and genomic links in the NPLinker framework using complementary scoring functions. PMID:33945539
Multiple lineages of Streptomyces produce antimicrobials within passalid beetle galleries across eastern North America. PMID:33942718
Heterologous production of cyanobacterial compounds. PMID:33928376
Two Origins, Two Functions: The Discovery of Distinct Secretory Ducts Formed during the Primary and Secondary Growth in Kielmeyera. PMID:33925319
Specialized Metabolites from Ribosome Engineered Strains of Streptomyces clavuligerus. PMID:33924621
An Integrated-Omics/Chemistry Approach Unravels Enzymatic and Spontaneous Steps to Form Flavoalkaloidal Nudicaulin Pigments in Flowers of Papaver nudicaule L. PMID:33923591
Lipidomics-Based Comparison of Molecular Compositions of Green, Yellow, and Red Bell Peppers. PMID:33919953
Integrated Omics Strategy Reveals Cyclic Lipopeptides Empedopeptins from Massilia sp. YMA4 and Their Biosynthetic Pathway. PMID:33918939
Genomic and Metabolomic Investigation of a Rhizosphere Isolate Streptomyces netropsis WLXQSS-4 Associated with a Traditional Chinese Medicine. PMID:33917975
Anaerobic gut fungi are an untapped reservoir of natural products. PMID:33906945
Disrupting quorum sensing alters social interactions in Chromobacterium violaceum. PMID:33888726
Heterologous expression of a putative ClpC chaperone gene leads to induction of a host metabolite. PMID:33859447
Repository scale classification and decomposition of tandem mass spectral data. PMID:33859284
Assessment of the microbiome during bacteriophage therapy in combination with systemic antibiotics to treat a case of staphylococcal device infection. PMID:33853672
Marinoterpins A-C: Rare Linear Merosesterterpenoids from Marine-Derived Actinomycete Bacteria of the Family Streptomycetaceae. PMID:33844925
Alterations to the Cardiac Metabolome Induced by Chronic T. cruzi Infection Relate to the Degree of Cardiac Pathology. PMID:33843195
The History of Gene Hunting in Hereditary Spinocerebellar Degeneration: Lessons From the Past and Future Perspectives. PMID:33833777
A strategy combining solid-phase extraction, multiple mass defect filtering and molecular networking for rapid structural classification and annotation of natural products: characterization of chemical diversity in Citrus aurantium as a case study. PMID:33822260
New Polyketides from the Antarctic Fungus Pseudogymnoascus sp. HSX2#-11. PMID:33809861
Dilignans with a Chromanol Motif Discovered by Molecular Networking from the Stem Barks of Magnolia obovata and Their Proprotein Convertase Subtilisin/Kexin Type 9 Expression Inhibitory Activity. PMID:33808894
Phytochemical Profiling of Lavandula coronopifolia Poir. Aerial Parts Extract and Its Larvicidal, Antibacterial, and Antibiofilm Activity Against Pseudomonas aeruginosa. PMID:33808553
Untargeted Metabolomics Analysis by UHPLC-MS/MS of Soybean Plant in a Compatible Response to Phakopsora pachyrhizi Infection. PMID:33808519
Coupling Mass Spectral and Genomic Information to Improve Bacterial Natural Product Discovery Workflows. PMID:33807702
Untargeted In Silico Compound Classification-A Novel Metabolomics Method to Assess the Chemodiversity in Bryophytes. PMID:33806786
A Molecular Networking Strategy: High-Throughput Screening and Chemical Analysis of Brazilian Cerrado Plant Extracts against Cancer Cells. PMID:33804755
Inhibition of Intestinal Lipid Absorption by Cyanobacterial Strains in Zebrafish Larvae. PMID:33803803
Does the Phytochemical Diversity of Wild Plants Like the Erythrophleum genus Correlate with Geographical Origin? PMID:33802747
A Metabolomics and Molecular Networking Approach to Elucidate the Structures of Secondary Metabolites Produced by Serratia marcescens Strains. PMID:33796505
Small Molecule Analysis of Extracellular Vesicles Produced by Cryptococcus gattii: Identification of a Tripeptide Controlling Cryptococcal Infection in an Invertebrate Host Model. PMID:33796117
Single-Cell Metabolomics by Mass Spectrometry Imaging. PMID:33791975
Bioprospecting of Soil-Derived Actinobacteria Along the Alar-Hotan Desert Highway in the Taklamakan Desert. PMID:33790875
Rapid Development of Improved Data-Dependent Acquisition Strategies. PMID:33784814
Development of an NMR-Based Platform for the Direct Structural Annotation of Complex Natural Products Mixtures. PMID:33750122
A multi-omic characterization of temperature stress in a halotolerant Scenedesmus strain for algal biotechnology. PMID:33712730
Blocks in the pseudouridimycin pathway unlock hidden metabolites in the Streptomyces producer strain. PMID:33712632
Small-molecule mimicry hunting strategy in the imperial cone snail, Conus imperialis. PMID:33712468
Discovery of Cymopolyphenols A-F From a Marine Mesophotic Zone Aaptos Sponge-Associated Fungus Cymostachys sp. NBUF082. PMID:33692772
A Small Molecule Coordinates Symbiotic Behaviors in a Host Organ. PMID:33688014
Maize specialized metabolome networks reveal organ-preferential mixed glycosides. PMID:33680356
Comparative Analyses of Phytochemical Variation Within and Between Congeneric Species of Willow Herb, Epilobium hirsutum and E. parviflorum: Contribution of Environmental Factors. PMID:33679815
Biodiversity and antimicrobial potential of bacterial endophytes from halophyte Salicornia brachiata. PMID:33674993
Chemical Elicitors Induce Rare Bioactive Secondary Metabolites in Deep-Sea Bacteria under Laboratory Conditions. PMID:33673148
Ranking Metabolite Sets by Their Activity Levels. PMID:33670102
Targeted Isolation of Xenicane Diterpenoids from Taiwanese Soft Coral Asterospicularia laurae. PMID:33669051
Genome-guided investigation of secondary metabolites produced by a potential new strain Streptomyces BA2 isolated from an endemic plant rhizosphere in Turkey. PMID:33666690
Interlaboratory Comparison of Untargeted Mass Spectrometry Data Uncovers Underlying Causes for Variability. PMID:33666420
Spatially Resolved Mass Spectrometry at the Single Cell: Recent Innovations in Proteomics and Metabolomics. PMID:33656885
Metabolite profile of Nectandra oppositifolia Nees & Mart. and assessment of antitrypanosomal activity of bioactive compounds through efficiency analyses. PMID:33630860
Specific inactivation of an antifungal bacterial siderophore by a fungal plant pathogen. PMID:33619352
Identification of compounds responsible for the anthelmintic effects of chicory (Cichorium intybus) by molecular networking and bio-guided fractionation. PMID:33618233
Effective approaches to discover new microbial metabolites in a large strain library. PMID:33599744
Discovery of Cyanobacterial Natural Products Containing Fatty Acid Residues*. PMID:33599093
Tiny Earth: A Big Idea for STEM Education and Antibiotic Discovery. PMID:33593964
Spec2Vec: Improved mass spectral similarity scoring through learning of structural relationships. PMID:33591968
A community resource for paired genomic and metabolomic data mining. PMID:33589842
Inducing secondary metabolite production of Aspergillus sydowii through microbial co-culture with Bacillus subtilis. PMID:33579268
Molecular Identification of Endophytic Bacteria in Leucojum aestivum In Vitro Culture, NMR-Based Metabolomics Study and LC-MS Analysis Leading to Potential Amaryllidaceae Alkaloid Production. PMID:33578992
Comparative Metabologenomics Analysis of Polar Actinomycetes. PMID:33578887
Chemical and Pharmacological Potential of Coccoloba cowellii, an Endemic Endangered Plant from Cuba. PMID:33578815
Triaging of Culture Conditions for Enhanced Secondary Metabolite Diversity from Different Bacteria. PMID:33573182
New from Old: Thorectandrin Alkaloids in a Southern Australian Marine Sponge, Thorectandra choanoides (CMB-01889). PMID:33572064
Untargeted analysis of first trimester serum to reveal biomarkers of pregnancy complications: a case-control discovery phase study. PMID:33568690
Phytotoxic Tryptoquialanines Produced In Vivo by Penicillium digitatum Are Exported in Extracellular Vesicles. PMID:33563828
Metabolomic signatures of coral bleaching history. PMID:33558733
Genomic scanning enabling discovery of a new antibacterial bicyclic carbamate-containing alkaloid. PMID:33553705
Exploring the Chemical Space of Macro- and Micro-Algae Using Comparative Metabolomics. PMID:33546180
Identification of a solo acylhomoserine lactone synthase from the myxobacterium Archangium gephyra. PMID:33542315
Anti-Infective and Antiviral Activity of Valinomycin and Its Analogues from a Sea Cucumber-Associated Bacterium, Streptomyces sp. SV 21. PMID:33540548
The Sandarazols are Cryptic and Structurally Unique Plasmid-Encoded Toxins from a Rare Myxobacterium*. PMID:33534143
Multiomics Analysis Provides Insight into the Laboratory Evolution of Escherichia coli toward the Metabolic Usage of Fluorinated Indoles. PMID:33532571
Deciphering Human Microbiota-Host Chemical Interactions. PMID:33532566
The Three Pillars of Natural Product Dereplication. Alkaloids from the Bulbs of Urceolina peruviana (C. Presl) J.F. Macbr. as a Preliminary Test Case. PMID:33530604
Unlocking the Diversity of Pyrroloiminoquinones Produced by Latrunculid Sponge Species. PMID:33525412
Synergistic Effects of Cryptotanshinone and Senkyunolide I in Guanxinning Tablet Against Endogenous Thrombus Formation in Zebrafish. PMID:33519488
Studying Autism Using Untargeted Metabolomics in Newborn Screening Samples. PMID:33515432
Isolation and characterization of arsenic-binding siderophores from Rhodococcus erythropolis S43: role of heterobactin B and other heterobactin variants. PMID:33511442
Involvement of Muscarinic Receptors in Hypotensive and Diuretic Effects of Aqueous Soluble Fraction from Asphodelus tenuifolius Cav. PMID:33510806
Natural products in drug discovery: advances and opportunities. PMID:33510482
UPLC-ESI-MRM/MS for Absolute Quantification and MS/MS Structural Elucidation of Six Specialized Pyranonaphthoquinone Metabolites From Ventilago harmandiana. PMID:33505413
Planomonospora: A Metabolomics Perspective on an Underexplored Actinobacteria Genus. PMID:33496580
Polyphenols as promising biologically active substances for preventing SARS-CoV-2: A review with research evidence and underlying mechanisms. PMID:33495727
Profiling of antimicrobial metabolites of plant growth promoting Pseudomonas spp. isolated from different plant hosts. PMID:33489669
Effects of Immunization With the Soil-Derived Bacterium Mycobacterium vaccae on Stress Coping Behaviors and Cognitive Performance in a "Two Hit" Stressor Model. PMID:33469429
A Practical Guide to Metabolomics Software Development. PMID:33467846
Non-targeted tandem mass spectrometry enables the visualization of organic matter chemotype shifts in coastal seawater. PMID:33460888
In vitro and in vivo anti-inflammatory activity and chemical composition of Renealmia petasites Gagnep. PMID:33452968
Activation, Structure, Biosynthesis and Bioactivity of Glidobactin-like Proteasome Inhibitors from Photorhabdus laumondii. PMID:33452852
Bioactive diterpenoids impact the composition of the root-associated microbiome in maize (Zea mays). PMID:33431904
Spatial and evolutionary predictability of phytochemical diversity. PMID:33431671
Review on natural products databases: where to find data in 2020. PMID:33431011
COCONUT online: Collection of Open Natural Products database. PMID:33423696
Thioesterase-mediated side chain transesterification generates potent Gq signaling inhibitor FR900359. PMID:33420046
A Multi-Omics Characterization of the Natural Product Potential of Tropical Filamentous Marine Cyanobacteria. PMID:33418911
Genomics- and Metabolomics-Based Investigation of the Deep-Sea Sediment-Derived Yeast, Rhodotorula mucilaginosa 50-3-19/20B. PMID:33396687
Seeing the forest for the trees: Retrieving plant secondary biochemical pathways from metabolome networks. PMID:33384856
Discovery of Urinary Biomarkers of Seaweed Intake Using Untargeted LC-MS Metabolomics in a Three-Way Cross-Over Human Study. PMID:33379223
Diversity, Bioactivity Profiling and Untargeted Metabolomics of the Cultivable Gut Microbiota of Ciona intestinalis. PMID:33374243
State of the Field in Multi-Omics Research: From Computational Needs to Data Mining and Sharing. PMID:33362867
A Mass Spectrometry Based Metabolite Profiling Workflow for Selecting Abundant Specific Markers and Their Structurally Related Multi-Component Signatures in Traditional Chinese Medicine Multi-Herb Formulae. PMID:33362543
Exometabolite Dynamics over Stationary Phase Reveal Strain-Specific Responses. PMID:33361318
Comparative Microbiome and Metabolome Analyses of the Marine Tunicate Ciona intestinalis from Native and Invaded Habitats. PMID:33348696
Metabolomic study of marine Streptomyces sp.: Secondary metabolites and the production of potential anticancer compounds. PMID:33347500
Molecular Networking: A Useful Tool for the Identification of New Psychoactive Substances in Seizures by LC-HRMS. PMID:33324608
Chemical Ecology of Streptomyces albidoflavus Strain A10 Associated with Carpenter Ant Camponotus vagus. PMID:33316994
Elucidation of Gut Microbiota-Associated Lipids Using LC-MS/MS and 16S rRNA Sequence Analyses. PMID:33313490
Side-stream products of malting: a neglected source of phytochemicals. PMID:33311514
Tackling Pseudomonas aeruginosa Virulence by Mulinane-Like Diterpenoids from Azorella atacamensis. PMID:33276611
Recent developments of tools for genome and metabolome studies in basidiomycete fungi and their application to natural product research. PMID:33268478
Mapping choline metabolites in normal and transformed cells. PMID:33249526
Probabilistic framework for integration of mass spectrum and retention time information in small molecule identification. PMID:33244585
Systematic classification of unknown metabolites using high-resolution fragmentation mass spectra. PMID:33230292
An Integrated Strategy for the Detection, Dereplication, and Identification of DNA-Binding Biomolecules from Complex Natural Product Mixtures. PMID:33226219
Evaluation of Different Tandem MS Acquisition Modes to Support Metabolite Annotation in Human Plasma Using Ultra High-Performance Liquid Chromatography High-Resolution Mass Spectrometry for Untargeted Metabolomics. PMID:33203160
Efficiency of Hydroxycinnamic Phenolic Acids to Inhibit the Production of Ochratoxin A by Aspergillus westerdijkiae and Penicillium verrucosum. PMID:33202726
Chemically informed analyses of metabolomics mass spectrometry data with Qemistree. PMID:33199911
New insights into quetiapine metabolism using molecular networking. PMID:33199804
Identification and dereplication of endophytic Colletotrichum strains by MALDI TOF mass spectrometry and molecular networking. PMID:33188275
Fungal-bacterial interaction selects for quorum sensing mutants with increased production of natural antifungal compounds. PMID:33184402
Selection of sponge-associated bacteria with high potential for the production of antibacterial compounds. PMID:33184304
Heterologous Expression of Cryptomaldamide in a Cyanobacterial Host. PMID:33180461
Chemical Profiling Provides Insights into the Metabolic Machinery of Hydrocarbon-Degrading Deep-Sea Microbes. PMID:33172970
Auto-deconvolution and molecular networking of gas chromatography-mass spectrometry data. PMID:33169034
Culture-Dependent Microbiome of the Ciona intestinalis Tunic: Isolation, Bioactivity Profiling and Untargeted Metabolomics. PMID:33167375
Mining Public Mass Spectrometry Data to Characterize the Diversity and Ubiquity of P. aeruginosa Specialized Metabolites. PMID:33167332
Ethnobotany and the Role of Plant Natural Products in Antibiotic Drug Discovery. PMID:33164487
A Polyphenols-Rich Extract from Moricandia sinaica Boiss. Exhibits Analgesic, Anti-Inflammatory and Antipyretic Activities In Vivo. PMID:33143247
Diversity and Bioactive Potential of Actinobacteria Isolated from a Coastal Marine Sediment in Northern Portugal. PMID:33143202
Macroalgae Sargassum cristaefolium Extract Inhibits Proinflammatory Cytokine Expression in BALB/C Mice. PMID:33101756
Screening Fungal Endophytes Derived from Under-Explored Egyptian Marine Habitats for Antimicrobial and Antioxidant Properties in Factionalised Textiles. PMID:33096635
Chemical Space Charting of Different Parts of Inula nervosa Wall.: Upregulation of Expression of Nrf2 and Correlated Antioxidants Enzymes. PMID:33086565
Rapid Preparation of a Large Sulfated Metabolite Library for Structure Validation in Human Samples. PMID:33081284
Applying a Chemogeographic Strategy for Natural Product Discovery from the Marine Cyanobacterium Moorena bouillonii. PMID:33066480
Feature-Based Molecular Networking to Target the Isolation of New Caffeic Acid Esters from Yacon (Smallanthus sonchifolius, Asteraceae). PMID:33066019
Metabolites from Microbes Isolated from the Skin of the Panamanian Rocket Frog Colostethus panamansis (Anura: Dendrobatidae). PMID:33065987
Modular metabolite assembly in Caenorhabditis elegans depends on carboxylesterases and formation of lysosome-related organelles. PMID:33063667
Deep Interrogation of Metabolism Using a Pathway-Targeted Click-Chemistry Approach. PMID:33053303
StreptomeDB 3.0: an updated compendium of streptomycetes natural products. PMID:33051671
Reduced Independence in Daily Living Is Associated with the Gut Microbiome in People with HIV and HCV. PMID:33051377
Gastrointestinal Surgery for Inflammatory Bowel Disease Persistently Lowers Microbiome and Metabolome Diversity. PMID:33026068
Evaluating Organism-Wide Changes in the Metabolome and Microbiome following a Single Dose of Antibiotic. PMID:33024048
Mapping metabolic oscillations during cell cycle progression. PMID:33016215
Structure elucidation of the redox cofactor mycofactocin reveals oligo-glycosylation by MftF. PMID:33014324
BiG-FAM: the biosynthetic gene cluster families database. PMID:33010170
Depression in Individuals Coinfected with HIV and HCV Is Associated with Systematic Differences in the Gut Microbiome and Metabolome. PMID:32994287
Hetiamacin E and F, New Amicoumacin Antibiotics from Bacillus subtilis PJS Using MS/MS-Based Molecular Networking. PMID:32992672
Insights on the Structural and Metabolic Resistance of Potato (Solanum tuberosum) Cultivars to Tuber Black Dot (Colletotrichum coccodes). PMID:32973846
UHPLC-ESI-QTOF-MS/MS-Based Molecular Networking Guided Isolation and Dereplication of Antibacterial and Antifungal Constituents of Ventilago denticulata. PMID:32942771
Gestational age-dependent development of the neonatal metabolome. PMID:32942288
The Impact of Plasma Membrane Lipid Composition on Flagellum-Mediated Adhesion of Enterohemorrhagic Escherichia coli. PMID:32938696
Leveraging orthogonal mass spectrometry based strategies for comprehensive sequencing and characterization of ribosomal antimicrobial peptide natural products. PMID:32929442
Potential use of polyphenols in the battle against COVID-19. PMID:32923374
Skin Microbiome and its Interplay with the Environment. PMID:32910439
Artificial Intelligence to Decode Cancer Mechanism: Beyond Patient Stratification for Precision Oncology. PMID:32903628
Concanamycin A counteracts HIV-1 Nef to enhance immune clearance of infected primary cells by cytotoxic T lymphocytes. PMID:32900948
Genome Mining, Microbial Interactions, and Molecular Networking Reveals New Dibromoalterochromides from Strains of Pseudoalteromonas of Coiba National Park-Panama. PMID:32899199
Mortality Risk Profiling of Staphylococcus aureus Bacteremia by Multi-omic Serum Analysis Reveals Early Predictive and Pathogenic Signatures. PMID:32888495
Comprehensive Metabolome Analysis of Fermented Aqueous Extracts of Viscum album L. by Liquid Chromatography-High Resolution Tandem Mass Spectrometry. PMID:32887375
Chemical novelty facilitates herbivore resistance and biological invasions in some introduced plant species. PMID:32884656
Molecular Network and Culture Media Variation Reveal a Complex Metabolic Profile in Pantoea cf. eucrina D2 Associated with an Acidified Marine Sponge. PMID:32878176
Food Phenotyping: Recording and Processing of Non-Targeted Liquid Chromatography Mass Spectrometry Data for Verifying Food Authenticity. PMID:32878155
Insight into Unprecedented Diversity of Cyanopeptides in Eutrophic Ponds Using an MS/MS Networking Approach. PMID:32878042
New Tricks with an Old Sponge: Feature-Based Molecular Networking Led to Fast Identification of New Stylissamide L from Stylissa caribica. PMID:32867085
Ion mobility collision cross-section atlas for known and unknown metabolite annotation in untargeted metabolomics. PMID:32859911
Microbial natural product databases: moving forward in the multi-omics era. PMID:32856641
Who Is Metabolizing What? Discovering Novel Biomolecules in the Microbiome and the Organisms Who Make Them. PMID:32850487
Feature-based molecular networking in the GNPS analysis environment. PMID:32839597
Discovery of Unusual Cyanobacterial Tryptophan-Containing Anabaenopeptins by MS/MS-Based Molecular Networking. PMID:32825321
Microbe-Metabolite Associations Linked to the Rebounding Murine Gut Microbiome Postcolonization with Vancomycin-Resistant Enterococcus faecium. PMID:32817384
ReDU: a framework to find and reanalyze public mass spectrometry data. PMID:32807955
Characterization of Anti-Inflammatory and Antioxidant Constituents from Scutellaria baicalensis Using LC-MS Coupled with a Bioassay Method. PMID:32784835
Mass spectrometry imaging as a potential technique for diagnostic of Huanglongbing disease using fast and simple sample preparation. PMID:32778716
Mapping of host-parasite-microbiome interactions reveals metabolic determinants of tropism and tolerance in Chagas disease. PMID:32766448
From Persian Gulf to Indonesia: interrelated phylogeographic distance and chemistry within the genus Peronia (Onchidiidae, Gastropoda, Mollusca). PMID:32747696
Fecal Metabolites As Non-Invasive Biomarkers of Gut Diseases. PMID:32742723
From Ocean to Medicine: Pharmaceutical Applications of Metabolites from Marine Bacteria. PMID:32731464
Genome mining strategies for ribosomally synthesised and post-translationally modified peptides. PMID:32728407
Combined MS/MS-NMR Annotation Guided Discovery of Iris lactea var. chinensis Seed as a Source of Viral Neuraminidase Inhibitory Polyphenols. PMID:32722555
Comprehensive GCMS and LC-MS/MS Metabolite Profiling of Chlorella vulgaris. PMID:32709006
Integrating Molecular Networking and 1H NMR Spectroscopy for Isolation of Bioactive Metabolites from the Persian Gulf Sponge Axinella sinoxea. PMID:32708620
hcapca: Automated Hierarchical Clustering and Principal Component Analysis of Large Metabolomic Datasets in R. PMID:32708222
Virulence as a Side Effect of Interspecies Interaction in Vibrio Coral Pathogens. PMID:32694137
Antibacterial Potential of Secondary Metabolites from Indonesian Marine Bacterial Symbionts. PMID:32676116
Bactericidal Effect of Entomopathogenic Bacterium Pseudomonas entomophila Against Xanthomonas citri Reduces Citrus Canker Disease Severity. PMID:32670251
On the Risks of Phylogeny-Based Strain Prioritization for Drug Discovery: Streptomyces lunaelactis as a Case Study. PMID:32664387
Molecular networking aided metabolomic profiling of beet leaves using three extraction solvents and in relation to its anti-obesity effects. PMID:32637174
Integration of molecular networking and fingerprint analysis for studying constituents in Microctis Folium. PMID:32634169
Isolation and characterization of plant growth-promoting endophytic bacteria Bacillus stratosphericus LW-03 from Lilium wardii. PMID:32612899
Novel South African Rare Actinomycete Kribbella speibonae Strain SK5: A Prolific Producer of Hydroxamate Siderophores Including New Dehydroxylated Congeners. PMID:32610457
Targeted Isolation of Rubrolides from the New Zealand Marine Tunicate Synoicum kuranui. PMID:32605132
Metabolomic and Gene Expression Studies Reveal the Diversity, Distribution and Spatial Regulation of the Specialized Metabolism of Yacón (Smallanthus sonchifolius, Asteraceae). PMID:32604977
Metabolomics of Myrcia bella Populations in Brazilian Savanna Reveals Strong Influence of Environmental Factors on Its Specialized Metabolism. PMID:32604974
High-Resolution Longitudinal Dynamics of the Cystic Fibrosis Sputum Microbiome and Metabolome through Antibiotic Therapy. PMID:32576651
Surface sensing triggers a broad-spectrum antimicrobial response in Pseudomonas aeruginosa. PMID:32573899
Advances in actinomycete research: an ActinoBase review of 2019. PMID:32558638
Metabolomics as an Emerging Tool in the Search for Astrobiologically Relevant Biomarkers. PMID:32551936
A Metabolomics Exploration of the Sexual Phase in the Marine Diatom Pseudo-nitzschia multistriata. PMID:32545923
Bioactive Molecular Networking for Mapping the Antimicrobial Constituents of the Baltic Brown Alga Fucus vesiculosus. PMID:32545808
Machine Learning Applications for Mass Spectrometry-Based Metabolomics. PMID:32545768
Identification of the Biosynthetic Gene Cluster of Thermoactinoamides and Discovery of New Congeners by Integrated Genome Mining and MS-Based Molecular Networking. PMID:32528927
Personalized Mapping of Drug Metabolism by the Human Gut Microbiome. PMID:32526207
Corynanthean-Epicatechin Flavoalkaloids from Corynanthe pachyceras. PMID:32517373
Molecular Network-Guided Alkaloid Profiling of Aerial Parts of Papaver nudicaule L. Using LC-HRMS. PMID:32517053
Wood Metabolomic Responses of Wild and Cultivated Grapevine to Infection with Neofusicoccum parvum, a Trunk Disease Pathogen. PMID:32512855
Xenometabolite signatures in the UC Davis type 2 diabetes mellitus rat model revealed using a metabolomics platform enriched with microbe-derived metabolites. PMID:32508155
Data on metal-chelating, -immobilisation and biosorption properties by Gordonia rubripertincta CWB2 in dependency on rare earth adaptation. PMID:32490092
Comparative Genomics and Metabolomics in the Genus Nocardia. PMID:32487740
Lipid Annotation by Combination of UHPLC-HRMS (MS), Molecular Networking, and Retention Time Prediction: Application to a Lipidomic Study of In Vitro Models of Dry Eye Disease. PMID:32486009
Targeted Discovery of Tetrapeptides and Cyclic Polyketide-Peptide Hybrids from a Fungal Antagonist of Farming Termites. PMID:32470183
Insights into the Metabolome of the Cyanobacterium Leibleinia gracilis from the Lagoon of Tahiti and First Inspection of Its Variability. PMID:32456338
Mining the Biosynthetic Potential for Specialized Metabolism of a Streptomyces Soil Community. PMID:32456220
A Fast and Memory-Efficient Spectral Library Search Algorithm Using Locality-Sensitive Hashing. PMID:32415809
Reproducible molecular networking of untargeted mass spectrometry data using GNPS. PMID:32405051
The Serratia marcescens Siderophore Serratiochelin Is Necessary for Full Virulence during Bloodstream Infection. PMID:32393508
MetaboAnalystR 3.0: Toward an Optimized Workflow for Global Metabolomics. PMID:32392884
The omics discovery REST interface. PMID:32374843
Chemical composition and pharmacological mechanism of Qingfei Paidu Decoction and Ma Xing Shi Gan Decoction against Coronavirus Disease 2019 (COVID-19): In silico and experimental study. PMID:32360484
Genomic and Metabolomic Analysis of Antarctic Bacteria Revealed Culture and Elicitation Conditions for the Production of Antimicrobial Compounds. PMID:32349314
A Genomic Toolkit for the Mechanistic Dissection of Intractable Human Gut Bacteria. PMID:32348781
Commensal Oral Rothia mucilaginosa Produces Enterobactin, a Metal-Chelating Siderophore. PMID:32345739
An affinity chromatography and glycoproteomics workflow to profile the chondroitin sulfate proteoglycans that interact with malarial VAR2CSA in the placenta and in cancer. PMID:32337544
Biological Filtering and Substrate Promiscuity Prediction for Annotating Untargeted Metabolomics. PMID:32326153
Towards Predicting Gut Microbial Metabolism: Integration of Flux Balance Analysis and Untargeted Metabolomics. PMID:32316423
High-resolution tandem mass spectrometry dataset reveals fragmentation patterns of cardiac glycosides in leaves of the foxglove plants. PMID:32300626
A Multi-Omics Analysis Suggests Links Between the Differentiated Surface Metabolome and Epiphytic Microbiota Along the Thallus of a Mediterranean Seaweed Holobiont. PMID:32269559
Hierarchical clustering of MS/MS spectra from the firefly metabolome identifies new lucibufagin compounds. PMID:32269256
Metabolomics Benefits from Orbitrap GC-MS-Comparison of Low- and High-Resolution GC-MS. PMID:32260407
Screening Immunoactive Compounds of Ganoderma lucidum Spores by Mass Spectrometry Molecular Networking Combined With in vivo Zebrafish Assays. PMID:32256359
Nematode-Trapping Fungi Produce Diverse Metabolites during Predator-Prey Interaction. PMID:32245081
Palstimolide A: A Complex Polyhydroxy Macrolide with Antiparasitic Activity. PMID:32244512
The hidden enzymology of bacterial natural product biosynthesis. PMID:32232178
National Cancer Institute (NCI) Program for Natural Products Discovery: Rapid Isolation and Identification of Biologically Active Natural Products from the NCI Prefractionated Library. PMID:32223208
Inducible Antibacterial Activity in the Bacillales by Triphenyl Tetrazolium Chloride. PMID:32221330
Enhanced Characterization of Drug Metabolism and the Influence of the Intestinal Microbiome: A Pharmacokinetic, Microbiome, and Untargeted Metabolomics Study. PMID:32216086
Salt Shock Responses of Microcystis Revealed through Physiological, Transcript, and Metabolomic Analyses. PMID:32197406
Isolation and Characterization of Plant Growth-Promoting Endophytic Bacteria Paenibacillus polymyxa SK1 from Lilium lancifolium. PMID:32190683
Compound Characterization and Metabolic Profile Elucidation after In Vitro Gastrointestinal and Hepatic Biotransformation of an Herniaria hirsuta Extract Using Unbiased Dynamic Metabolomic Data Analysis. PMID:32188118
Creating and screening natural product libraries. PMID:32186299
Consumption of Fermented Foods Is Associated with Systematic Differences in the Gut Microbiome and Metabolome. PMID:32184365
Wikidata as a knowledge graph for the life sciences. PMID:32180547
Metabolome-Informed Microbiome Analysis Refines Metadata Classifications and Reveals Unexpected Medication Transfer in Captive Cheetahs. PMID:32156796
Emerging Priorities for Microbiome Research. PMID:32140140
Targeted Isolation of Indole Alkaloids from Streptomyces sp. CT37. PMID:32131464
Targeted Isolation of Lignans from Trachelospermum asiaticum Using Molecular Networking and Hierarchical Clustering Analysis. PMID:32121489
Local Phenomena Shape Backyard Soil Metabolite Composition. PMID:32121389
Global chemical effects of the microbiome include new bile-acid conjugations. PMID:32103176
Mining the Metabolome and the Agricultural and Pharmaceutical Potential of Sea Foam-Derived Fungi. PMID:32098306
Multi-Omic Profiling of Melophlus Sponges Reveals Diverse Metabolomic and Microbiome Architectures that Are Non-overlapping with Ecological Neighbors. PMID:32092934
Identification of Secondary Metabolites from Aspergillus pachycristatus by Untargeted UPLC-ESI-HRMS/MS and Genome Mining. PMID:32085602
Repeated sleep disruption in mice leads to persistent shifts in the fecal microbiome and metabolome. PMID:32078624
Myxobacterial Response to Methyljasmonate Exposure Indicates Contribution to Plant Recruitment of Micropredators. PMID:32047489
A Convolutional Neural Network-Based Approach for the Rapid Annotation of Molecularly Diverse Natural Products. PMID:32045230
Enhancement of Sphingolipid Synthesis Improves Osmotic Tolerance of Saccharomyces cerevisiae. PMID:32033944
Metabolomic Insights into Marine Phytoplankton Diversity. PMID:31991720
Microviridin 1777: A Toxic Chymotrypsin Inhibitor Discovered by a Metabologenomic Approach. PMID:31989826
Nutrimetabolomics reveals food-specific compounds in urine of adults consuming a DASH-style diet. PMID:31980691
Design of Fungal Co-Cultivation Based on Comparative Metabolomics and Bioactivity for Discovery of Marine Fungal Agrochemicals. PMID:31979232
Signalling and Bioactive Metabolites from Streptomyces sp. RK44. PMID:31979050
Mass spectrometry-based metabolomics approach in the isolation of bioactive natural products. PMID:31974423
Digging deeper - A new data mining workflow for improved processing and interpretation of high resolution GC-Q-TOF MS data in archaeological research. PMID:31964913
Isolation, Genomic and Metabolomic Characterization of Streptomyces tendae VITAKN with Quorum Sensing Inhibitory Activity from Southern India. PMID:31963137
Metabolomics in the Context of Plant Natural Products Research: From Sample Preparation to Metabolite Analysis. PMID:31952212
Metabolomic Profiling of Fungal Pathogens Responsible for Root Rot in American Ginseng. PMID:31947697
MESSAR: Automated recommendation of metabolite substructures from tandem mass spectra. PMID:31945070
Myxobacteria-Derived Outer Membrane Vesicles: Potential Applicability Against Intracellular Infections. PMID:31940898
Pyrenosetins A-C, New Decalinoylspirotetramic Acid Derivatives Isolated by Bioactivity-Based Molecular Networking from the Seaweed-Derived Fungus Pyrenochaetopsis sp. FVE-001. PMID:31940767
Unraveling Asian Soybean Rust metabolomics using mass spectrometry and Molecular Networking approach. PMID:31924833
Pagoamide A, a Cyclic Depsipeptide Isolated from a Cultured Marine Chlorophyte, Derbesia sp., Using MS/MS-Based Molecular Networking. PMID:31916778
Integrated Analytical Tools for Accessing Acridones and Unrelated Phenylacrylamides from Swinglea glutinosa. PMID:31905978
Identification of Antimicrobial Compounds from Sandwithia guyanensis-Associated Endophyte Using Molecular Network Approach. PMID:31905762
Total synthesis reveals atypical atropisomerism in a small-molecule natural product, tryptorubin A. PMID:31896661
Mass spectrometry searches using MASST. PMID:31894142
Database of free solution mobilities for 276 metabolites. PMID:31892063
Anticancer activity and metabolite profiling data of Penicillium janthinellum KTMT5. PMID:31890800
Dereplication of Natural Products with Antimicrobial and Anticancer Activity from Brazilian Cyanobacteria. PMID:31878347
New Benthic Cyanobacteria from Guadeloupe Mangroves as Producers of Antimicrobials. PMID:31878034
A Perspective and Framework for Developing Sample Type Specific Databases for LC/MS-Based Clinical Metabolomics. PMID:31877765
A joint molecular networking study of a Smenospongia sponge and a cyanobacterial bloom revealed new antiproliferative chlorinated polyketides. PMID:31871685
Metabolome response to anthropogenic contamination on microalgae: a review. PMID:31863210
The METLIN small molecule dataset for machine learning-based retention time prediction. PMID:31862874
From Samples to Insights into Metabolism: Uncovering Biologically Relevant Information in LC-HRMS Metabolomics Data. PMID:31861212
The Natural Products Atlas: An Open Access Knowledge Base for Microbial Natural Products Discovery. PMID:31807684
Intestinal peroxisomal fatty acid β-oxidation regulates neural serotonin signaling through a feedback mechanism. PMID:31805041
Marine Bacteria from Rocas Atoll as a Rich Source of Pharmacologically Active Compounds. PMID:31795148
Phallusialides A-E, Pyrrole-Derived Alkaloids Discovered from a Marine-Derived Micromonospora sp. Bacterium Using MS-Based Metabolomics Approaches. PMID:31794218
Comparative Genomics and Metabolomics Analyses of Clavulanic Acid-Producing Streptomyces Species Provides Insight Into Specialized Metabolism. PMID:31787949
Exploitation of Potentially New Antibiotics from Mangrove Actinobacteria in Maowei Sea by Combination of Multiple Discovery Strategies. PMID:31783564
A database of high-resolution MS/MS spectra for lichen metabolites. PMID:31780665
Exploring novel secondary metabolites from natural products using pre-processed mass spectral data. PMID:31758082
A comparative evaluation of the generalised predictive ability of eight machine learning algorithms across ten clinical metabolomics data sets for binary classification. PMID:31728648
Creating a Reliable Mass Spectral-Retention Time Library for All Ion Fragmentation-Based Metabolomics. PMID:31717785
Stable Isotope-Assisted Plant Metabolomics: Combination of Global and Tracer-Based Labeling for Enhanced Untargeted Profiling and Compound Annotation. PMID:31708958
Taxonomically Informed Scoring Enhances Confidence in Natural Products Annotation. PMID:31708947
Optimization of a minimal sample preparation protocol for imaging mass spectrometry of unsectioned juvenile invertebrates. PMID:31693273
The ProteomeXchange consortium in 2020: enabling 'big data' approaches in proteomics. PMID:31686107
Learning representations of microbe-metabolite interactions. PMID:31686038
Home chemical and microbial transitions across urbanization. PMID:31686026
Fast Detection of Two Smenamide Family Members Using Molecular Networking. PMID:31671549
Shielding the Next Generation: Symbiotic Bacteria from a Reproductive Organ Protect Bobtail Squid Eggs from Fungal Fouling. PMID:31662458
MetaMiner: A Scalable Peptidogenomics Approach for Discovery of Ribosomal Peptide Natural Products with Blind Modifications from Microbial Communities. PMID:31629686
Chemical Diversity and Classification of Secondary Metabolites in Nine Bryophyte Species. PMID:31614655
Bioinformatics for Marine Products: An Overview of Resources, Bottlenecks, and Perspectives. PMID:31614509
MIBiG 2.0: a repository for biosynthetic gene clusters of known function. PMID:31612915
Bacterial Metabolites Produced Under Iron Limitation Kill Pinewood Nematode and Attract Caenorhabditis elegans. PMID:31608025
Identification of metabolites from tandem mass spectra with a machine learning approach utilizing structural features. PMID:31605112
Identification of Four Amoebicidal Nontoxic Compounds by a Molecular Docking Screen of Naegleria fowleri Sterol Δ8-Δ7-Isomerase and Phenotypic Assays. PMID:31583882
A comparison of inducible, ontogenetic, and interspecific sources of variation in the foliar metabolome in tropical trees. PMID:31579568
Matrix-Assisted Laser Desorption/Ionization Mass Spectrometry Typings of Edible Oils through Spectral Networking of Triacylglycerol Fingerprints. PMID:31572877
2018 YPIC Challenge: A Case Study in Characterizing an Unknown Protein Sample. PMID:31556620
Effects of Sphagnum Leachate on Competitive Sphagnum Microbiome Depend on Species and Time. PMID:31555245
Chemical Diversity in a Stingless Bee-Plant Symbiosis. PMID:31552366
Molecular and Microbial Microenvironments in Chronically Diseased Lungs Associated with Cystic Fibrosis. PMID:31551401
The metaRbolomics Toolbox in Bioconductor and beyond. PMID:31548506
Natural Products as a Foundation for Drug Discovery. PMID:31539923
Accramycin A, a New Aromatic Polyketide, from the Soil Bacterium, Streptomyces sp. MA37. PMID:31533358
Metabolomic and gene expression approaches reveal the developmental and environmental regulation of the secondary metabolism of yacón (Smallanthus sonchifolius, Asteraceae). PMID:31511527
NPS: scoring and evaluating the statistical significance of peptidic natural product-spectrum matches. PMID:31510666
An Isotopic Ratio Outlier Analysis Approach for Global Metabolomics of Biosynthetically Talented Actinomycetes. PMID:31510039
Expanding the scope and scale of microbiome research. PMID:31488207
Insights into the Diversity of Secondary Metabolites of Planktothrix Using a Biphasic Approach Combining Global Genomics and Metabolomics. PMID:31461939
A Metabolome- and Metagenome-Wide Association Network Reveals Microbial Natural Products and Microbial Biotransformation Products from the Human Microbiota. PMID:31455639
Physiological and Metabolic Responses of Freshwater and Brackish-Water Strains of Microcystis aeruginosa Acclimated to a Salinity Gradient: Insight into Salt Tolerance. PMID:31444201
Perspectives on Data Analysis in Metabolomics: Points of Agreement and Disagreement from the 2018 ASMS Fall Workshop. PMID:31440979
Characterization of an Orphan Type III Polyketide Synthase Conserved in Uncultivated "Entotheonella" Sponge Symbionts. PMID:31430416
Examination of molecular space and feasible structures of bioactive components of humic substances by FTICR MS data mining in ChEMBL database. PMID:31427609
Discovery of Lipid Peroxidation Inhibitors from Bacopa Species Prioritized through Multivariate Data Analysis and Multi-Informative Molecular Networking. PMID:31426532
Scopularides Revisited: Molecular Networking Guided Exploration of Lipodepsipeptides in Australian Marine Fish Gastrointestinal Tract-Derived Fungi. PMID:31426405
Microbial Transformations of Organically Fermented Foods. PMID:31405168
A role for antibiotic biosynthesis monooxygenase domain proteins in fidelity control during aromatic polyketide biosynthesis. PMID:31399587
Perspective: Dietary Biomarkers of Intake and Exposure-Exploration with Omics Approaches. PMID:31386148
Antimicrobial activity and bioactive profiling of heterocytous cyanobacterial strains using MS/MS-based molecular networking. PMID:31385159
Improved Small Molecule Identification through Learning Combinations of Kernel Regression Models. PMID:31374904
Cyclopropanol Warhead in Malleicyprol Confers Virulence of Human- and Animal-Pathogenic Burkholderia Species. PMID:31353766
New Discorhabdin Alkaloids from the Antarctic Deep-Sea Sponge Latrunculia biformis. PMID:31349703
Reproducible, interactive, scalable and extensible microbiome data science using QIIME 2. PMID:31341288
Minimizing Taxonomic and Natural Product Redundancy in Microbial Libraries Using MALDI-TOF MS and the Bioinformatics Pipeline IDBac. PMID:31335140
Assessing Specialized Metabolite Diversity in the Cosmopolitan Plant Genus Euphorbia L. PMID:31333695
Identification of chemotypes in bitter melon by metabolomics: a plant with potential benefit for management of diabetes in traditional Chinese medicine. PMID:31321563
MolNetEnhancer: Enhanced Molecular Networks by Integrating Metabolome Mining and Annotation Tools. PMID:31315242
Strategies in anti-Mycobacterium tuberculosis drug discovery based on phenotypic screening. PMID:31292530
Improving MetFrag with statistical learning of fragment annotations. PMID:31277571
Reproducibility and Transparency by Design. PMID:31273047
Phenolics lie at the centre of functional versatility in the responses of two phytochemically diverse tropical trees to canopy thinning. PMID:31257446
Linking biosynthetic and chemical space to accelerate microbial secondary metabolite discovery. PMID:31252431
Mass Spectrometry Data Repository Enhances Novel Metabolite Discoveries with Advances in Computational Metabolomics. PMID:31238512
Cheminformatics approach to exploring and modeling trait-associated metabolite profiles. PMID:31236709
Staring into the void: demystifying microbial metabolomics. PMID:31210257
The impact of skin care products on skin chemistry and microbiome dynamics. PMID:31189482
Synergy and antagonism in natural product extracts: when 1 + 1 does not equal 2. PMID:31187844
Bioactive Compounds Isolated from Marine-Derived Microbes in China: 2009-2018. PMID:31174259
Bromotryptamine and Bromotyramine Derivatives from the Tropical Southwestern Pacific Sponge Narrabeena nigra. PMID:31151240
Whole Genome Sequencing and Metabolomic Study of Cave Streptomyces Isolates ICC1 and ICC4. PMID:31134037
Omics Technologies to Understand Activation of a Biosynthetic Gene Cluster in Micromonospora sp. WMMB235: Deciphering Keyicin Biosynthesis. PMID:31120241
Antarctic Streptomyces fildesensis So13.3 strain as a promising source for antimicrobials discovery. PMID:31097761
Mass Spectrometry-Based Integration and Expansion of the Chemical Diversity Harbored Within a Marine Sponge. PMID:31093948
Computationally-assisted discovery and structure elucidation of natural products. PMID:31093833
Comparative Genomics of Cyanobacterial Symbionts Reveals Distinct, Specialized Metabolism in Tropical Dysideidae Sponges. PMID:31088928
Unearthing fungal chemodiversity and prospects for drug discovery. PMID:31071615
Intermittent Hypoxia and Hypercapnia Reproducibly Change the Gut Microbiome and Metabolome across Rodent Model Systems. PMID:31058230
Actinobacteria Isolated From Laminaria ochroleuca: A Source of New Bioactive Compounds. PMID:31024480
Structural Identification of Antibacterial Lipids from Amazonian Palm Tree Endophytes through the Molecular Network Approach. PMID:31022840
The extracellular matrix protects Bacillus subtilis colonies from Pseudomonas invasion and modulates plant co-colonization. PMID:31015472
CFM-ID 3.0: Significantly Improved ESI-MS/MS Prediction and Compound Identification. PMID:31013937
Toxicity of Cyanopeptides from Two Microcystis Strains on Larval Development of Astyanax altiparanae. PMID:31013880
A case of fatal acebutolol poisoning: an illustration of the potential of molecular networking. PMID:30997571
BLANKA: an Algorithm for Blank Subtraction in Mass Spectrometry of Complex Biological Samples. PMID:30993641
Cystic Fibrosis Rapid Response: Translating Multi-omics Data into Clinically Relevant Information. PMID:30992350
Identification of the Bacterial Biosynthetic Gene Clusters of the Oral Microbiome Illuminates the Unexplored Social Language of Bacteria during Health and Disease. PMID:30992349
Activation of Secondary Metabolite Gene Clusters in Streptomyces clavuligerus by the PimM Regulator of Streptomyces natalensis. PMID:30984130
Marine Fungi from the Sponge Grantia compressa: Biodiversity, Chemodiversity, and Biotechnological Potential. PMID:30978942
Klebsiella and Providencia emerge as lone survivors following long-term starvation of oral microbiota. PMID:30975748
Marine sponges of the genus Stelletta as promising drug sources: chemical and biological aspects. PMID:30972275
Metabolic reaction network-based recursive metabolite annotation for untargeted metabolomics. PMID:30944337
Collected mass spectrometry data on monoterpene indole alkaloids from natural product chemistry research. PMID:30944327
Chemical Ecology of Marine Sponges: New Opportunities through "-Omics". PMID:30942859
A genetical metabolomics approach for bioprospecting plant biosynthetic gene clusters. PMID:30940198
Analysis of the antiparasitic and anticancer activity of the coconut palm (Cocos nucifera L. ARECACEAE) from the natural reserve of Punta Patiño, Darién. PMID:30939131
Integrating Molecular Network and Culture Media Variation to Explore the Production of Bioactive Metabolites by Vibrio diabolicus A1SM3. PMID:30934741
Genome and metabolome mining of marine obligate Salinisporsatrains to discover new natural products. PMID:30930633
Closely related viruses of the marine picoeukaryotic alga Ostreococcus lucimarinus exhibit different ecological strategies. PMID:30924271
MetaboAnalystR 2.0: From Raw Spectra to Biological Insights. PMID:30909447
Exploring Structural Diversity of Microbe Secondary Metabolites Using OSMAC Strategy: A Literature Review. PMID:30863377
Refactoring the Cryptic Streptophenazine Biosynthetic Gene Cluster Unites Phenazine, Polyketide, and Nonribosomal Peptide Biochemistry. PMID:30853419
Structure-function relationship of a citrus salicylate methylesterase and role of salicylic acid in citrus canker resistance. PMID:30846791
Substantial Extracellular Metabolic Differences Found Between Phylogenetically Closely Related Probiotic and Pathogenic Strains of Escherichia coli. PMID:30837975
Characterization, Diversity, and Structure-Activity Relationship Study of Lipoamino Acids from Pantoea sp. and Synthetic Analogues. PMID:30832353
Unexpected differential metabolic responses of Campylobacter jejuni to the abundant presence of glutamate and fucose. PMID:30830405
Viscosin-like lipopeptides from frog skin bacteria inhibit Aspergillus fumigatus and Batrachochytrium dendrobatidis detected by imaging mass spectrometry and molecular networking. PMID:30816229
Surface chemical defence of the eelgrass Zostera marina against microbial foulers. PMID:30804483
Neutrophilic proteolysis in the cystic fibrosis lung correlates with a pathogenic microbiome. PMID:30760325
Mapping Metabolic Events in the Cancer Cell Cycle Reveals Arginine Catabolism in the Committed SG2M Phase. PMID:30759381
Solvolysis Artifacts: Leucettazoles as Cryptic Macrocyclic Alkaloid Dimers from a Southern Australian Marine Sponge, Leucetta sp. PMID:30744132
Detection of Natural Products and Their Producers in Ocean Sediments. PMID:30737349
Discovery of novel glycerolated quinazolinones from Streptomyces sp. MBT27. PMID:30729343
Molecular Networking-Based Analysis of Cytotoxic Saponins from Sea Cucumber Holothuria atra. PMID:30717102
Mapping the Surface Microbiome and Metabolome of Brown Seaweed Fucus vesiculosus by Amplicon Sequencing, Integrated Metabolomics and Imaging Techniques. PMID:30705420
Calour: an Interactive, Microbe-Centric Analysis Tool. PMID:30701193
High metabolic variation for seaweeds in response to environmental changes: a case study of the brown algae Lobophora in coral reefs. PMID:30700781
mzTab-M: A Data Standard for Sharing Quantitative Results in Mass Spectrometry Metabolomics. PMID:30688441
Toward a global picture of bacterial secondary metabolism. PMID:30684124
Selection and characterization of botanical natural products for research studies: a NaPDI center recommended approach. PMID:30681109
Integrated Genomic and Metabolomic Approach to the Discovery of Potential Anti-Quorum Sensing Natural Products from Microbes Associated with Marine Samples from Singapore. PMID:30669697
Influence of OSMAC-Based Cultivation in Metabolome and Anticancer Activity of Fungi Associated with the Brown Alga Fucus vesiculosus. PMID:30669497
Directed Non-targeted Mass Spectrometry and Chemical Networking for Discovery of Eicosanoids and Related Oxylipins. PMID:30661990
Lugdunomycin, an Angucycline-Derived Molecule with Unprecedented Chemical Architecture. PMID:30656821
Molecular Networking Reveals Two Distinct Chemotypes in Pyrroloiminoquinone-Producing Tsitsikamma favus Sponges. PMID:30654589
Current status and contemporary approaches to the discovery of antitumor agents from higher plants. PMID:30633954
Analysis of the complete genome sequence of a marine-derived strain Streptomyces sp. S063 CGMCC 14582 reveals its biosynthetic potential to produce novel anti-complement agents and peptides. PMID:30627488
Metabolomic Fingerprinting of Salinispora From Atlantic Oceanic Islands. PMID:30619120
An ecotoxicological view on neurotoxicity assessment. PMID:30595996
Competition among Nasal Bacteria Suggests a Role for Siderophore-Mediated Interactions in Shaping the Human Nasal Microbiota. PMID:30578265
Exploring the rumen fluid metabolome using liquid chromatography-high-resolution mass spectrometry and Molecular Networking. PMID:30568246
MS/MS-Based Molecular Networking Approach for the Detection of Aplysiatoxin-Related Compounds in Environmental Marine Cyanobacteria. PMID:30551660
Seasonal Variations in the Metabolome and Bioactivity Profile of Fucus vesiculosus Extracted by an Optimised, Pressurised Liquid Extraction Protocol. PMID:30551573
Alternative Biosynthetic Starter Units Enhance the Structural Diversity of Cyanobacterial Lipopeptides. PMID:30504214
Soil Bacteria Isolated From Tunisian Arid Areas Show Promising Antimicrobial Activities Against Gram-Negatives. PMID:30483240
Cacolides: Sesterterpene Butenolides from a Southern Australian Marine Sponge, Cacospongia sp. PMID:30463335
Analysis of the Genome and Metabolome of Marine Myxobacteria Reveals High Potential for Biosynthesis of Novel Specialized Metabolites. PMID:30413766
Gut Microbial and Metabolic Responses to Salmonella enterica Serovar Typhimurium and Candida albicans. PMID:30401779
Gene-guided discovery and engineering of branched cyclic peptides in plants. PMID:30373830
Addressing Global Ruminant Agricultural Challenges Through Understanding the Rumen Microbiome: Past, Present, and Future. PMID:30319557
Dereplication of microbial metabolites through database search of mass spectra. PMID:30279420
Qiita: rapid, web-enabled microbiome meta-analysis. PMID:30275573
Expanding the Use of Spectral Libraries in Proteomics. PMID:30270626
Computational Removal of Undesired Mass Spectral Features Possessing Repeat Units via a Kendrick Mass Filter. PMID:30267361
Niche partitioning of a pathogenic microbiome driven by chemical gradients. PMID:30263961
Mining Actinomycetes for Novel Antibiotics in the Omics Era: Are We Ready to Exploit This New Paradigm? PMID:30257490
Identification of Enantiomeric Byproducts During Microalgae-Mediated Transformation of Metoprolol by MS/MS Spectrum Based Networking. PMID:30245676
Microbiome 101: Studying, Analyzing, and Interpreting Gut Microbiome Data for Clinicians. PMID:30240894
Molecular Networking-Based Metabolome and Bioactivity Analyses of Marine-Adapted Fungi Co-cultivated With Phytopathogens. PMID:30237790
Mind the Gap: Mapping Mass Spectral Databases in Genome-Scale Metabolic Networks Reveals Poorly Covered Areas. PMID:30223552
Towards a holistic and solution-oriented monitoring of chemical status of European water bodies: how to support the EU strategy for a non-toxic environment? PMID:30221105
Opportunities for plant natural products in infection control. PMID:30218951
Clerodane furanoditerpenoids as the probable cause of toxic hepatitis induced by Tinospora crispa. PMID:30202067
Coproporphyrin III Produced by the Bacterium Glutamicibacter arilaitensis Binds Zinc and Is Upregulated by Fungi in Cheese Rinds. PMID:30175236
Assembling the Community-Scale Discoverable Human Proteome. PMID:30172843
The plant pathogen Pseudomonas aeruginosa triggers a DELLA-dependent seed germination arrest in Arabidopsis. PMID:30149837
Fate and Biological Activity of the Antimicrobial Lasso Peptide Microcin J25 Under Gastrointestinal Tract Conditions. PMID:30123205
Before platelets: the production of platelet-activating factor during growth and stress in a basal marine organism. PMID:30111600
Recent advances and prospects of computational methods for metabolite identification: a review with emphasis on machine learning approaches. PMID:30099485
The Metabolome of a Cyanobacterial Bloom Visualized by MS/MS-Based Molecular Networking Reveals New Neurotoxic Smenamide Analogs (C, D, and E). PMID:30094232
Targeted Isolation of Tsitsikammamines from the Antarctic Deep-Sea Sponge Latrunculia biformis by Molecular Networking and Anticancer Activity. PMID:30072656
Are microbiome studies ready for hypothesis-driven research? PMID:30059804
Bipartite interactions, antibiotic production and biosynthetic potential of the Arabidopsis leaf microbiome. PMID:30038309
Cleavage of Peptides from Amphibian Skin Revealed by Combining Analysis of Gland Secretion and in Situ MALDI Imaging Mass Spectrometry. PMID:30023919
In Silico HCT116 Human Colon Cancer Cell-Based Models En Route to the Discovery of Lead-Like Anticancer Drugs. PMID:30018273
Computational Methodologies in the Exploration of Marine Natural Product Leads. PMID:30011882
MR1 displays the microbial metabolome driving selective MR1-restricted T cell receptor usage. PMID:30006464
The value of universally available raw NMR data for transparency, reproducibility, and integrity in natural product research. PMID:30003207
Iron chelation increases the tolerance of Escherichia coli to hyper-replication stress. PMID:30002429
Genome Mining of the Marine Actinomycete Streptomyces sp. DUT11 and Discovery of Tunicamycins as Anti-complement Agents. PMID:29973921
Bayesian networks for mass spectrometric metabolite identification via molecular fingerprints. PMID:29949965
Physicochemical Prediction of Metabolite Fragmentation in Tandem Mass Spectrometry. PMID:29922568
Intermittent Hypoxia and Hypercapnia, a Hallmark of Obstructive Sleep Apnea, Alters the Gut Microbiome and Metabolome. PMID:29896566
Chemical warfare between leafcutter ant symbionts and a co-evolved pathogen. PMID:29880868
The role of inter-species interactions in Salinispora specialized metabolism. PMID:29877785
Dereplication of plant phenolics using a mass-spectrometry database independent method. PMID:29808582
American Gut: an Open Platform for Citizen Science Microbiome Research. PMID:29795809
Target-Decoy-Based False Discovery Rate Estimation for Large-Scale Metabolite Identification. PMID:29790753
Concepts and Methods to Access Novel Antibiotics from Actinomycetes. PMID:29789481
MS/MS-Guided Isolation of Clarinoside, a New Anti-Inflammatory Pentalogin Derivative. PMID:29789477
Identification and ultra-high-performance liquid chromatography coupled with high-resolution mass spectrometry characterization of biosurfactants, including a new surfactin, isolated from oil-contaminated environments. PMID:29761667
Characterization of Rhamnolipids Produced by an Arctic Marine Bacterium from the Pseudomonas fluorescence Group. PMID:29758007
Software Tools and Approaches for Compound Identification of LC-MS/MS Data in Metabolomics. PMID:29748461
Current Challenges in Plant Eco-Metabolomics. PMID:29734799
A protocol for high-throughput, untargeted forest community metabolomics using mass spectrometry molecular networks. PMID:29732263
Mining for Microbial Gems: Integrating Proteomics in the Postgenomic Natural Product Discovery Pipeline. PMID:29708658
Coupling MALDI-TOF mass spectrometry protein and specialized metabolite analyses to rapidly discriminate bacterial function. PMID:29686101
Propagating annotations of molecular networks using in silico fragmentation. PMID:29668671
The role of the Human Metabolome Database in inborn errors of metabolism. PMID:29663269
Can Diet Influence Our Health by Altering Intestinal Microbiota-Derived Fecal Metabolites? PMID:29629422
In Search of Model Ecological Systems for Understanding Specialized Metabolism. PMID:29629421
The Tripod for Bacterial Natural Product Discovery: Genome Mining, Silent Pathway Induction, and Mass Spectrometry-Based Molecular Networking. PMID:29629418
Challenges and Opportunities for Biological Mass Spectrometry Core Facilities in the Developing World. PMID:29623005
Metabolomics: Eavesdropping on silent conversations between hosts and their unwelcome guests. PMID:29621358
The social network of microorganisms - how auxotrophies shape complex communities. PMID:29599459
The benzodiazepine-like natural product tilivalline is produced by the entomopathogenic bacterium Xenorhabdus eapokensis. PMID:29596433
Rhamnellosides A and B, ω-Phenylpentaene Fatty Acid Amide Diglycosides from the Fruits of Rhamnella franguloides. PMID:29587348
Untargeted metabolomics identifies trimethyllysine, a TMAO-producing nutrient precursor, as a predictor of incident cardiovascular disease risk. PMID:29563342
Metabolomics and Agriculture: What Can Be Done? PMID:29556551
Spatial Analyses of Specialized Metabolites: The Key to Studying Function in Hosts. PMID:29556545
Promises and pitfalls of untargeted metabolomics. PMID:29536203
Experimental Chagas disease-induced perturbations of the fecal microbiome and metabolome. PMID:29529084
Pharmacognosy in the digital era: shifting to contextualized metabolomics. PMID:29499476
Creating a 3D microbial and chemical snapshot of a human habitat. PMID:29487294
A lost opportunity for science: journals promote data sharing in metabolomics but do not enforce it. PMID:29479297
Correlating chemical diversity with taxonomic distance for discovery of natural products in myxobacteria. PMID:29476047
The secreted metabolome of Streptomyces chartreusis and implications for bacterial chemistry. PMID:29463727
Samholides, Swinholide-Related Metabolites from a Marine Cyanobacterium cf. Phormidium sp. PMID:29457979
Single-bacterial genomics validates rich and varied specialized metabolism of uncultivated Entotheonella sponge symbionts. PMID:29439203
Metabolomic "Dark Matter" Dependent on Peroxisomal β-Oxidation in Caenorhabditis elegans. PMID:29401383
Metabolomics Investigation of an Association of Induced Features and Corresponding Fungus during the Co-culture of Trametes versicolor and Ganoderma applanatum. PMID:29375514
Tundrenone: An Atypical Secondary Metabolite from Bacteria with Highly Restricted Primary Metabolism. PMID:29361220
Increased diversity of peptidic natural products revealed by modification-tolerant database search of mass spectra. PMID:29358742
Improving the discovery of secondary metabolite natural products using ion mobility-mass spectrometry. PMID:29287234
3D molecular cartography using LC-MS facilitated by Optimus and 'ili software. PMID:29266099
Comparative transcriptomics as a guide to natural product discovery and biosynthetic gene cluster functionality. PMID:29229817
Strategies for dereplication of natural compounds using high-resolution tandem mass spectrometry. PMID:29225718
The Potential of Indonesian Heterobranchs Found around Bunaken Island for the Production of Bioactive Compounds. PMID:29215579
Warhead biosynthesis and the origin of structural diversity in hydroxamate metalloproteinase inhibitors. PMID:29213087
Omics-based natural product discovery and the lexicon of genome mining. PMID:29175703
HMDB 4.0: the human metabolome database for 2018. PMID:29140435
Expanding the chondroitin glycoproteome of Caenorhabditis elegans. PMID:29138239
Significance estimation for large scale metabolomics annotations by spectral matching. PMID:29133785
A tutorial in small molecule identification via electrospray ionization-mass spectrometry: The practical art of structural elucidation. PMID:29120505
TCMID 2.0: a comprehensive resource for TCM. PMID:29106634
Critical Assessment of Small Molecule Identification 2016: automated methods. PMID:29086042
The Chemistry Development Kit (CDK) v2.0: atom typing, depiction, molecular formulas, and substructure searching. PMID:29086040
Meta-mass shift chemical profiling of metabolomes from coral reefs. PMID:29078340
Three-Dimensional Microbiome and Metabolome Cartography of a Diseased Human Lung. PMID:29056429
The dental calculus metabolome in modern and historic samples. PMID:29046620
Marine Mammal Microbiota Yields Novel Antibiotic with Potent Activity Against Clostridium difficile. PMID:29043783
MetaNetter 2: A Cytoscape plugin for ab initio network analysis and metabolite feature classification. PMID:29030098
Diversity and Antimicrobial Potential of Predatory Bacteria from the Peruvian Coastline. PMID:29023396
Microbes and associated soluble and volatile chemicals on periodically wet household surfaces. PMID:28950891
Compliance with minimum information guidelines in public metabolomics repositories. PMID:28949328
Calling all hosts: Bacterial communication in situ. PMID:28948238
Elucidation of complexity and prediction of interactions in microbial communities. PMID:28925555
Mass Spectrometry-Based Chemical Cartography of a Cardiac Parasitic Infection. PMID:28892370
Seasonal cycling in the gut microbiome of the Hadza hunter-gatherers of Tanzania. PMID:28839072
A metabolomics guided exploration of marine natural product chemical space. PMID:28819353
Upregulation and Identification of Antibiotic Activity of a Marine-Derived Streptomyces sp. via Co-Cultures with Human Pathogens. PMID:28800088
NuBBEDB: an updated database to uncover chemical and biological information from Brazilian biodiversity. PMID:28775335
Microbiome and metabolome data integration provides insight into health and disease. PMID:28764956
Metabolic Fingerprints from the Human Oral Microbiome Reveal a Vast Knowledge Gap of Secreted Small Peptidic Molecules. PMID:28761934
Secondary Metabolites from the Leaves of the Medicinal Plant Goldenseal (Hydrastis canadensis). PMID:28736584
Imaging mass spectrometry and MS/MS molecular networking reveals chemical interactions among cuticular bacteria and pathogenic fungi associated with fungus-growing ants. PMID:28717220
Molecular inter-kingdom interactions of endophytes isolated from Lychnophora ericoides. PMID:28710400
Natural Product Discovery Using Planes of Principal Component Analysis in R (PoPCAR). PMID:28703778
Large Diversity and Original Structures of Acyl-Homoserine Lactones in Strain MOLA 401, a Marine Rhodobacteraceae Bacterium. PMID:28690598
Nonribosomal peptide synthetase biosynthetic clusters of ESKAPE pathogens. PMID:28642945
SANDPUMA: ensemble predictions of nonribosomal peptide chemistry reveal biosynthetic diversity across Actinobacteria. PMID:28633438
Unsupervised Discovery and Comparison of Structural Families Across Multiple Samples in Untargeted Metabolomics. PMID:28621528
Furanoterpene Diversity and Variability in the Marine Sponge Spongia officinalis, from Untargeted LC-MS/MS Metabolomic Profiling to Furanolactam Derivatives. PMID:28608848
A scalable platform to identify fungal secondary metabolites and their gene clusters. PMID:28604695
From chromatogram to analyte to metabolite. How to pick horses for courses from the massive web resources for mass spectral plant metabolomics. PMID:28520864
Digitizing mass spectrometry data to explore the chemical diversity and distribution of marine cyanobacteria and algae. PMID:28492366
Open Science for Identifying "Known Unknown" Chemicals. PMID:28475325
Identification of small molecules using accurate mass MS/MS search. PMID:28436590
Laucysteinamide A, a Hybrid PKS/NRPS Metabolite from a Saipan Cyanobacterium, cf. Caldora penicillata. PMID:28420100
Mass Spectrometry Based Molecular 3D-Cartography of Plant Metabolites. PMID:28405197
Streptomyces artemisiae MCCB 248 isolated from Arctic fjord sediments has unique PKS and NRPS biosynthetic genes and produces potential new anticancer natural products. PMID:28401470
Prioritizing Natural Product Diversity in a Collection of 146 Bacterial Strains Based on Growth and Extraction Protocols. PMID:28335604
PCR-Independent Method of Transformation-Associated Recombination Reveals the Cosmomycin Biosynthetic Gene Cluster in an Ocean Streptomycete. PMID:28333450
Naturally occurring fluorescence in frogs. PMID:28289227
Breaking the silence: new strategies for discovering novel natural products. PMID:28288336
Using natural products for drug discovery: the impact of the genomics era. PMID:28277838
In vivo microsampling to capture the elusive exposome. PMID:28266605
Comparative genomics uncovers the prolific and distinctive metabolic potential of the cyanobacterial genus Moorea. PMID:28265051
LIQUID: an-open source software for identifying lipids in LC-MS/MS-based lipidomics data. PMID:28158427
Integrating Molecular Networking and Biological Assays To Target the Isolation of a Cytotoxic Cyclic Octapeptide, Samoamide A, from an American Samoan Marine Cyanobacterium. PMID:28055219
Spatial Molecular Architecture of the Microbial Community of a Peltigera Lichen. PMID:28028548
Effects of Actinomycete Secondary Metabolites on Sediment Microbial Communities. PMID:27986719
Current and Future Perspectives on the Structural Identification of Small Molecules in Biological Systems. PMID:27983674
Antibiotic discovery is a walk in the park. PMID:27940910
The ProteomeXchange consortium in 2017: supporting the cultural change in proteomics public data deposition. PMID:27924013
Natural products as mediators of disease. PMID:27874907
Lifestyle chemistries from phones for individual profiling. PMID:27849584
SPLASH, a hashed identifier for mass spectra. PMID:27824832
Dereplication of peptidic natural products through database search of mass spectra. PMID:27820803
Indexing the Pseudomonas specialized metabolome enabled the discovery of poaeamide B and the bananamides. PMID:27798598
Mass Spectrometry-Based Visualization of Molecules Associated with Human Habitats. PMID:27732780
A novel uncultured heterotrophic bacterial associate of the cyanobacterium Moorea producens JHB. PMID:27577966
Dereplication, sequencing and identification of peptidic natural products: from genome mining to peptidogenomics to spectral networks. PMID:26497201
The re-emergence of natural products for drug discovery in the genomics era. PMID:25614221
The ProteomeXchange consortium in 2017: supporting the cultural change in proteomics public data deposition PubMed citations: 395.

395 articles citing: The ProteomeXchange consortium in 2017: supporting the cultural change in proteomics public data deposition

Mass Spectrometry Imaging Spatial Tissue Analysis toward Personalized Medicine. PMID:35888125
Multiple Myeloma-Derived Extracellular Vesicles Modulate the Bone Marrow Immune Microenvironment. PMID:35874665
Proteomic analysis of low- and high-grade human colon adenocarcinoma tissues and tissue-derived primary cell lines reveals unique biological functions of tumours and new protein biomarker candidates. PMID:35842572
Patient-Derived Extracellular Vesicles Proteins as New Biomarkers in Multiple Myeloma - A Real-World Study. PMID:35800053
HSP90 and Aha1 modulate microRNA maturation through promoting the folding of Dicer1. PMID:35736213
Regulatory Modules of Metabolites and Protein Phosphorylation in Arabidopsis Genotypes With Altered Sucrose Allocation. PMID:35665154
Novel Bioinformatics Strategies Driving Dynamic Metaproteomic Studies. PMID:35612752
Activated SUMOylation restricts MHC class I antigen presentation to confer immune evasion in cancer. PMID:35499080
Specific inflammatory osteoclast precursors induced during chronic inflammation give rise to highly active osteoclasts associated with inflammatory bone loss. PMID:35396510
Proteomics and phosphoproteomics datasets of a muscle-specific STIM1 loss-of-function mouse model. PMID:35345842
Protein Expression of AEBP1, MCM4, and FABP4 Differentiate Osteogenic, Adipogenic, and Mesenchymal Stromal Stem Cells. PMID:35269711
SP3-Enabled Rapid and High Coverage Chemoproteomic Identification of Cell-State-Dependent Redox-Sensitive Cysteines. PMID:35219905
Review of Liquid Chromatography-Mass Spectrometry-Based Proteomic Analyses of Body Fluids to Diagnose Infectious Diseases. PMID:35216306
Novel feature selection method via kernel tensor decomposition for improved multi-omics data analysis. PMID:35209912
Characterization of Glycoproteoforms of Integrins α2 and β1 in Megakaryocytes in the Occurrence of JAK2V617F Mutation-Induced Primary Myelofibrosis. PMID:35182768
Multi-omics reveals mitochondrial metabolism proteins susceptible for drug discovery in AML. PMID:35177813
Optimization of proteomics sample preparation for identification of host and bacterial proteins in mouse feces. PMID:35106611
Vps501, a novel vacuolar SNX-BAR protein cooperates with the SEA complex to regulate TORC1 signaling. PMID:35098628
Comparative Metabolomics and Proteomics Reveal Vibrio parahaemolyticus Targets Hypoxia-Related Signaling Pathways of Takifugu obscurus. PMID:35095928
Oxidative desulfurization pathway for complete catabolism of sulfoquinovose by bacteria. PMID:35074914
Interventional- and amputation-stage muscle proteomes in the chronically threatened ischemic limb. PMID:35073463
Three Microbial Musketeers of the Seas: Shewanella baltica, Aliivibrio fischeri and Vibrio harveyi, and Their Adaptation to Different Salinity Probed by a Proteomic Approach. PMID:35054801
Comment on: The m6A Reader IGF2BP2 Regulates Macrophage Phenotypic Activation and Inflammatory Diseases by Stabilizing TSC1 and PPARγ. PMID:35038236
Nicotinamide riboside supplementation confers marginal metabolic benefits in obese mice without remodeling the muscle acetyl-proteome. PMID:35028529
Current status of PTMs structural databases: applications, limitations and prospects. PMID:35020020
Altered succinylation of mitochondrial proteins, APP and tau in Alzheimer's disease. PMID:35013160
Absence of COVID-19-associated changes in plasma coagulation proteins and pulmonary thrombosis in the ferret model. PMID:34954402
Targeting CAMKK2 and SOC Channels as a Novel Therapeutic Approach for Sensitizing Acute Promyelocytic Leukemia Cells to All-Trans Retinoic Acid. PMID:34943872
APC7 mediates ubiquitin signaling in constitutive heterochromatin in the developing mammalian brain. PMID:34942119
Identification of α1,2-fucosylated signaling and adhesion molecules in head and neck squamous cell carcinoma. PMID:34939118
Skyline Batch: An Intuitive User Interface for Batch Processing with Skyline. PMID:34919405
A tale of solving two computational challenges in protein science: neoantigen prediction and protein structure prediction. PMID:34891158
Alterations in sphingolipid composition and mitochondrial bioenergetics represent synergistic therapeutic vulnerabilities linked to multidrug resistance in leukemia. PMID:34888943
New system for archiving integrative structures. PMID:34866606
ProteoDisco: A flexible R approach to generate customized protein databases for extended search space of novel and variant proteins in proteogenomic studies. PMID:34864882
Biochemical Characterisation of Human Transglutaminase 4. PMID:34830327
Deciphering the major metabolic pathways associated with aluminum tolerance in popcorn roots using label-free quantitative proteomics. PMID:34821986
DeepPhospho accelerates DIA phosphoproteome profiling through in silico library generation. PMID:34795227
A chemical probe targeting the PWWP domain alters NSD2 nucleolar localization. PMID:34782742
Genomic expansion of Aldh1a1 protects beavers against high metabolic aldehydes from lipid oxidation. PMID:34758328
Eukaryotic initiation factor 2 signaling behind neural invasion linked with lymphatic and vascular invasion in pancreatic cancer. PMID:34707166
Molecular characterization of hematopoietic stem cells after in vitro amplification on biomimetic 3D PDMS cell culture scaffolds. PMID:34707135
PLCG1 is required for AML1-ETO leukemia stem cell self-renewal. PMID:34695195
Characterization of the Human Eccrine Sweat Proteome-A Focus on the Biological Variability of Individual Sweat Protein Profiles. PMID:34639210
A Linkage-specific Sialic Acid Labeling Strategy Reveals Different Site-specific Glycosylation Patterns in SARS-CoV-2 Spike Protein Produced in CHO and HEK Cell Substrates. PMID:34631661
Metabolomic and proteomic characterization of sng and pain phenotypes in fibromyalgia. PMID:34608709
Phospholipase Cγ2 regulates endocannabinoid and eicosanoid networks in innate immune cells. PMID:34607960
Approaching In Vivo Models of Pneumococcus-Host Interaction: Insights into Surface Proteins, Capsule Production, and Extracellular Vesicles. PMID:34578131
Building Personalized Cancer Therapeutics through Multi-Omics Assays and Bacteriophage-Eukaryotic Cell Interactions. PMID:34575870
Intra-Tumor Heterogeneity Revealed by Mass Spectrometry Imaging Is Associated with the Prognosis of Breast Cancer. PMID:34503159
Vision, challenges and opportunities for a Plant Cell Atlas. PMID:34491200
Biodesulfurization Induces Reprogramming of Sulfur Metabolism in Rhodococcus qingshengii IGTS8: Proteomics and Untargeted Metabolomics. PMID:34468196
Isotopically Dimethyl Labeling-Based Quantitative Proteomic Analysis of Phosphoproteomes of Soybean Cultivars. PMID:34439883
'Candidatus Liberibacter asiaticus' Multimeric LotP Mediates Citrus sinensis Defense Response Activation. PMID:34421834
The Arabidopsis PeptideAtlas: Harnessing worldwide proteomics data to create a comprehensive community proteomics resource. PMID:34411258
Survival analysis in breast cancer using proteomic data from four independent datasets. PMID:34408238
Decoding disease: from genomes to networks to phenotypes. PMID:34341555
The clinical importance of tandem exon duplication-derived substitutions. PMID:34302486
Compatibility of Distinct Label-Free Proteomic Workflows in Absolute Quantification of Proteins Linked to the Oocyte Quality in Human Follicular Fluid. PMID:34299044
Evaluation of Protein Purification Techniques and Effects of Storage Duration on LC-MS/MS Analysis of Archived FFPE Human CRC Tissues. PMID:34257588
Antagonism of the mu-delta opioid receptor heterodimer enhances opioid antinociception by activating Src and calcium/calmodulin-dependent protein kinase II signaling. PMID:34252907
A ciliopathy complex builds distal appendages to initiate ciliogenesis. PMID:34241634
ATR regulates neuronal activity by modulating presynaptic firing. PMID:34210973
Exploring the Metabolic Heterogeneity of Cancers: A Benchmark Study of Context-Specific Models. PMID:34205912
Old World Vipers-A Review about Snake Venom Proteomics of Viperinae and Their Variations. PMID:34204565
Universal Spectrum Identifier for mass spectra. PMID:34183830
Surface-Shaving Proteomics of Mycobacterium marinum Identifies Biofilm Subtype-Specific Changes Affecting Virulence, Tolerance, and Persistence. PMID:34156290
Evidence for nutrient-dependent regulation of the COPII coat by O-GlcNAcylation. PMID:34142147
Systematic analysis of lysine 2-hydroxyisobutyrylation posttranslational modification in wheat leaves. PMID:34138952
Intrinsic OXPHOS limitations underlie cellular bioenergetics in leukemia. PMID:34132194
Development of an inexpensive matrix-assisted laser desorption-time of flight mass spectrometry method for the identification of endophytes and rhizobacteria cultured from the microbiome associated with maize. PMID:34123583
Proteomics-Based Insights Into the SARS-CoV-2-Mediated COVID-19 Pandemic: A Review of the First Year of Research. PMID:34089862
Clinical Assay for the Early Detection of Colorectal Cancer Using Mass Spectrometric Wheat Germ Agglutinin Multiple Reaction Monitoring. PMID:34063271
Large-scale identification of protein histidine methylation in human cells. PMID:34046594
Assessing the functional relevance of splice isoforms. PMID:34046593
ARP-T1-associated Bazex-Dupré-Christol syndrome is an inherited basal cell cancer with ciliary defects characteristic of ciliopathies. PMID:33972689
Modulated Electro-Hyperthermia Induces a Prominent Local Stress Response and Growth Inhibition in Mouse Breast Cancer Isografts. PMID:33917524
Glycan-Induced Protein Dynamics in Human Norovirus P Dimers Depend on Virus Strain and Deamidation Status. PMID:33917179
G-Protein-coupled Estrogen Receptor 1 Agonist G-1 Perturbs Sunitinib Resistance-related Phosphoproteomic Signatures in Renal Cell Carcinoma. PMID:33893075
Chaperone-mediated autophagy prevents collapse of the neuronal metastable proteome. PMID:33891876
TPL-2 kinase induces phagosome acidification to promote macrophage killing of bacteria. PMID:33881780
GeenaR: A Web Tool for Reproducible MALDI-TOF Analysis. PMID:33854526
Proteomics characterisation of the L929 cell supernatant and its role in BMDM differentiation. PMID:33853969
BET inhibition blocks inflammation-induced cardiac dysfunction and SARS-CoV-2 infection. PMID:33811809
INPP5K and SIL1 associated pathologies with overlapping clinical phenotypes converge through dysregulation of PHGDH. PMID:33792664
Coagulation factor IX analysis in bioreactor cell culture supernatant predicts quality of the purified product. PMID:33758337
Cardiovascular informatics: building a bridge to data harmony. PMID:33751044
Cooperative treatment effectiveness of ATR and HSP90 inhibition in Ewing's sarcoma cells. PMID:33743824
Global analysis of lysine 2-hydroxyisobutyrylation in wheat root. PMID:33737719
The SARS-CoV-2 subgenome landscape and its novel regulatory features. PMID:33713597
Oryza sativa cv. Nipponbare and Oryza barthii as Unexpected Tolerance and Susceptibility Sources Against Schizotetranychus oryzae (Acari: Tetranychidae) Mite Infestation. PMID:33643348
Identification of novel lipid droplet factors that regulate lipophagy and cholesterol efflux in macrophage foam cells. PMID:33590792
A Grad-seq View of RNA and Protein Complexes in Pseudomonas aeruginosa under Standard and Bacteriophage Predation Conditions. PMID:33563827
The canine activated platelet secretome (CAPS): A translational model of thrombin-evoked platelet activation response. PMID:33537530
Chronic caloric restriction maintains a youthful phosphoproteome in aged skeletal muscle. PMID:33529682
SUMOylation regulates the protein network and chromatin accessibility at glucocorticoid receptor-binding sites. PMID:33524141
Isolation and characterization of extracellular vesicle subpopulations from tissues. PMID:33495626
SP3-FAIMS Chemoproteomics for High-Coverage Profiling of the Human Cysteinome*. PMID:33442901
Mammalian cell proliferation requires noncatalytic functions of O-GlcNAc transferase. PMID:33419956
Aberrant splicing isoforms detected by full-length transcriptome sequencing as transcripts of potential neoantigens in non-small cell lung cancer. PMID:33397462
Multi-omics data integration considerations and study design for biological systems and disease. PMID:33347526
Fast Deisotoping Algorithm and Its Implementation in the MSFragger Search Engine. PMID:33332123
Single Mutation in the NFU1 Gene Metabolically Reprograms Pulmonary Artery Smooth Muscle Cells. PMID:33297749
Comparative Proteomic Analysis of Walnut (Juglans regia L.) Pellicle Tissues Reveals the Regulation of Nut Quality Attributes. PMID:33261033
Profiling the Murine SUMO Proteome in Response to Cardiac Ischemia and Reperfusion Injury. PMID:33260959
Top-Down Proteomics of Endogenous Membrane Proteins Enabled by Cloud Point Enrichment and Multidimensional Liquid Chromatography-Mass Spectrometry. PMID:33231430
The expression of the acarbose biosynthesis gene cluster in Actinoplanes sp. SE50/110 is dependent on the growth phase. PMID:33225887
Abundance of metalloprotease FtsH12 modulates chloroplast development in Arabidopsis thaliana. PMID:33216923
Analysis of complement deposition and processing on Chlamydia trachomatis. PMID:33206237
Development and Comparative Evaluation of Endolysosomal Proximity Labeling-Based Proteomic Methods in Human iPSC-Derived Neurons. PMID:33201688
Sirtuin 5 Is Regulated by the SCFCyclin F Ubiquitin Ligase and Is Involved in Cell Cycle Control. PMID:33168699
The catalytic activity of the translation termination factor methyltransferase Mtq2-Trm112 complex is required for large ribosomal subunit biogenesis. PMID:33166396
Insights from the First Phosphopeptide Challenge of the MS Resource Pillar of the HUPO Human Proteome Project. PMID:33166149
Molecular Surgery: Proteomics of a Rare Genetic Disease Gives Insight into Common Causes of Blindness. PMID:33134897
The Dynamic Proteome of Oligodendrocyte Lineage Differentiation Features Planar Cell Polarity and Macroautophagy Pathways. PMID:33128372
Characteristics of the Protein Complexes and Pores Formed by Bacillus cereus Hemolysin BL. PMID:33114414
Novel approach to quantify mitochondrial content and intrinsic bioenergetic efficiency across organs. PMID:33077793
OpenPepXL: An Open-Source Tool for Sensitive Identification of Cross-Linked Peptides in XL-MS. PMID:33067342
A Comprehensive Subcellular Atlas of the Toxoplasma Proteome via hyperLOPIT Provides Spatial Context for Protein Functions. PMID:33053376
MSpectraAI: a powerful platform for deciphering proteome profiling of multi-tumor mass spectrometry data by using deep neural networks. PMID:33028193
Fast and comprehensive N- and O-glycoproteomics analysis with MSFragger-Glyco. PMID:33020657
An analysis of tissue-specific alternative splicing at the protein level. PMID:33017396
Viral Perturbation of Alternative Splicing of a Host Transcript Benefits Infection. PMID:32958561
Diabetic nephropathy associates with deregulation of enzymes involved in kidney sulphur metabolism. PMID:32935914
MassIVE.quant: a community resource of quantitative mass spectrometry-based proteomics datasets. PMID:32929271
Peptide-Spectrum Match Validation with Internal Standards (P-VIS): Internally-Controlled Validation of Mass Spectrometry-Based Peptide Identifications. PMID:32924495
Some like it hot: population-specific adaptations in venom production to abiotic stressors in a widely distributed cnidarian. PMID:32907568
Technical report: Targeted proteomic analysis reveals enrichment of atypical ubiquitin chains in contractile murine tissues. PMID:32898700
Histone chaperone FACT represses retrotransposon MERVL and MERVL-derived cryptic promoters. PMID:32894293
Mutant thermal proteome profiling for characterization of missense protein variants and their associated phenotypes within the proteome. PMID:32878984
Lowering Sample Requirements to Study Tyrosine Kinase Signaling Using Phosphoproteomics with the TMT Calibrator Approach. PMID:32865326
Pseudomonas aeruginosa Presents Multiple Vital Changes in Its Proteome in the Presence of 3-Hydroxyphenylacetic Acid, a Promising Antimicrobial Agent. PMID:32832748
Cell density-dependent proteolysis by HtrA1 induces translocation of zyxin to the nucleus and increased cell survival. PMID:32826880
NCKAP1L defects lead to a novel syndrome combining immunodeficiency, lymphoproliferation, and hyperinflammation. PMID:32766723
Time-Dependent miRNA Profile during Septic Acute Kidney Injury in Mice. PMID:32727087
Potential mechanisms of action of celastrol against rheumatoid arthritis: Transcriptomic and proteomic analysis. PMID:32726313
Proteomic Study of the Survival and Resuscitation Mechanisms of Filamentous Persisters in an Evolved Escherichia coli Population from Cyclic Ampicillin Treatment. PMID:32723793
Piggybacking on Classical Import and Other Non-Classical Mechanisms of Nuclear Import Appear Highly Prevalent within the Human Proteome. PMID:32718019
A comparison of proteomic, genomic, and osteological methods of archaeological sex estimation. PMID:32681049
Extreme Acetylation of the Cardiac Mitochondrial Proteome Does Not Promote Heart Failure. PMID:32660330
Global discovery of bacterial RNA-binding proteins by RNase-sensitive gradient profiles reports a new FinO domain protein. PMID:32646969
The liver matrisome - looking beyond collagens. PMID:32637906
Dual lysine and N-terminal acetyltransferases reveal the complexity underpinning protein acetylation. PMID:32633465
Architecture and functional dynamics of the pentafunctional AROM complex. PMID:32632294
RNA aptamer capture of macromolecular complexes for mass spectrometry analysis. PMID:32609809
N-glycomic profiling of colorectal cancer according to tumor stage and location. PMID:32598367
Absence of miRNA-146a Differentially Alters Microglia Function and Proteome. PMID:32582192
The Archaeal Proteome Project advances knowledge about archaeal cell biology through comprehensive proteomics. PMID:32561711
Dynamic RNA acetylation revealed by quantitative cross-evolutionary mapping. PMID:32555463
Shotgun proteomics reveals putative polyesterases in the secretome of the rock-inhabiting fungus Knufia chersonesos. PMID:32555357
Kir2.1 Interactome Mapping Uncovers PKP4 as a Modulator of the Kir2.1-Regulated Inward Rectifier Potassium Currents. PMID:32541000
The Progression of Acute Myeloid Leukemia from First Diagnosis to Chemoresistant Relapse: A Comparison of Proteomic and Phosphoproteomic Profiles. PMID:32512867
A SARS-CoV-2-Human Protein-Protein Interaction Map Reveals Drug Targets and Potential Drug-Repurposing. PMID:32511329
Identification of TUBB2A by quantitative proteomic analysis as a novel biomarker for the prediction of distant metastatic breast cancer. PMID:32489334
The protein kinase PknB negatively regulates biosynthesis and trafficking of mycolic acids in mycobacteria. PMID:32487543
Plasma protein expression differs between colorectal cancer patients depending on primary tumor location. PMID:32452655
Proteome Cold-Shock Response in the Extremely Acidophilic Archaeon, Cuniculiplasma divulgatum. PMID:32438588
TASL is the SLC15A4-associated adaptor for IRF5 activation by TLR7-9. PMID:32433612
Relative and Quantitative Phosphoproteome Analysis of Macrophages in Response to Infection by Virulent and Avirulent Mycobacteria Reveals a Distinct Role of the Cytosolic RNA Sensor RIG-I in Mycobacterium tuberculosis Pathogenesis. PMID:32407090
Structural venomics reveals evolution of a complex venom by duplication and diversification of an ancient peptide-encoding gene. PMID:32398368
Discovery of Widespread Host Protein Interactions with the Pre-replicated Genome of CHIKV Using VIR-CLASP. PMID:32380061
Protein markers for Candida albicans EVs include claudin-like Sur7 family proteins. PMID:32363014
A SARS-CoV-2 protein interaction map reveals targets for drug repurposing. PMID:32353859
Flow-induced Reorganization of Laminin-integrin Networks Within the Endothelial Basement Membrane Uncovered by Proteomics. PMID:32332107
A proximity-labeling proteomic approach to investigate invadopodia molecular landscape in breast cancer cells. PMID:32321993
Hemocyte phagosomal proteome is dynamically shaped by cytoskeleton remodeling and interorganellar communication with endoplasmic reticulum during phagocytosis in a marine invertebrate, Crassostrea gigas. PMID:32313134
Structure-function analyses of the G729R 2-oxoadipate dehydrogenase genetic variant associated with a disorder of l-lysine metabolism. PMID:32303640
Preoperative Radiotherapy Leads to Significant Differences in the Plasma Protein Profile of Rectal Cancer Patients. PMID:32294655
Primary Metabolism Is Distinctly Modulated by Plant Resistance Inducers in Coffea arabica Leaves Infected by Hemileia vastatrix. PMID:32265962
Response of Midgut Trypsin- and Chymotrypsin-Like Proteases of Helicoverpa armigera Larvae Upon Feeding With Peanut BBI: Biochemical and Biophysical Characterization of PnBBI. PMID:32265951
Unbiased Proteomic Approach Identifies Pathobiological Profiles in the Brains of Preclinical Models of Repetitive Mild Traumatic Brain Injury, Tauopathy, and Amyloidosis. PMID:32241177
Proteome Analysis in a Mammalian Cell line Reveals that PLK2 is Involved in Avian Metapneumovirus Type C (aMPV/C)-Induced Apoptosis. PMID:32231136
β-Catenin/CBP inhibition alters epidermal growth factor receptor fucosylation status in oral squamous cell carcinoma. PMID:32203567
Chromosome organization by a conserved condensin-ParB system in the actinobacterium Corynebacterium glutamicum. PMID:32198399
Photoprotective Acclimation of the Arabidopsis thaliana Leaf Proteome to Fluctuating Light. PMID:32194630
Membrane Modulation of Super-Secreting "midiBacillus" Expressing the Major Staphylococcus aureus Antigen - A Mass-Spectrometry-Based Absolute Quantification Approach. PMID:32185169
Polycysteine-encoding leaderless short ORFs function as cysteine-responsive attenuators of operonic gene expression in mycobacteria. PMID:32181921
Fast and Robust Proteome Screening Platform Identifies Neutrophil Extracellular Trap Formation in the Lung in Response to Cobalt Ferrite Nanoparticles. PMID:32167280
Two distinct modes of DNMT1 recruitment ensure stable maintenance DNA methylation. PMID:32144273
Automated sample preparation with SP3 for low-input clinical proteomics. PMID:32129943
Plasmodium chaperonin TRiC/CCT identified as a target of the antihistamine clemastine using parallel chemoproteomic strategy. PMID:32127489
Cyclosporine A inhibits MRTF-SRF signaling through Na+/K+ ATPase inhibition and actin remodeling. PMID:32123851
Identification of several plasma proteins whose levels in colorectal cancer patients differ depending on outcome. PMID:32123817
Subcellular proteomics combined with bioenergetic phenotyping reveals protein biomarkers of respiratory insufficiency in the setting of proofreading-deficient mitochondrial polymerase. PMID:32107436
β2-Adrenergic Signalling Promotes Cell Migration by Upregulating Expression of the Metastasis-Associated Molecule LYPD3. PMID:32098331
Depletion of histone methyltransferase KMT9 inhibits lung cancer cell proliferation by inducing non-apoptotic cell death. PMID:32095117
Quantitative proteomics analysis reveals important roles of N-glycosylation on ER quality control system for development and pathogenesis in Magnaporthe oryzae. PMID:32092131
Changes in the proteome of sea urchin Paracentrotus lividus coelomocytes in response to LPS injection into the body cavity. PMID:32074628
hipBA toxin-antitoxin systems mediate persistence in Caulobacter crescentus. PMID:32071324
Structural insights into the main S-layer unit of Deinococcus radiodurans reveal a massive protein complex with porin-like features. PMID:32071085
Identification of proteins from the secretory/excretory products (SEPs) of the branchiuran ectoparasite Argulus foliaceus (Linnaeus, 1758) reveals unique secreted proteins amongst haematophagous ecdysozoa. PMID:32070416
Inference of Multisite Phosphorylation Rate Constants and Their Modulation by Pathogenic Mutations. PMID:32059766
Comprehensive Detection of Single Amino Acid Variants and Evaluation of Their Deleterious Potential in a PANC-1 Cell Line. PMID:32058723
Respiratory chain signalling is essential for adaptive remodelling following cardiac ischaemia. PMID:32040259
Protein sorting into protein bodies during barley endosperm development is putatively regulated by cytoskeleton members, MVBs and the HvSNF7s. PMID:32024857
Inverse Data-Driven Modeling and Multiomics Analysis Reveals Phgdh as a Metabolic Checkpoint of Macrophage Polarization and Proliferation. PMID:32023468
Comparative proteomic analysis reveals that exogenous 6-benzyladenine (6-BA) improves the defense system activity of waterlogged summer maize. PMID:31996151
Metabolic syndrome diminishes insulin-induced Akt activation and causes a redistribution of Akt-interacting proteins in cardiomyocytes. PMID:31995605
Combined proteomics/miRNomics of dendritic cell immunotherapy-treated glioblastoma patients as a screening for survival-associated factors. PMID:31969991
Mechanism of adrenergic CaV1.2 stimulation revealed by proximity proteomics. PMID:31969708
Dynamic post-translational modification profiling of Mycobacterium tuberculosis-infected primary macrophages. PMID:31951200
Gigaxonin glycosylation regulates intermediate filament turnover and may impact giant axonal neuropathy etiology or treatment. PMID:31944090
Growth Mode and Physiological State of Cells Prior to Biofilm Formation Affect Immune Evasion and Persistence of Staphylococcus aureus. PMID:31940921
Rhomboid intramembrane protease YqgP licenses bacterial membrane protein quality control as adaptor of FtsH AAA protease. PMID:31930742
The Acute Phase Response Is a Prominent Renal Proteome Change in Sepsis in Mice. PMID:31892161
A Similar Secretome Disturbance as a Hallmark of Non-pathogenic Botrytis cinerea ATMT-Mutants? PMID:31866989
Proteomic analysis of the second-generation merozoites of Eimeria tenella under nitromezuril and ethanamizuril stress. PMID:31852494
The Peptide Venom Composition of the Fierce Stinging Ant Tetraponera aethiops (Formicidae: Pseudomyrmecinae). PMID:31847368
Proteomics: a powerful tool to study plant responses to biotic stress. PMID:31832077
Splice-Junction-Based Mapping of Alternative Isoforms in the Human Proteome. PMID:31825849
The deubiquitinase USP7 stabilizes Maf proteins to promote myeloma cell survival. PMID:31822558
Global analysis of lysine succinylation in patchouli plant leaves. PMID:31814986
Cardioinformatics: the nexus of bioinformatics and precision cardiology. PMID:31802103
The Disulfide Stress Response and Protein S-thioallylation Caused by Allicin and Diallyl Polysulfanes in Bacillus subtilis as Revealed by Transcriptomics and Proteomics. PMID:31795512
Programmed DNA elimination of germline development genes in songbirds. PMID:31784533
Glycogen branching enzyme controls cellular iron homeostasis via Iron Regulatory Protein 1 and mitoNEET. PMID:31784520
Federating Structural Models and Data: Outcomes from A Workshop on Archiving Integrative Structures. PMID:31780431
Moonlighting matrix metalloproteinase substrates: Enhancement of proinflammatory functions of extracellular tyrosyl-tRNA synthetase upon cleavage. PMID:31771979
JASPer controls interphase histone H3S10 phosphorylation by chromosomal kinase JIL-1 in Drosophila. PMID:31767855
Serum extracellular vesicles contain SPARC and LRG1 as biomarkers of colon cancer and differ by tumour primary location. PMID:31753726
The Human Immunopeptidome Project: A Roadmap to Predict and Treat Immune Diseases. PMID:31744855
TMX2 Is a Crucial Regulator of Cellular Redox State, and Its Dysfunction Causes Severe Brain Developmental Abnormalities. PMID:31735293
Assessing Protein Sequence Database Suitability Using De Novo Sequencing. PMID:31732549
Proteomic profiling of the thrombin-activated canine platelet secretome (CAPS). PMID:31721811
Tau interactome analyses in CRISPR-Cas9 engineered neuronal cells reveal ATPase-dependent binding of wild-type but not P301L Tau to non-muscle myosins. PMID:31700063
yRACK1/Asc1 proxiOMICs-Towards Illuminating Ships Passing in the Night. PMID:31689955
The ProteomeXchange consortium in 2020: enabling 'big data' approaches in proteomics. PMID:31686107
Loss of FBXO9 Enhances Proteasome Activity and Promotes Aggressiveness in Acute Myeloid Leukemia. PMID:31684170
Integrative proteomic and phosphoproteomic profiling of prostate cell lines. PMID:31675377
Dataset of Nematostella vectensis Hsp70 isoform interactomes upon heat shock. PMID:31673583
Ageing and amyloidosis underlie the molecular and pathological alterations of tau in a mouse model of familial Alzheimer's disease. PMID:31673052
Experimental data from flesh quality assessment and shelf life monitoring of high pressure processed European sea bass (Dicentrarchus labrax) fillets. PMID:31667223
MaGenDB: a functional genomics hub for Malvaceae plants. PMID:31665439
An RNA guanine quadruplex regulated pathway to TRAIL-sensitization by DDX21. PMID:31653714
Arsenic Response of Three Altiplanic Exiguobacterium Strains With Different Tolerance Levels Against the Metalloid Species: A Proteomics Study. PMID:31611848
Human Proteome Project Mass Spectrometry Data Interpretation Guidelines 3.0. PMID:31599596
MatrisomeDB: the ECM-protein knowledge database. PMID:31586405
Artificial fingerprints for cross-comparison of forensic DNA and protein recovery methods. PMID:31581206
Mass Spectrometry-Based Plasma Proteomics: Considerations from Sample Collection to Achieving Translational Data. PMID:31573204
Zika virus enhances monocyte adhesion and transmigration favoring viral dissemination to neural cells. PMID:31562326
2018 YPIC Challenge: A Case Study in Characterizing an Unknown Protein Sample. PMID:31556620
Sample Preservation and Storage Significantly Impact Taxonomic and Functional Profiles in Metaproteomics Studies of the Human Gut Microbiome. PMID:31546776
Liver proteome dataset of Sparus aurata exposed to low temperatures. PMID:31528672
Nuclear control of lung cancer cells migration, invasion and bioenergetics by eukaryotic translation initiation factor 3F. PMID:31527668
Recurrent GNAQ mutation encoding T96S in natural killer/T cell lymphoma. PMID:31527657
The RNA-mediated estrogen receptor α interactome of hormone-dependent human breast cancer cell nuclei. PMID:31527615
Ligandomes obtained from different HLA-class II-molecules are homologous for N- and C-terminal residues outside the peptide-binding cleft. PMID:31520135
Chemical Derivatization of Affinity Matrices Provides Protection from Tryptic Proteolysis. PMID:31498634
Conservation and divergence of protein pathways in the vertebrate heart. PMID:31490923
Interrogation of a live-attenuated enterotoxigenic Escherichia coli vaccine highlights features unique to wild-type infection. PMID:31482013
Impact of poly(A)-tail G-content on Arabidopsis PAB binding and their role in enhancing translational efficiency. PMID:31481099
Sensitive Determination of Proteolytic Proteoforms in Limited Microscale Proteome Samples. PMID:31471496
SILAC-Based Quantification of TGFBR2-Regulated Protein Expression in Extracellular Vesicles of Microsatellite Unstable Colorectal Cancers. PMID:31454892
Extremely Fast and Accurate Open Modification Spectral Library Searching of High-Resolution Mass Spectra Using Feature Hashing and Graphics Processing Units. PMID:31448616
The Effects of Sindbis Viral Vectors on Neuronal Function. PMID:31440143
Progress on Identifying and Characterizing the Human Proteome: 2019 Metrics from the HUPO Human Proteome Project. PMID:31430157
Interplay between the bacterial protein deacetylase CobB and the second messenger c-di-GMP. PMID:31418899
A Novel Pyrazolopyrimidine Ligand of Human PGK1 and Stress Sensor DJ1 Modulates the Shelterin Complex and Telomere Length Regulation. PMID:31401411
Quantifying the impact of public omics data. PMID:31383865
Resistance in marine cyanobacteria differs against specialist and generalist cyanophages. PMID:31383764
Defining Protein Pattern Differences Among Molecular Subtypes of Diffuse Gliomas Using Mass Spectrometry. PMID:31353322
Proteomic Data Integration Highlights Central Actors Involved in Einkorn (Triticum monococcum ssp. monococcum) Grain Filling in Relation to Grain Storage Protein Composition. PMID:31333693
N-terminal β-strand underpins biochemical specialization of an ATG8 isoform. PMID:31329577
Matrix metalloproteinases inactivate the proinflammatory functions of secreted moonlighting tryptophanyl-tRNA synthetase. PMID:31324718
PTMProphet: Fast and Accurate Mass Modification Localization for the Trans-Proteomic Pipeline. PMID:31290668
Antagonistic Interactions between Benzo[a]pyrene and Fullerene (C60) in Toxicological Response of Marine Mussels. PMID:31288459
Reproducibility and Transparency by Design. PMID:31273047
C/EBPβ-LIP induces cancer-type metabolic reprogramming by regulating the let-7/LIN28B circuit in mice. PMID:31240246
Dynamic remodeling of the interactomes of Nematostella vectensis Hsp70 isoforms under heat shock. PMID:31233900
Proteomic analysis of urinary extracellular vesicles reveal biomarkers for neurologic disease. PMID:31229437
Novel interconnections of HOG signaling revealed by combined use of two proteomic software packages. PMID:31208443
Combined transcriptomic and proteomic analysis reveals a diversity of venom-related and toxin-like peptides expressed in the mat anemone Zoanthus natalensis (Cnidaria, Hexacorallia). PMID:31203412
Abundance of bacterial Type VI secretion system components measured by targeted proteomics. PMID:31197144
Detailed Soluble Proteome Analyses of a Dairy-Isolated Enterococcus faecalis: A Possible Approach to Assess Food Safety and Potential Probiotic Value. PMID:31157229
MiR-135a-5p Is Critical for Exercise-Induced Adult Neurogenesis. PMID:31130358
Cadmium tolerance pathway in Anopheles gambiae senso stricto. PMID:31121147
Proteomic insight into the pathogenesis of CAPN5-vitreoretinopathy. PMID:31110225
Sum of peak intensities outperforms peak area integration in iTRAQ protein expression measurement by LC-MS/MS using a TripleTOF 5600+ platform. PMID:31110078
Murine obscurin and Obsl1 have functionally redundant roles in sarcolemmal integrity, sarcoplasmic reticulum organization, and muscle metabolism. PMID:31098411
Proteomics Standards Initiative Extended FASTA Format. PMID:31081335
Multi-omic Profiling Reveals Dynamics of the Phased Progression of Pluripotency. PMID:31078527
Proteomic analysis of meningiomas reveals clinically distinct molecular patterns. PMID:31077268
Multi-omics characterization of the necrotrophic mycoparasite Saccharomycopsis schoenii. PMID:31071195
Comparison of Proteome Composition of Serum Enriched in Extracellular Vesicles Isolated from Polycythemia Vera Patients and Healthy Controls. PMID:31064135
First Community-Wide, Comparative Cross-Linking Mass Spectrometry Study. PMID:31045356
Deep undepleted human serum proteome profiling toward biomarker discovery for Alzheimer's disease. PMID:31019427
Proximity biotinylation identifies a set of conformation-specific interactions between Merlin and cell junction proteins. PMID:31015291
Proteome and transcriptome analyses reveal key molecular differences between quality parameters of commercial-ripe and tree-ripe fig (Ficus carica L.). PMID:30991947
Identification, Quantification, and System Analysis of Protein N-ε Lysine Methylation in Anucleate Blood Platelets. PMID:30977292
Proteogenomics and Hi-C reveal transcriptional dysregulation in high hyperdiploid childhood acute lymphoblastic leukemia. PMID:30944321
Ubiquitin C-terminal hydrolase L1 (UCH-L1) loss causes neurodegeneration by altering protein turnover in the first postnatal weeks. PMID:30923110
A post-translational modification of human Norovirus capsid protein attenuates glycan binding. PMID:30899001
Evaluating Chromatographic Approaches for the Quantitative Analysis of a Human Proteome on Orbitrap-Based Mass Spectrometry Systems. PMID:30884231
Human chorionic gonadotrophin pharmaceutical formulations of urinary origin display high levels of contaminant proteins-A label-free quantitation proteomics study. PMID:30883802
Heterogeneous clinical phenotypes and cerebral malformations reflected by rotatin cellular dynamics. PMID:30879067
Integrated multi-omics approach reveals a role of ALDH1A1 in lipid metabolism in human colon cancer cells. PMID:30851239
A Study into the ADP-Ribosylome of IFN-γ-Stimulated THP-1 Human Macrophage-like Cells Identifies ARTD8/PARP14 and ARTD9/PARP9 ADP-Ribosylation. PMID:30848916
Thylakoid Localized Type 2 NAD(P)H Dehydrogenase NdbA Optimizes Light-Activated Heterotrophic Growth of Synechocystis sp. PCC 6803. PMID:30847494
Global analysis of methionine oxidation provides a census of folding stabilities for the human proteome. PMID:30846556
Differential miRNA expression profile and proteome in plasma exosomes from patients with paroxysmal nocturnal hemoglobinuria. PMID:30837665
The temporal profile of activity-dependent presynaptic phospho-signalling reveals long-lasting patterns of poststimulus regulation. PMID:30822303
System-wide Profiling of RNA-Binding Proteins Uncovers Key Regulators of Virus Infection. PMID:30799147
A mechanism for temporary bioadhesion. PMID:30782790
Identification of dysregulation of atrial proteins in rats with chronic obstructive apnea using two-dimensional polyacrylamide gel electrophoresis and mass spectrometry. PMID:30756508
Mass spectrometry data from identification of host-defense related proteins using label-free quantitative proteomic analysis of milk whey from cows with Staphylococcus aureus subclinical mastitis. PMID:30733978
Respiratory Phenomics across Multiple Models of Protein Hyperacylation in Cardiac Mitochondria Reveals a Marginal Impact on Bioenergetics. PMID:30726738
Annotation of gene product function from high-throughput studies using the Gene Ontology. PMID:30715275
Multi-omics dataset to decipher the complexity of drug resistance in diffuse large B-cell lymphoma. PMID:30696890
Multi-isotype Glycoproteomic Characterization of Serum Antibody Heavy Chains Reveals Isotype- and Subclass-Specific N-Glycosylation Profiles. PMID:30659065
Peptidome profiling dataset of ovarian cancer and non-cancer proximal fluids: Ascites and blood sera. PMID:30627607
Differential Protein Expression During Growth on Medium Versus Long-Chain Alkanes in the Obligate Marine Hydrocarbon-Degrading Bacterium Thalassolituus oleivorans MIL-1. PMID:30619200
Identification of Hybrid Insulin Peptides (HIPs) in Mouse and Human Islets by Mass Spectrometry. PMID:30585061
Quantitative Phosphoproteomic and System-Level Analysis of TOR Inhibition Unravel Distinct Organellar Acclimation in Chlamydomonas reinhardtii. PMID:30546371
Cohesin-mediated NF-κB signaling limits hematopoietic stem cell self-renewal in aging and inflammation. PMID:30530755
Clinical potential of mass spectrometry-based proteogenomics. PMID:30487530
Loss of the Mia40a oxidoreductase leads to hepato-pancreatic insufficiency in zebrafish. PMID:30457989
PPARγ maintains the metabolic heterogeneity and homeostasis of renal tubules. PMID:30420298
Trypanosomes can initiate nuclear export co-transcriptionally. PMID:30418648
Single Amino Acid Variant Discovery in Small Numbers of Cells. PMID:30404448
The PRIDE database and related tools and resources in 2019: improving support for quantification data. PMID:30395289
Proteomics based analysis of the nicotine catabolism in Paenarthrobacter nicotinovorans pAO1. PMID:30390017
Reciprocal inhibition of YAP/TAZ and NF-κB regulates osteoarthritic cartilage degradation. PMID:30385786
Glycerol supports growth of the Trypanosoma brucei bloodstream forms in the absence of glucose: Analysis of metabolic adaptations on glycerol-rich conditions. PMID:30383867
Aspartyl Protease 5 Matures Dense Granule Proteins That Reside at the Host-Parasite Interface in Toxoplasma gondii. PMID:30377279
Inhibition of histone methyltransferase EZH2 in Schistosoma mansoni in vitro by GSK343 reduces egg laying and decreases the expression of genes implicated in DNA replication and noncoding RNA metabolism. PMID:30365505
Raw N-glycan mass spectrometry imaging data on formalin-fixed mouse kidney. PMID:30364692
Integrated Succinylome and Metabolome Profiling Reveals Crucial Role of S-Ribosylhomocysteine Lyase in Quorum Sensing and Metabolism of Aeromonas hydrophila. PMID:30352804
Modular Organization and Assembly of SWI/SNF Family Chromatin Remodeling Complexes. PMID:30343899
OpenProt: a more comprehensive guide to explore eukaryotic coding potential and proteomes. PMID:30299502
The jPOST environment: an integrated proteomics data repository and database. PMID:30295851
Quantitative phosphoproteomic analysis identifies novel functional pathways of tumor suppressor DLC1 in estrogen receptor positive breast cancer. PMID:30278072
Infection-Induced Peroxisome Biogenesis Is a Metabolic Strategy for Herpesvirus Replication. PMID:30269970
iProX: an integrated proteome resource. PMID:30252093
Microscopic and Proteomic Analysis of Dissected Developing Barley Endosperm Layers Reveals the Starchy Endosperm as Prominent Storage Tissue for ER-Derived Hordeins Alongside the Accumulation of Barley Protein Disulfide Isomerase (HvPDIL1-1). PMID:30250475
Proteomics study of human cord blood reticulocyte-derived exosomes. PMID:30232403
Evaluation of Unconventional Protein Secretion by Saccharomyces cerevisiae and other Fungi. PMID:30200367
High-throughput and high-sensitivity phosphoproteomics with the EasyPhos platform. PMID:30190555
Fast Open Modification Spectral Library Searching through Approximate Nearest Neighbor Indexing. PMID:30184435
Assembling the Community-Scale Discoverable Human Proteome. PMID:30172843
Proteomic Analysis of the Function of a Novel Cold-Regulated Multispanning Transmembrane Protein COR413-PM1 in Arabidopsis. PMID:30158496
Plasmodium Parasites Viewed through Proteomics. PMID:30146456
Integrated Dissection of Cysteine Oxidative Post-translational Modification Proteome During Cardiac Hypertrophy. PMID:30141336
Global phosphoproteomic analysis identifies SRMS-regulated secondary signaling intermediates. PMID:30140170
Balancing sufficiency and impact in reporting standards for mass spectrometry imaging experiments. PMID:30124809
An Integrated, High-Throughput Strategy for Multiomic Systems Level Analysis. PMID:30114907
Microscale Reversed-Phase Liquid Chromatography/Capillary Zone Electrophoresis-Tandem Mass Spectrometry for Deep and Highly Sensitive Bottom-Up Proteomics: Identification of 7500 Proteins with Five Micrograms of an MCF7 Proteome Digest. PMID:30102516
Progress on Identifying and Characterizing the Human Proteome: 2018 Metrics from the HUPO Human Proteome Project. PMID:30099871
An overview of Phoneutria nigriventer spider venom using combined transcriptomic and proteomic approaches. PMID:30067761
Effects of cre1 modification in the white-rot fungus Pleurotus ostreatus PC9: altering substrate preference during biological pretreatment. PMID:30065786
Glutamate receptor δ2 serum antibodies in pediatric opsoclonus myoclonus ataxia syndrome. PMID:30045961
SWATH-MS based quantitative proteomics analysis reveals that curcumin alters the metabolic enzyme profile of CML cells by affecting the activity of miR-22/IPO7/HIF-1α axis. PMID:30045750
Proteomic analysis of S-nitrosylated nuclear proteins in rat cortical neurons. PMID:29970601
Proteomic Profiling of Microtubule Self-organization in M-phase. PMID:29970457
Proteomic Analysis of Hippocampus in a Mouse Model of Depression Reveals Neuroprotective Function of Ubiquitin C-terminal Hydrolase L1 (UCH-L1) via Stress-induced Cysteine Oxidative Modifications. PMID:29959188
Using RT-qPCR, Proteomics, and Microscopy to Unravel the Spatio-Temporal Expression and Subcellular Localization of Hordoindolines Across Development in Barley Endosperm. PMID:29951075
Proteomic Analysis of Zika Virus Infected Primary Human Fetal Neural Progenitors Suggests a Role for Doublecortin in the Pathological Consequences of Infection in the Cortex. PMID:29922247
Peptidomics dataset: Blood plasma and serum samples of healthy donors fractionated on a set of chromatography sorbents. PMID:29900295
Quantitative phosphoproteomic analysis of the molecular substrates of sleep need. PMID:29899451
Proteomic and Biochemical Comparison of the Cellular Interaction Partners of Human VPS33A and VPS33B. PMID:29778605
A novel USP9X substrate TTK contributes to tumorigenesis in non-small-cell lung cancer. PMID:29721084
Meta-proteomic analysis of protein expression distinctive to electricity-generating biofilm communities in air-cathode microbial fuel cells. PMID:29713380
SILAC-based phosphoproteomics reveals new PP2A-Cdc55-regulated processes in budding yeast. PMID:29688323
The response to neoadjuvant chemoradiotherapy with 5-fluorouracil in locally advanced rectal cancer patients: a predictive proteomic signature. PMID:29681787
Biocuration: Distilling data into knowledge. PMID:29659566
Homozygous TAF8 mutation in a patient with intellectual disability results in undetectable TAF8 protein, but preserved RNA polymerase II transcription. PMID:29648665
A Cost-Effective High-Throughput Plasma and Serum Proteomics Workflow Enables Mapping of the Molecular Impact of Total Pancreatectomy with Islet Autotransplantation. PMID:29641209
Colorectal cancer patients with different C-reactive protein levels and 5-year survival times can be differentiated with quantitative serum proteomics. PMID:29630649
Challenges and Opportunities for Biological Mass Spectrometry Core Facilities in the Developing World. PMID:29623005
Extracellular Vesicle Subtypes Released From Activated or Apoptotic T-Lymphocytes Carry a Specific and Stimulus-Dependent Protein Cargo. PMID:29599781
Absolute quantification of selected photosynthetic electron transfer proteins in Chlamydomonas reinhardtii in the presence and absence of oxygen. PMID:29594952
Strong cation exchange-reversed phase liquid chromatography-capillary zone electrophoresis-tandem mass spectrometry platform with high peak capacity for deep bottom-up proteomics. PMID:29475469
Application of targeted mass spectrometry in bottom-up proteomics for systems biology research. PMID:29452276
Establishment of Dimethyl Labeling-based Quantitative Acetylproteomics in Arabidopsis. PMID:29440448
Phosphorylation of Ribosomal Protein RPS6 Integrates Light Signals and Circadian Clock Signals. PMID:29403507
Proteome-Wide Characterization of Phosphorylation-Induced Conformational Changes in Breast Cancer. PMID:29332387
Retrovirus-like Gag Protein Arc1 Binds RNA and Traffics across Synaptic Boutons. PMID:29328915
Exploring the molecular complexity of Triatoma dimidiata sialome. PMID:29288089
Identification of Host Defense-Related Proteins Using Label-Free Quantitative Proteomic Analysis of Milk Whey from Cows with Staphylococcus aureus Subclinical Mastitis. PMID:29283389
Insights into the Proteome of Gastrointestinal Stromal Tumors-Derived Exosomes Reveals New Potential Diagnostic Biomarkers. PMID:29242380
The European Bioinformatics Institute in 2017: data coordination and integration. PMID:29186510
Expression Atlas: gene and protein expression across multiple studies and organisms. PMID:29165655
A Proteomic Approach to Investigate the Drought Response in the Orphan Crop Eragrostis tef. PMID:29140297
Characterization of the Molecular Mechanisms Underlying Glucose Stimulated Insulin Secretion from Isolated Pancreatic β-cells Using Post-translational Modification Specific Proteomics (PTMomics). PMID:29113996
ALS Associated Mutations in Matrin 3 Alter Protein-Protein Interactions and Impede mRNA Nuclear Export. PMID:29109432
MEERCAT: Multiplexed Efficient Cell Free Expression of Recombinant QconCATs For Large Scale Absolute Proteome Quantification. PMID:29055021
Progress on the HUPO Draft Human Proteome: 2017 Metrics of the Human Proteome Project. PMID:28853897
Proteomics Standards Initiative: Fifteen Years of Progress and Future Work. PMID:28849660
Identification of new protein-coding genes with a potential role in the virulence of the plant pathogen Xanthomonas euvesicatoria. PMID:28814272
OLS Client and OLS Dialog: Open Source Tools to Annotate Public Omics Datasets. PMID:28792687
A community proposal to integrate proteomics activities in ELIXIR. PMID:28713550
Quantitative Proteomics Analysis of Plasmodium vivax Induced Alterations in Human Serum during the Acute and Convalescent Phases of Infection. PMID:28667326
Protein Kinase CK2: Intricate Relationships within Regulatory Cellular Networks. PMID:28273877
Differential Protein Expression Marks the Transition From Infection With Opisthorchis viverrini to Cholangiocarcinoma. PMID:28232516
A Golden Age for Working with Public Proteomics Data. PMID:28118949
jPOSTrepo: an international standard data repository for proteomes. PMID:27899654
The ProteomeXchange consortium in 2020: enabling 'big data' approaches in proteomics PubMed citations: 202.

202 articles citing: The ProteomeXchange consortium in 2020: enabling 'big data' approaches in proteomics

Emerging Computational Approaches for Antimicrobial Peptide Discovery. PMID:35884190
On the Compatibility of Fish Meal Replacements in Aquafeeds for Rainbow Trout. A Combined Metabolomic, Proteomic and Histological Study. PMID:35846007
The surfaceome of multiple myeloma cells suggests potential immunotherapeutic strategies and protein markers of drug resistance. PMID:35840578
Scalable multiplex co-fractionation/mass spectrometry platform for accelerated protein interactome discovery. PMID:35831314
Proteomic characterisation of triple negative breast cancer cells following CDK4/6 inhibition. PMID:35817775
Yu-Ping-Feng Formula Ameliorates Alveolar-Capillary Barrier Injury Induced by Exhausted-Exercise via Regulation of Cytoskeleton. PMID:35814249
Proteomics Insights into the Gene Network of cis9, trans11-Conjugated Linoleic Acid Biosynthesis in Bovine Mammary Gland Epithelial Cells. PMID:35804617
Proteomic Analysis of Chicken Chorioallantoic Membrane (CAM) during Embryonic Development Provides Functional Insight. PMID:35774275
SPD_0090 Negatively Contributes to Virulence of Streptococcus pneumoniae. PMID:35770170
Internal Standard Triggered-Parallel Reaction Monitoring Mass Spectrometry Enables Multiplexed Quantification of Candidate Biomarkers in Plasma. PMID:35767427
Chemical Genetic Validation of CSNK2 Substrates Using an Inhibitor-Resistant Mutant in Combination with Triple SILAC Quantitative Phosphoproteomics. PMID:35755813
Prediction and Experimental Validation of a New Salinity-Responsive Cis-Regulatory Element (CRE) in a Tilapia Cell Line. PMID:35743818
Single-Cell Chemical Proteomics (SCCP) Interrogates the Timing and Heterogeneity of Cancer Cell Commitment to Death. PMID:35731985
Prolyl Isomerization-Mediated Conformational Changes Define ATR Subcellular Compartment-Specific Functions. PMID:35721505
RANBP2 and USP9x regulate nuclear import of adenovirus minor coat protein IIIa. PMID:35709296
Implementing the reuse of public DIA proteomics datasets: from the PRIDE database to Expression Atlas. PMID:35701420
5'isomiR-183-5p|+2 elicits tumor suppressor activity in a negative feedback loop with E2F1. PMID:35655310
Mistargeting of aggregation prone mitochondrial proteins activates a nucleus-mediated posttranscriptional quality control pathway in trypanosomes. PMID:35654893
Proteomic alteration of endometrial tissues during secretion in polycystic ovary syndrome may affect endometrial receptivity. PMID:35643455
iTRAQ proteomics of sentinel lymph nodes for identification of extracellular matrix proteins to flag metastasis in early breast cancer. PMID:35599267
Systems-wide analysis revealed shared and unique responses to moderate and acute high temperatures in the green alga Chlamydomonas reinhardtii. PMID:35562408
Tetraspanins distinguish separate extracellular vesicle subpopulations in human serum and plasma - Contributions of platelet extracellular vesicles in plasma samples. PMID:35524458
Data of chemical composition of the particles from OH-initiated oxidation of 1,3,5-trimethylbenzene. PMID:35496493
Radiation-Induced Bystander Effect Mediated by Exosomes Involves the Replication Stress in Recipient Cells. PMID:35456987
Comparative Proteomic Analysis of Rhizoctonia solani Isolates Identifies the Differentially Expressed Proteins with Roles in Virulence. PMID:35448601
Analysis of human brain tissue derived from DBS surgery. PMID:35418104
A Proteomic Analysis Indicates That Oxidative Stress Is the Common Feature Triggering Antibiotic Production in Streptomyces coelicolor and in the pptA Mutant of Streptomyces lividans. PMID:35392450
Acetate Degradation at Low pH by the Moderately Acidophilic Sulfate Reducer Acididesulfobacillus acetoxydans gen. nov. sp. nov. PMID:35391737
Downregulation of KRAB zinc finger proteins in 5-fluorouracil resistant colorectal cancer cells. PMID:35379199
Immunopeptidomic analyses of colorectal cancers with and without microsatellite instability. PMID:35367648
Comprehensive spectral libraries for various rabbit eye tissue proteomes. PMID:35351915
Identification and Characterization of Three Chitinases with Potential in Direct Conversion of Crystalline Chitin into N,N'-diacetylchitobiose. PMID:35323464
Discoidin Domain Receptor 2 orchestrates melanoma resistance combining phenotype switching and proliferation. PMID:35322197
A point mutation in HIV-1 integrase redirects proviral integration into centromeric repeats. PMID:35304442
Shotgun and TMT-Labeled Proteomic Analysis of the Ovarian Proteins of an Insect Vector, Aedes aegypti (Diptera: Culicidae). PMID:35303100
Characterization of a highly diverged mitochondrial ATP synthase Fo subunit in Trypanosoma brucei. PMID:35293314
Parallel kinase pathways stimulate actin polymerization at depolarized mitochondria. PMID:35290799
Proteomics Standards Initiative's ProForma 2.0: Unifying the Encoding of Proteoforms and Peptidoforms. PMID:35290070
Outer Membrane Vesicles of Acinetobacter baumannii DS002 Are Selectively Enriched with TonB-Dependent Transporters and Play a Key Role in Iron Acquisition. PMID:35266817
Proteome dataset of sea bass (Dicentrarchus labrax) skin-scales exposed to fluoxetine and estradiol. PMID:35252491
Identification and characterization of Crumbs polarity complex proteins in Caenorhabditis elegans. PMID:35247383
Cell Membrane Remodeling Mediates Polymyxin B Resistance in Klebsiella pneumoniae: An Integrated Proteomics and Metabolomics Study. PMID:35222333
Chemical probing provides insight into the native assembly state of a bacterial microcompartment. PMID:35216657
Review of Liquid Chromatography-Mass Spectrometry-Based Proteomic Analyses of Body Fluids to Diagnose Infectious Diseases. PMID:35216306
Intercepting IRE1 kinase-FMRP signaling prevents atherosclerosis progression. PMID:35191199
Regulated cell death joins in atherosclerotic plaque silent progression. PMID:35181730
Mapping Proteome Changes in Microsatellite Stable, Recurrent Colon Cancer Reveals a Significant Immune System Signature. PMID:35181583
Machine vs. Radiologist-Based Translations of RadLex: Implications for Multi-language Report Interoperability. PMID:35166969
Unravelling the Helianthus tuberosus L. (Jerusalem Artichoke, Kiku-Imo) Tuber Proteome by Label-Free Quantitative Proteomics. PMID:35164374
Multiple Abiotic Stresses Applied Simultaneously Elicit Distinct Responses in Two Contrasting Rice Cultivars. PMID:35163659
S100A4/TCF Complex Transcription Regulation Drives Epithelial-Mesenchymal Transition in Chronic Sinusitis Through Wnt/GSK-3β/β-Catenin Signaling. PMID:35154161
Drosophila female reproductive glands contribute to mating plug composition and the timing of sperm ejection. PMID:35105240
The NEDD8-activating enzyme inhibitor MLN4924 reduces ischemic brain injury in mice. PMID:35101976
The kidney releases a nonpolymerizing form of uromodulin in the urine and circulation that retains the external hydrophobic patch domain. PMID:35100812
Biological and Molecular Effects of Trypanosoma cruzi Residence in a LAMP-Deficient Intracellular Environment. PMID:35071040
Mapping of a N-terminal α-helix domain required for human PINK1 stabilization, Serine228 autophosphorylation and activation in cells. PMID:35042401
Discrimination of Tilletia controversa from the T. caries/T. laevis complex by MALDI-TOF MS analysis of teliospores. PMID:35037998
Comparative secretome analysis of Staphylococcus aureus strains with different within-herd intramammary infection prevalence. PMID:35030987
Extracellular Vesicles from Pancreatic Cancer Stem Cells Lead an Intratumor Communication Network (EVNet) to fuel tumour progression. PMID:35012996
Insights into the Structure and Protein Composition of Moorella thermoacetica Spores Formed at Different Temperatures. PMID:35008975
Circulating microvesicles and exosomes in small cell lung cancer by quantitative proteomics. PMID:34996345
The 2022 Nucleic Acids Research database issue and the online molecular biology database collection. PMID:34986604
Sod1 integrates oxygen availability to redox regulate NADPH production and the thiol redoxome. PMID:34969852
A specific inhibitor of ALDH1A3 regulates retinoic acid biosynthesis in glioma stem cells. PMID:34934174
Genotypic, proteomic, and phenotypic approaches to decipher the response to caspofungin and calcineurin inhibitors in clinical isolates of echinocandin-resistant Candida glabrata. PMID:34893830
iProX in 2021: connecting proteomics data sharing with big data. PMID:34871441
Multi-modal Profiling of the Extracellular Matrix of Human Fallopian Tubes and Serous Tubal Intraepithelial Carcinomas. PMID:34866441
Time-restricted feeding induces Lactobacillus- and Akkermansia-specific functional changes in the rat fecal microbiota. PMID:34862421
Targeted Mass Spectrometry Enables Multiplexed Quantification of Immunomodulatory Proteins in Clinical Biospecimens. PMID:34858420
A Standardized Brain Molecular Atlas: A Resource for Systems Modeling and Simulation. PMID:34858137
CRYPTOCHROMES promote daily protein homeostasis. PMID:34842284
Targeting conserved N-glycosylation blocks SARS-CoV-2 variant infection in vitro. PMID:34839261
Comprehensive Atlas of the Myelin Basic Protein Interaction Landscape. PMID:34827627
Capacitive interdigitated system of high osteoinductive/conductive performance for personalized acting-sensing implants. PMID:34815414
Evaluation of Differential Peptide Loading on Tandem Mass Tag-Based Proteomic and Phosphoproteomic Data Quality. PMID:34813325
Descriptive proteomics of paired human vocal fold and buccal mucosa tissue. PMID:34792860
ProteomicsDB: toward a FAIR open-source resource for life-science research. PMID:34791421
The Effect of Allicin on the Proteome of SARS-CoV-2 Infected Calu-3 Cells. PMID:34777295
A Multi-Perspective Proximity View on the Dynamic Head Region of the Ribosomal 40S Subunit. PMID:34769086
Global ubiquitylation analysis of mitochondria in primary neurons identifies endogenous Parkin targets following activation of PINK1. PMID:34767452
The PRIDE database resources in 2022: a hub for mass spectrometry-based proteomics evidences. PMID:34723319
RNF43 inhibits WNT5A-driven signaling and suppresses melanoma invasion and resistance to the targeted therapy. PMID:34702444
The SZT2 Interactome Unravels New Functions of the KICSTOR Complex. PMID:34685691
LRP-1 Matricellular Receptor Involvement in Triple Negative Breast Cancer Tumor Angiogenesis. PMID:34680548
Progress Identifying and Analyzing the Human Proteome: 2021 Metrics from the HUPO Human Proteome Project. PMID:34670092
Dataset of single nucleotide polymorphisms and comprehensive proteomic analysis of Streptococcus equi subsp. equi ATCC 39506. PMID:34621931
A proteomics sample metadata representation for multiomics integration and big data analysis. PMID:34615866
Multi-level inhibition of coronavirus replication by chemical ER stress. PMID:34545074
Multiplexed drug-based selection and counterselection genetic manipulations in Drosophila. PMID:34525356
Dynamic reconfiguration of pro-apoptotic BAK on membranes. PMID:34523147
Stepwise oxidations play key roles in the structural and functional regulations of DJ-1. PMID:34515295
Effects of Simulated Microgravity on the Physiology of Stenotrophomonas maltophilia and Multiomic Analysis. PMID:34512577
Discovery of Novel Markers for Identifying Cognitive Decline Using Neuron-Derived Exosomes. PMID:34512304
Myeloid neddylation targets IRF7 and promotes host innate immunity against RNA viruses. PMID:34506605
Protein-gene Expression Nexus: Comprehensive characterization of human cancer cell lines with proteogenomic analysis. PMID:34504668
The EDS1-PAD4-ADR1 node mediates Arabidopsis pattern-triggered immunity. PMID:34497423
Metaproteomic Insights Into the Microbial Community in Pozol. PMID:34490328
Protease-sensitive regions in amyloid light chains: what a common pattern of fragmentation across organs suggests about aggregation. PMID:34482629
A Proteomic Study on the Membrane Protein Fraction of T Cells Confirms High Substrate Selectivity for the ER Translocation Inhibitor Cyclotriazadisulfonamide. PMID:34481949
Characterization of R-Loop-Interacting Proteins in Embryonic Stem Cells Reveals Roles in rRNA Processing and Gene Expression. PMID:34478875
Liver-Dependent Lung Remodeling during Systemic Inflammation Shapes Responses to Secondary Infection. PMID:34470857
Patient-specific iPSCs carrying an SFTPC mutation reveal the intrinsic alveolar epithelial dysfunction at the inception of interstitial lung disease. PMID:34469722
Aim32 is a dual-localized 2Fe-2S mitochondrial protein that functions in redox quality control. PMID:34461091
The autoimmune signature of hyperinflammatory multisystem inflammatory syndrome in children. PMID:34437303
Proteomic profiling dataset of chemical perturbations in multiple biological backgrounds. PMID:34433823
Pro-inflammatory β cell small extracellular vesicles induce β cell failure through activation of the CXCL10/CXCR3 axis in diabetes. PMID:34433033
Proteomic analysis of serum samples of paracoccidioidomycosis patients with severe pulmonary sequel. PMID:34424905
The Arabidopsis PeptideAtlas: Harnessing worldwide proteomics data to create a comprehensive community proteomics resource. PMID:34411258
Immunopeptidomics toolkit library (IPTK): a python-based modular toolbox for analyzing immunopeptidomics data. PMID:34404349
Matrix-assisted laser desorption ionization mass spectrometry profiling of plasma exosomes evaluates osteosarcoma metastasis. PMID:34401680
Extensive heterogeneity of glycopeptides in plasma revealed by deep glycoproteomic analysis using size-exclusion chromatography. PMID:34368825
A CD10-OGP Membrane Peptolytic Signaling Axis in Fibroblasts Regulates Lipid Metabolism of Cancer Stem Cells via SCD1. PMID:34363355
Phosphorylation in the Charged Linker Modulates Interactions and Secretion of Hsp90β. PMID:34359868
Targeted Mass Spectrometry Enables Quantification of Novel Pharmacodynamic Biomarkers of ATM Kinase Inhibition. PMID:34359745
ppx: Programmatic Access to Proteomics Data Repositories. PMID:34342226
Longitudinal stability of urinary extracellular vesicle protein patterns within and between individuals. PMID:34341426
Affinity Proteomics and Deglycoproteomics Uncover Novel EDEM2 Endogenous Substrates and an Integrative ERAD Network. PMID:34332121
Identification of Actin Filament-Associated Proteins in Giardia lamblia. PMID:34287056
The Hitchhiker's guide to glycoproteomics. PMID:34282822
Zika virus infection of the placenta alters extracellular matrix proteome. PMID:34264436
SARS-CoV-2 Disrupts Proximal Elements in the JAK-STAT Pathway. PMID:34260266
FIP200 controls the TBK1 activation threshold at SQSTM1/p62-positive condensates. PMID:34226595
The proteolytic landscape of cells exposed to non-lethal stresses is shaped by executioner caspases. PMID:34226511
Clathrin Is Important for Virulence Factors Delivery in the Necrotrophic Fungus Botrytis cinerea. PMID:34220891
Universal Spectrum Identifier for mass spectra. PMID:34183830
Proteomics-Based Data Integration of Wheat Cultivars Facing Fusarium graminearum Strains Revealed a Core-Responsive Pattern Controlling Fusarium Head Blight. PMID:34135919
Culture of Mycobacterium smegmatis in Different Carbon Sources to Induce In Vitro Cholesterol Consumption Leads to Alterations in the Host Cells after Infection: A Macrophage Proteomics Analysis. PMID:34071265
Protein Kinase C Activation Drives a Differentiation Program in an Oligodendroglial Precursor Model through the Modulation of Specific Biological Networks. PMID:34063504
The Trypanosome UDP-Glucose Pyrophosphorylase Is Imported by Piggybacking into Glycosomes, Where Unconventional Sugar Nucleotide Synthesis Takes Place. PMID:34044588
Substrate specificities and reaction kinetics of the yeast oligosaccharyltransferase isoforms. PMID:34023382
The structural heterogeneity of α-synuclein is governed by several distinct subpopulations with interconversion times slower than milliseconds. PMID:34015255
Defective NET clearance contributes to sustained FXII activation in COVID-19-associated pulmonary thrombo-inflammation. PMID:34000623
-------A type I IFN, prothrombotic hyperinflammatory neutrophil signature is distinct for COVID-19 ARDS--. PMID:33997298
Membrane-Enriched Proteomics Link Ribosome Accumulation and Proteome Reprogramming With Cold Acclimation in Barley Root Meristems. PMID:33995454
Macrophage Proteome Analysis at Different Stages of Mycobacterium avium Subspecies paratuberculosis Infection Reveals a Mechanism of Pathogen Dissemination. PMID:33946162
Altered Transcription Factor Expression Responses to Exercise in Insulin Resistance. PMID:33897458
SAR insights into TET2 catalytic domain inhibition: Synthesis of 2-Hydroxy-4-Methylene-pentanedicarboxylates. PMID:33894507
Non-Genomic AhR-Signaling Modulates the Immune Response in Endotoxin-Activated Macrophages After Activation by the Environmental Stressor BaP. PMID:33868237
Proteomic comparison between different tissue preservation methods for identification of promising biomarkers of urothelial bladder cancer. PMID:33828141
A Superfamily-wide Activity Atlas of Serine Hydrolases in Drosophila melanogaster. PMID:33827210
Fabrication, Rheological, and Compositional Characterization of Thermoresponsive Hydrogel from Cornea. PMID:33813860
Resourcing, annotating, and analysing synthetic peptides of SARS-CoV-2 for immunopeptidomics and other immunological studies. PMID:33811468
Identification of Ku70 Domain-Specific Interactors Using BioID2. PMID:33799447
MKRN3-mediated ubiquitination of Poly(A)-binding proteins modulates the stability and translation of GNRH1 mRNA in mammalian puberty. PMID:33744966
Metabolic selection of a homologous recombination-mediated gene loss protects Trypanosoma brucei from ROS production by glycosomal fumarate reductase. PMID:33741344
A Second Look at FAIR in Proteomic Investigations. PMID:33719446
Data Management of Sensitive Human Proteomics Data: Current Practices, Recommendations, and Perspectives for the Future. PMID:33711481
The GORKY glycoalkaloid transporter is indispensable for preventing tomato bitterness. PMID:33707737
An Update on MRMAssayDB: A Comprehensive Resource for Targeted Proteomics Assays in the Community. PMID:33683131
A comprehensive dataset of the extra virgin olive oil (EVOO) proteome. PMID:33665245
Neuropathy-causing TRPV4 mutations disrupt TRPV4-RhoA interactions and impair neurite extension. PMID:33664271
Reflections on the HUPO Human Proteome Project, the Flagship Project of the Human Proteome Organization, at 10 Years. PMID:33640492
Intracellular pathways for lignin catabolism in white-rot fungi. PMID:33622792
The major cap-binding protein eIF4E regulates lipid homeostasis and diet-induced obesity. PMID:33619378
Proteomic profile of melanoma cell-derived small extracellular vesicles in patients' plasma: a potential correlate of melanoma progression. PMID:33613873
Proteome-wide and matrisome-specific alterations during human pancreas development and maturation. PMID:33589611
Comprehensive Analysis of Tryptic Peptides Arising from Disulfide Linkages in NISTmAb and Their Use for Developing a Mass Spectral Library. PMID:33555887
Isolation and Characterization of Equine Uterine Extracellular Vesicles: A Comparative Methodological Study. PMID:33478136
Diverse Taxonomies for Diverse Chemistries: Enhanced Representation of Natural Product Metabolism in UniProtKB. PMID:33445429
Proteomics of broad deubiquitylase inhibition unmasks redundant enzyme function to reveal substrates and assess enzyme specificity. PMID:33417828
tRNA 3' shortening by LCCR4 as a response to stress in Trypanosoma brucei. PMID:33406257
Ral GTPases promote breast cancer metastasis by controlling biogenesis and organ targeting of exosomes. PMID:33404012
Development of a multiplexed targeted mass spectrometry assay for LRRK2-phosphorylated Rabs and Ser910/Ser935 biomarker sites. PMID:33367571
NF-κB Signaling Is Regulated by Fucosylation in Metastatic Breast Cancer Cells. PMID:33322811
Hypoxia and Hypoxia-Inducible Factor-1α Regulate Endoplasmic Reticulum Stress in Nucleus Pulposus Cells: Implications of Endoplasmic Reticulum Stress for Extracellular Matrix Secretion. PMID:33307037
Obesity Shapes Metabolism in the Tumor Microenvironment to Suppress Anti-Tumor Immunity. PMID:33301708
The malaria parasite sheddase SUB2 governs host red blood cell membrane sealing at invasion. PMID:33287958
An Update of the Virion Proteome of Kaposi Sarcoma-Associated Herpesvirus. PMID:33276600
Actionable Cytopathogenic Host Responses of Human Alveolar Type 2 Cells to SARS-CoV-2. PMID:33259812
The European Bioinformatics Institute: empowering cooperation in response to a global health crisis. PMID:33245775
Licorice Ameliorates Cisplatin-Induced Hepatotoxicity Through Antiapoptosis, Antioxidative Stress, Anti-Inflammation, and Acceleration of Metabolism. PMID:33240085
UniProt: the universal protein knowledgebase in 2021. PMID:33237286
Neuropeptidomic Analysis of a Genetically Defined Cell Type in Mouse Brain and Pituitary. PMID:33217339
OpenProt 2021: deeper functional annotation of the coding potential of eukaryotic genomes. PMID:33179748
Co-activation of Akt, Nrf2, and NF-κB signals under UPRER in torpid Myotis ricketti bats for survival. PMID:33177645
Proteomic Identification of Coxiella burnetii Effector Proteins Targeted to the Host Cell Mitochondria During Infection. PMID:33177156
GlycoPOST realizes FAIR principles for glycomics mass spectrometry data. PMID:33174597
Spontaneous regression of micro-metastases following primary tumor excision: a critical role for primary tumor secretome. PMID:33158447
Modelling of pathogen-host systems using deeper ORF annotations and transcriptomics to inform proteomics analyses. PMID:33133425
An Exploratory Pilot Study with Plasma Protein Signatures Associated with Response of Patients with Depression to Antidepressant Treatment for 10 Weeks. PMID:33126421
A high-stringency blueprint of the human proteome. PMID:33067450
Neural cell adhesion molecule 1 is a novel autoantigen in membranous lupus nephritis. PMID:33045259
Glioma-derived IL-33 orchestrates an inflammatory brain tumor microenvironment that accelerates glioma progression. PMID:33020472
Characterization of Local and Systemic Impact of Whitefly (Bemisia tabaci) Feeding and Whitefly-Transmitted Tomato Mottle Virus Infection on Tomato Leaves by Comprehensive Proteomics. PMID:33008056
MFSD7C switches mitochondrial ATP synthesis to thermogenesis in response to heme. PMID:32973183
Rapid and direct control of target protein levels with VHL-recruiting dTAG molecules. PMID:32948771
Quantitative mapping of transcriptome and proteome dynamics during polarization of human iPSC-derived neurons. PMID:32940601
Deep Learning in Proteomics. PMID:32939979
Research on the Human Proteome Reaches a Major Milestone: >90% of Predicted Human Proteins Now Credibly Detected, According to the HUPO Human Proteome Project. PMID:32931287
Organoids Model Transcriptional Hallmarks of Oncogenic KRAS Activation in Lung Epithelial Progenitor Cells. PMID:32891189
Grad-seq shines light on unrecognized RNA and protein complexes in the model bacterium Escherichia coli. PMID:32813020
Verification of a Blood-Based Targeted Proteomics Signature for Malignant Pleural Mesothelioma. PMID:32732250
Dataset of bovine mammary gland dry secretion proteome from the end of lactation through day 21 of the dry period. PMID:32671157
TMEM16K is an interorganelle regulator of endosomal sorting. PMID:32620747
The first 10 years of the international coordination network for standards in systems and synthetic biology (COMBINE). PMID:32598315
The level of putative carotenoid-binding proteins determines the body color in two species of endemic Lake Baikal amphipods. PMID:32596057
Phloem Exudate Protein Profiles during Drought and Recovery Reveal Abiotic Stress Responses in Tomato Vasculature. PMID:32586033
Structural mechanism underlying primary and secondary coupling between GPCRs and the Gi/o family. PMID:32572026
Differential Urinary Proteome Analysis for Predicting Prognosis in Type 2 Diabetes Patients with and without Renal Dysfunction. PMID:32545899
The Mouse Heart Mitochondria N Terminome Provides Insights into ClpXP-Mediated Proteolysis. PMID:32467259
A Small Effort for Researchers, a Big Gain for Soil Metaproteomics. PMID:32117118
The 27th annual Nucleic Acids Research database issue and molecular biology database collection. PMID:31906604
MassIVE.quant: a community resource of quantitative mass spectrometry-based proteomics datasets PubMed citations: 11.

11 articles citing: MassIVE.quant: a community resource of quantitative mass spectrometry-based proteomics datasets

Biomarker Candidates for Tumors Identified from Deep-Profiled Plasma Stem Predominantly from the Low Abundant Area. PMID:35605973
A Comprehensive Evaluation of Consensus Spectrum Generation Methods in Proteomics. PMID:35549218
The PeptideAtlas of a widely cultivated fish Labeo rohita: A resource for the Aquaculture Community. PMID:35418183
Skyline Batch: An Intuitive User Interface for Batch Processing with Skyline. PMID:34919405
The PRIDE database resources in 2022: a hub for mass spectrometry-based proteomics evidences. PMID:34723319
A proteomics sample metadata representation for multiomics integration and big data analysis. PMID:34615866
SPENCER: a comprehensive database for small peptides encoded by noncoding RNAs in cancer patients. PMID:34570216
Computational Biology and Machine Learning Approaches to Understand Mechanistic Microbiome-Host Interactions. PMID:34046017
Triqler for MaxQuant: Enhancing Results from MaxQuant by Bayesian Error Propagation and Integration. PMID:33661646
Misincorporation Proteomics Technologies: A Review. PMID:33494504
Interrogating Host Antiviral Environments Driven by Nuclear DNA Sensing: A Multiomic Perspective. PMID:33255247

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gene expression data
metasource: Fairsharing.org
version: FAIRsharing.org: MassIVE; Mass Spectrometry Virtual Interactive Environment; DOI: https://doi.org/10.25504/FAIRsharing.LYsiMd; Last edited: March 29, 2021, 11:03 a.m.; Last accessed: Jan 03 2022 7:06 p.m.

mass spectrometry spectra
metasource: Fairsharing.org
version: FAIRsharing.org: MassIVE; Mass Spectrometry Virtual Interactive Environment; DOI: https://doi.org/10.25504/FAIRsharing.LYsiMd; Last edited: March 29, 2021, 11:03 a.m.; Last accessed: Jan 03 2022 7:06 p.m.

protocol
metasource: Fairsharing.org
version: FAIRsharing.org: MassIVE; Mass Spectrometry Virtual Interactive Environment; DOI: https://doi.org/10.25504/FAIRsharing.LYsiMd; Last edited: March 29, 2021, 11:03 a.m.; Last accessed: Jan 03 2022 7:06 p.m.

study design
metasource: Fairsharing.org
version: FAIRsharing.org: MassIVE; Mass Spectrometry Virtual Interactive Environment; DOI: https://doi.org/10.25504/FAIRsharing.LYsiMd; Last edited: March 29, 2021, 11:03 a.m.; Last accessed: Jan 03 2022 7:06 p.m.

covid-19
metasource: re3data.org
version: re3data.org: Mass Spectrometry Interactive Virtual Environment; editing status 2021-09-10; re3data.org - Registry of Research Data Repositories. http://doi.org/10.17616/R3980B last accessed: 2022-11-04

coronamasskb
metasource: re3data.org
version: re3data.org: Mass Spectrometry Interactive Virtual Environment; editing status 2021-09-10; re3data.org - Registry of Research Data Repositories. http://doi.org/10.17616/R3980B last accessed: 2022-11-04

biochemical methods
metasource: re3data.org
version: re3data.org: Mass Spectrometry Interactive Virtual Environment; editing status 2021-09-10; re3data.org - Registry of Research Data Repositories. http://doi.org/10.17616/R3980B last accessed: 2022-11-04

bioinformatics
metasource: re3data.org
version: re3data.org: Mass Spectrometry Interactive Virtual Environment; editing status 2021-09-10; re3data.org - Registry of Research Data Repositories. http://doi.org/10.17616/R3980B last accessed: 2022-11-04

peptide
metasource: re3data.org
version: re3data.org: Mass Spectrometry Interactive Virtual Environment; editing status 2021-09-10; re3data.org - Registry of Research Data Repositories. http://doi.org/10.17616/R3980B last accessed: 2022-11-04

protein
metasource: re3data.org
version: re3data.org: Mass Spectrometry Interactive Virtual Environment; editing status 2021-09-10; re3data.org - Registry of Research Data Repositories. http://doi.org/10.17616/R3980B last accessed: 2022-11-04

proteomics
metasource: re3data.org
version: re3data.org: Mass Spectrometry Interactive Virtual Environment; editing status 2021-09-10; re3data.org - Registry of Research Data Repositories. http://doi.org/10.17616/R3980B last accessed: 2022-11-04

gene expression mass spectrometry spectra protocol study design covid-19 coronamasskb biochemical methods bioinformatics peptide protein proteomics

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MassIVE.quant

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LDB

GlycoPOST

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Golm Metabolome Database

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mass spectrometry cross-linking and derivatization reagents

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