Investigation Study Assay Tabular
Names
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Investigation Study Assay Tabular
metasource: Fairsharing.org
version: FAIRsharing.org: ISA-Tab; Investigation Study Assay Tabular; DOI: https://doi.org/10.25504/FAIRsharing.53gp75; Last edited: June 22, 2021, 12:07 p.m.; Last accessed: Jan 03 2022 7:11 p.m.
ISA-Tab
metasource: Fairsharing.org
version: FAIRsharing.org: ISA-Tab; Investigation Study Assay Tabular; DOI: https://doi.org/10.25504/FAIRsharing.53gp75; Last edited: June 22, 2021, 12:07 p.m.; Last accessed: Jan 03 2022 7:11 p.m.
Names
More detailed information about this field from each metasource.
Investigation Study Assay Tabular
metasource: Fairsharing.orgversion: FAIRsharing.org: ISA-Tab; Investigation Study Assay Tabular; DOI: https://doi.org/10.25504/FAIRsharing.53gp75; Last edited: June 22, 2021, 12:07 p.m.; Last accessed: Jan 03 2022 7:11 p.m.
ISA-Tab
metasource: Fairsharing.orgversion: FAIRsharing.org: ISA-Tab; Investigation Study Assay Tabular; DOI: https://doi.org/10.25504/FAIRsharing.53gp75; Last edited: June 22, 2021, 12:07 p.m.; Last accessed: Jan 03 2022 7:11 p.m.
Names
More detailed information about this field from each metasource.
Investigation Study Assay Tabular
metasource: Fairsharing.orgversion: FAIRsharing.org: ISA-Tab; Investigation Study Assay Tabular; DOI: https://doi.org/10.25504/FAIRsharing.53gp75; Last edited: June 22, 2021, 12:07 p.m.; Last accessed: Jan 03 2022 7:11 p.m.
ISA-Tab
metasource: Fairsharing.orgversion: FAIRsharing.org: ISA-Tab; Investigation Study Assay Tabular; DOI: https://doi.org/10.25504/FAIRsharing.53gp75; Last edited: June 22, 2021, 12:07 p.m.; Last accessed: Jan 03 2022 7:11 p.m.
Investigation Study Assay Tabular (ISA-Tab) describes the ISA Abstract Model reference implementation specified using the ISA-Tab format. ISA-Tab files are tab separated value (tsv) files, with specific labeled column structures. The ISA model consists of three core entities to capture experimental metadata: investigation, study and assay. The extensible, hierarchical structure of this model enables the representation of studies employing one or a combination of technologies, focusing on the description of its experimental metadata (i.e. sample characteristics, technology and measurement types, sample-to-data relationships).
Description
More detailed information about this field from each metasource.
Investigation Study Assay Tabular (ISA-Tab) describes the ISA Abstract Model reference implementation specified using the ISA-Tab format. ISA-Tab files are tab separated value (tsv) files, with specific labeled column structures. The ISA model consists of three core entities to capture experimental metadata: investigation, study and assay. The extensible, hierarchical structure of this model enables the representation of studies employing one or a combination of technologies, focusing on the description of its experimental metadata (i.e. sample characteristics, technology and measurement types, sample-to-data relationships).
metasource: Fairsharing.orgversion: FAIRsharing.org: ISA-Tab; Investigation Study Assay Tabular; DOI: https://doi.org/10.25504/FAIRsharing.53gp75; Last edited: June 22, 2021, 12:07 p.m.; Last accessed: Jan 03 2022 7:11 p.m.
Webpage:
https://isa-specs.readthedocs.io/en/latest/isatab.htmlWebpage
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https://isa-specs.readthedocs.io/en/latest/isatab.html
metasource: Fairsharing.orgversion: FAIRsharing.org: ISA-Tab; Investigation Study Assay Tabular; DOI: https://doi.org/10.25504/FAIRsharing.53gp75; Last edited: June 22, 2021, 12:07 p.m.; Last accessed: Jan 03 2022 7:11 p.m.
Licence:
Name: Creative Commons Attribution-ShareAlike 4.0 International (CC BY-SA 4.0)Licence name
More detailed information about this field from each metasource.
Creative Commons Attribution-ShareAlike 4.0 International (CC BY-SA 4.0)
metasource: Fairsharing.orgversion: FAIRsharing.org: ISA-Tab; Investigation Study Assay Tabular; DOI: https://doi.org/10.25504/FAIRsharing.53gp75; Last edited: June 22, 2021, 12:07 p.m.; Last accessed: Jan 03 2022 7:11 p.m.
Licence URL
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https://creativecommons.org/licenses/by-sa/4.0/
metasource: Fairsharing.orgversion: FAIRsharing.org: ISA-Tab; Investigation Study Assay Tabular; DOI: https://doi.org/10.25504/FAIRsharing.53gp75; Last edited: June 22, 2021, 12:07 p.m.; Last accessed: Jan 03 2022 7:11 p.m.
Publications:
Publications
More detailed information about this field from each metasource.
MetaboLights--an open-access general-purpose repository for metabolomics studies and associated meta-data
PMID: 23109552
metasource: Fairsharing.org
version: FAIRsharing.org: ISA-Tab; Investigation Study Assay Tabular; DOI: https://doi.org/10.25504/FAIRsharing.53gp75; Last edited: June 22, 2021, 12:07 p.m.; Last accessed: Jan 03 2022 7:11 p.m.
ISA software suite: supporting standards-compliant experimental annotation and enabling curation at the community level
PMID: 20679334
metasource: Fairsharing.org
version: FAIRsharing.org: ISA-Tab; Investigation Study Assay Tabular; DOI: https://doi.org/10.25504/FAIRsharing.53gp75; Last edited: June 22, 2021, 12:07 p.m.; Last accessed: Jan 03 2022 7:11 p.m.
OntoMaton: a bioportal powered ontology widget for Google Spreadsheets
PMID: 23267176
metasource: Fairsharing.org
version: FAIRsharing.org: ISA-Tab; Investigation Study Assay Tabular; DOI: https://doi.org/10.25504/FAIRsharing.53gp75; Last edited: June 22, 2021, 12:07 p.m.; Last accessed: Jan 03 2022 7:11 p.m.
Publications
More detailed information about this field from each metasource.
MetaboLights--an open-access general-purpose repository for metabolomics studies and associated meta-data
PMID: 23109552
metasource: Fairsharing.org
version: FAIRsharing.org: ISA-Tab; Investigation Study Assay Tabular; DOI: https://doi.org/10.25504/FAIRsharing.53gp75; Last edited: June 22, 2021, 12:07 p.m.; Last accessed: Jan 03 2022 7:11 p.m.
ISA software suite: supporting standards-compliant experimental annotation and enabling curation at the community level
PMID: 20679334
metasource: Fairsharing.org
version: FAIRsharing.org: ISA-Tab; Investigation Study Assay Tabular; DOI: https://doi.org/10.25504/FAIRsharing.53gp75; Last edited: June 22, 2021, 12:07 p.m.; Last accessed: Jan 03 2022 7:11 p.m.
OntoMaton: a bioportal powered ontology widget for Google Spreadsheets
PMID: 23267176
metasource: Fairsharing.org
version: FAIRsharing.org: ISA-Tab; Investigation Study Assay Tabular; DOI: https://doi.org/10.25504/FAIRsharing.53gp75; Last edited: June 22, 2021, 12:07 p.m.; Last accessed: Jan 03 2022 7:11 p.m.
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MetaboLights--an open-access general-purpose repository for metabolomics studies and associated meta-data
PubMed citations: 262.
262 articles citing: MetaboLights--an open-access general-purpose repository for metabolomics studies and associated meta-data
Adipocyte lysoplasmalogenase TMEM86A regulates plasmalogen homeostasis and protein kinase A-dependent energy metabolism. PMID:35835749
Metabolomic Profiling of Plasma Reveals Differential Disease Severity Markers in COVID-19 Patients. PMID:35572676
Advances in mass spectrometry-based metabolomics for investigation of metabolites. PMID:35539746
Exploring synergies between plant metabolic modelling and machine learning. PMID:35521559
Transcriptome and metabolome analyses revealed that narrowband 280 and 310 nm UV-B induce distinctive responses in Arabidopsis. PMID:35279697
Cloud-based archived metabolomics data: A resource for in-source fragmentation/annotation, meta-analysis and systems biology. PMID:35190800
Knowledge-Driven Approaches to Create the MTox700+ Metabolite Panel for Predicting Toxicity. PMID:35094093
ProMetIS, deep phenotyping of mouse models by combined proteomics and metabolomics analysis. PMID:34862403
Grapevine and Wine Metabolomics-Based Guidelines for FAIR Data and Metadata Management. PMID:34822415
Toward Integrated Multi-Omics Intervention: Rice Trait Improvement and Stress Management. PMID:34721467
Metabolic drift in the aging nervous system is reflected in human cerebrospinal fluid. PMID:34552125
Cytosolic phosphofructokinases are important for sugar homeostasis in leaves of Arabidopsis thaliana. PMID:34549262
Data Management and Modeling in Plant Biology. PMID:34539712
"Fuel for the Damage Induced": Untargeted Metabolomics in Elite Rugby Union Match Play. PMID:34436485
Four Weeks of Probiotic Supplementation Alters the Metabolic Perturbations Induced by Marathon Running: Insight from Metabolomics. PMID:34436476
Metabolomics for personalized medicine: the input of analytical chemistry from biomarker discovery to point-of-care tests. PMID:34432105
Mass spectrometry-based metabolomics: a guide for annotation, quantification and best reporting practices. PMID:34239102
Exploration of Blood Lipoprotein and Lipid Fraction Profiles in Healthy Subjects through Integrated Univariate, Multivariate, and Network Analysis Reveals Association of Lipase Activity and Cholesterol Esterification with Sex and Age. PMID:34070169
UPLC-TOF-MS/MS-Based Metabolomics Analysis Reveals Species-Specific Metabolite Compositions in Pitchers of Nepenthes ampullaria, Nepenthes rafflesiana, and Their Hybrid Nepenthes × hookeriana. PMID:33968110
Data Processing Optimization in Untargeted Metabolomics of Urine Using Voigt Lineshape Model Non-Linear Regression Analysis. PMID:33947160
Repository scale classification and decomposition of tandem mass spectral data. PMID:33859284
The History of Gene Hunting in Hereditary Spinocerebellar Degeneration: Lessons From the Past and Future Perspectives. PMID:33833777
On-demand virtual research environments using microservices. PMID:33816885
Blind normalization of public high-throughput databases. PMID:33816884
Untargeted In Silico Compound Classification-A Novel Metabolomics Method to Assess the Chemodiversity in Bryophytes. PMID:33806786
Highly Species-Specific Foliar Metabolomes of Diverse Woody Species and Relationships with the Leaf Economics Spectrum. PMID:33805842
isa4j: a scalable Java library for creating ISA-Tab metadata. PMID:33728038
Dynamic Allocation of Carbon Storage and Nutrient-Dependent Exudation in a Revised Genome-Scale Model of Prochlorococcus. PMID:33633777
Metabolomics-based analysis of miniature flask contents identifies tobacco mixture use among the ancient Maya. PMID:33452410
Review on natural products databases: where to find data in 2020. PMID:33431011
HastaLaVista, a web-based user interface for NMR-based untargeted metabolic profiling analysis in biomedical sciences: towards a new publication standard. PMID:33430999
Metabolomic Signature of Human Aortic Valve Stenosis. PMID:33426374
State of the Field in Multi-Omics Research: From Computational Needs to Data Mining and Sharing. PMID:33362867
MSIWarp: A General Approach to Mass Alignment in Mass Spectrometry Imaging. PMID:33317272
Lipidomic Analysis of Plasma from Healthy Men and Women Shows Phospholipid Class and Molecular Species Differences between Sexes. PMID:33284478
Title NMR-based metabolic profiling provides diagnostic and prognostic information in critically ill children with suspected infection. PMID:33214628
Auto-deconvolution and molecular networking of gas chromatography-mass spectrometry data. PMID:33169034
Metabolite signatures of diverse Camellia sinensis tea populations. PMID:33149146
Automated supervised learning pipeline for non-targeted GC-MS data analysis. PMID:33117972
Predicting human health from biofluid-based metabolomics using machine learning. PMID:33077825
Exploring the metabolic phenotypes associated with different host inflammation of acute respiratory distress syndrome (ARDS) from lung metabolomics in mice. PMID:33049802
Circulating Metabolites as Potential Biomarkers for Neurological Disorders-Metabolites in Neurological Disorders. PMID:33003305
Recommendations for standardizing nomenclature for dietary (poly)phenol catabolites. PMID:32936878
Salivary metabolite levels in perinatally HIV-infected youth with periodontal disease. PMID:32915320
An Ancient Residue Metabolomics-Based Method to Distinguish Use of Closely Related Plant Species in Ancient Pipes. PMID:32671097
The impact of persistent colonization by Vibrio fischeri on the metabolome of the host squid Euprymna scolopes. PMID:32616546
Lipidome analysis of milk composition in humans, monkeys, bovids, and pigs. PMID:32560628
Metabolomics as an Emerging Tool in the Search for Astrobiologically Relevant Biomarkers. PMID:32551936
Malodorous biogenic amines in Escherichia coli-caused urinary tract infections in women-a metabolomics approach. PMID:32546787
The GOLIATH Project: Towards an Internationally Harmonised Approach for Testing Metabolism Disrupting Compounds. PMID:32423144
Multi-omics systems toxicology study of mouse lung assessing the effects of aerosols from two heat-not-burn tobacco products and cigarette smoke. PMID:32419906
A Metabolomic Approach for Predicting Diurnal Changes in Cortisol. PMID:32414047
Reproducible molecular networking of untargeted mass spectrometry data using GNPS. PMID:32405051
Bioinformatics Resources for Plant Abiotic Stress Responses: State of the Art and Opportunities in the Fast Evolving -Omics Era. PMID:32384671
Pathway-Activity Likelihood Analysis and Metabolite Annotation for Untargeted Metabolomics Using Probabilistic Modeling. PMID:32375258
The role of changing temperature in microbial metabolic processes during permafrost thaw. PMID:32353013
NMR-based metabolomic profile of hypercholesterolemic human sera: Relationship with in vitro gene expression? PMID:32298312
Use of Untargeted Liquid Chromatography-Mass Spectrometry Metabolome To Discriminate Italian Monovarietal Red Wines, Produced in Their Different Terroirs. PMID:32271564
Searching for Drug Synergy Against Cancer Through Polyamine Metabolism Impairment: Insight Into the Metabolic Effect of Indomethacin on Lung Cancer Cells. PMID:32256343
Metabolomic Signature of Early Vascular Aging (EVA) in Hypertension. PMID:32118038
GARS: Genetic Algorithm for the identification of a Robust Subset of features in high-dimensional datasets. PMID:32046651
Metabolic alterations in immune cells associate with progression to type 1 diabetes. PMID:32043185
A serum metabolomics study of patients with nAMD in response to anti-VEGF therapy. PMID:31992792
LC-MS untargeted approach showed that methyl jasmonate application on Vitis labrusca L. grapes increases phenolics at subtropical Brazilian regions. PMID:31974665
MetaOmGraph: a workbench for interactive exploratory data analysis of large expression datasets. PMID:31956905
Corruption of the Pearson correlation coefficient by measurement error and its estimation, bias, and correction under different error models. PMID:31949233
Endoplasmic reticulum-derived bodies enable a single-cell chemical defense in Brassicaceae plants. PMID:31937912
Mass spectrometry searches using MASST. PMID:31894142
Genomic Survey, Transcriptome, and Metabolome Analysis of Apocynum venetum and Apocynum hendersonii to Reveal Major Flavonoid Biosynthesis Pathways. PMID:31817331
BIOPEP-UWM Database of Bioactive Peptides: Current Opportunities. PMID:31783634
A database of high-resolution MS/MS spectra for lichen metabolites. PMID:31780665
A novel bioinformatics approach to identify the consistently well-performing normalization strategy for current metabolomic studies. PMID:31776543
The intestinal regionalization of acute norovirus infection is regulated by the microbiota via bile acid-mediated priming of type III interferon. PMID:31768030
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
Revealing the constituents of Egypt's oldest beer using infrared and mass spectrometry. PMID:31700104
MetaboLights: a resource evolving in response to the needs of its scientific community. PMID:31691833
Quantification of Urinary Phenyl-γ-Valerolactones and Related Valeric Acids in Human Urine on Consumption of Apples. PMID:31671768
Bacterial Pathogens Hijack the Innate Immune Response by Activation of the Reverse Transsulfuration Pathway. PMID:31662455
Troubleshooting in Large-Scale LC-ToF-MS Metabolomics Analysis: Solving Complex Issues in Big Cohorts. PMID:31652940
WebSpecmine: A Website for Metabolomics Data Analysis and Mining. PMID:31635085
Disruption of gut integrity and permeability contributes to enteritis in a fish-parasite model: a story told from serum metabolomics. PMID:31619276
Chemical Diversity and Classification of Secondary Metabolites in Nine Bryophyte Species. PMID:31614655
The metaRbolomics Toolbox in Bioconductor and beyond. PMID:31548506
Toward collaborative open data science in metabolomics using Jupyter Notebooks and cloud computing. PMID:31522294
Fatty acid transport protein 4 is required for incorporation of saturated ultralong-chain fatty acids into epidermal ceramides and monoacylglycerols. PMID:31519952
Rapid metabolic shifts occur during the transition between hunger and satiety in Drosophila melanogaster. PMID:31492856
p13CMFA: Parsimonious 13C metabolic flux analysis. PMID:31490922
WiPP: Workflow for Improved Peak Picking for Gas Chromatography-Mass Spectrometry (GC-MS) Data. PMID:31438611
Metabolic responses of rice source and sink organs during recovery from combined drought and heat stress in the field. PMID:31433831
A metabolic profile of all-cause mortality risk identified in an observational study of 44,168 individuals. PMID:31431621
Rapid identification of species, sex and maturity by mass spectrometric analysis of animal faeces. PMID:31412863
Untargeted Metabolomics Reveals Molecular Effects of Ketogenic Diet on Healthy and Tumor Xenograft Mouse Models. PMID:31398922
Fruit Salad in the Lab: Comparing Botanical Species to Help Deciphering Fruit Primary Metabolism. PMID:31354750
Metabolomics Analytics Workflow for Epidemiological Research: Perspectives from the Consortium of Metabolomics Studies (COMETS). PMID:31319517
Phenolics lie at the centre of functional versatility in the responses of two phytochemically diverse tropical trees to canopy thinning. PMID:31257446
Inferring Interaction Networks From Multi-Omics Data. PMID:31249591
Staring into the void: demystifying microbial metabolomics. PMID:31210257
Ontology-based metabolomics data integration with quality control. PMID:31179719
MENDA: a comprehensive curated resource of metabolic characterization in depression. PMID:31157825
The Consortium of Metabolomics Studies (COMETS): Metabolomics in 47 Prospective Cohort Studies. PMID:31155658
Nutritional Metabolomics in Cancer Epidemiology: Current Trends, Challenges, and Future Directions. PMID:31129888
Mass Spectrometry-Based Integration and Expansion of the Chemical Diversity Harbored Within a Marine Sponge. PMID:31093948
Persistent Alterations in Plasma Lipid Profiles Before Introduction of Gluten in the Diet Associated With Progression to Celiac Disease. PMID:31082858
Metabolic responses of rice cultivars with different tolerance to combined drought and heat stress under field conditions. PMID:31081890
Drying Enhances Signal Intensities for Global GC⁻MS Metabolomics. PMID:30959834
Collected mass spectrometry data on monoterpene indole alkaloids from natural product chemistry research. PMID:30944327
Infrastructures of systems biology that facilitate functional genomic study in rice. PMID:30874968
A large-scale metabolomics study to harness chemical diversity and explore biochemical mechanisms in ryegrass. PMID:30854479
Interoperable and scalable data analysis with microservices: applications in metabolomics. PMID:30851093
Assessing the Effectiveness of Direct Data Merging Strategy in Long-Term and Large-Scale Pharmacometabonomics. PMID:30842738
Differentiation of Ficus deltoidea varieties and chemical marker determination by UHPLC-TOFMS metabolomics for establishing quality control criteria of this popular Malaysian medicinal herb. PMID:30830457
RANCM: a new ranking scheme for assigning confidence levels to metabolite assignments in NMR-based metabolomics studies. PMID:30830432
Metabolomic characterization of hypertension and dyslipidemia. PMID:30830367
rDolphin: a GUI R package for proficient automatic profiling of 1D 1H-NMR spectra of study datasets. PMID:30830320
Time-resolved decoding of metabolic signatures of in vitro growth of the hemibiotrophic pathogen Colletotrichum sublineolum. PMID:30824820
FAIRness and Usability for Open-access Omics Data Systems. PMID:30815061
Identification of bioactive metabolites using activity metabolomics. PMID:30814649
Evaluation of Sample Preparation Methods for the Analysis of Reef-Building Corals Using ¹H-NMR-Based Metabolomics. PMID:30781808
Sphingolipid-dependent Dscam sorting regulates axon segregation. PMID:30778062
In plaque-mass spectrometry imaging of a bloom-forming alga during viral infection reveals a metabolic shift towards odd-chain fatty acid lipids. PMID:30718847
mzTab-M: A Data Standard for Sharing Quantitative Results in Mass Spectrometry Metabolomics. PMID:30688441
Comparative Analyses of Metabolomic Fingerprints and Cytotoxic Activities of Soft Corals from the Colombian Caribbean. PMID:30634471
A robust intracellular metabolite extraction protocol for human neutrophil metabolic profiling. PMID:30571714
PhenoMeNal: processing and analysis of metabolomics data in the cloud. PMID:30535405
Modeling Meets Metabolomics-The WormJam Consensus Model as Basis for Metabolic Studies in the Model Organism Caenorhabditis elegans. PMID:30488036
Common Metabolic Pathways Implicated in Resistance to Chemotherapy Point to a Key Mitochondrial Role in Breast Cancer. PMID:30373788
ArrayExpress update - from bulk to single-cell expression data. PMID:30357387
pJRES Binning Algorithm (JBA): a new method to facilitate the recovery of metabolic information from pJRES 1H NMR spectra. PMID:30351417
Seasonal variation of secondary metabolites in nine different bryophytes. PMID:30271570
Computational workflow to study the seasonal variation of secondary metabolites in nine different bryophytes. PMID:30152810
MS-based lipidomics of human blood plasma: a community-initiated position paper to develop accepted guidelines. PMID:30115755
Container-based bioinformatics with Pachyderm. PMID:30101309
Improving sample classification by harnessing the potential of 1H-NMR signal chemical shifts. PMID:30089873
Are microbiome studies ready for hypothesis-driven research? PMID:30059804
The value of universally available raw NMR data for transparency, reproducibility, and integrity in natural product research. PMID:30003207
A decade after the metabolomics standards initiative it's time for a revision. PMID:29989594
PROMIS, global analysis of PROtein-metabolite interactions using size separation in Arabidopsis thaliana. PMID:29853640
Software Tools and Approaches for Compound Identification of LC-MS/MS Data in Metabolomics. PMID:29748461
Current Challenges in Plant Eco-Metabolomics. PMID:29734799
MetExplore: collaborative edition and exploration of metabolic networks. PMID:29718355
Based on the Metabolomic Approach the Energy Metabolism Responses of Oriental River Prawn Macrobrachium nipponense Hepatopancreas to Acute Hypoxia and Reoxygenation. PMID:29686619
Cancer-cell-secreted exosomal miR-105 promotes tumour growth through the MYC-dependent metabolic reprogramming of stromal cells. PMID:29662176
Grazer-induced transcriptomic and metabolomic response of the chain-forming diatom Skeletonema marinoi. PMID:29599523
STRENDA DB: enabling the validation and sharing of enzyme kinetics data. PMID:29498804
When Transcriptomics and Metabolomics Work Hand in Hand: A Case Study Characterizing Plant CDF Transcription Factors. PMID:29495643
A lost opportunity for science: journals promote data sharing in metabolomics but do not enforce it. PMID:29479297
Metabolomic alterations in invasive ductal carcinoma of breast: A comprehensive metabolomic study using tissue and serum samples. PMID:29416801
Global Analyses of Selective Insulin Resistance in Hepatocytes Caused by Palmitate Lipotoxicity. PMID:29414761
Linking soil biology and chemistry in biological soil crust using isolate exometabolomics. PMID:29296020
Ash leaf metabolomes reveal differences between trees tolerant and susceptible to ash dieback disease. PMID:29257137
Assessing Public Metabolomics Metadata, Towards Improving Quality. PMID:29236679
Strategies for dereplication of natural compounds using high-resolution tandem mass spectrometry. PMID:29225718
Similar, but different: structurally related azelaic acid and hexanoic acid trigger differential metabolomic and transcriptomic responses in tobacco cells. PMID:29187153
SATORI: a system for ontology-guided visual exploration of biomedical data repositories. PMID:29186292
Identifying metabolites by integrating metabolome databases with mass spectrometry cheminformatics. PMID:29176591
WikiPathways: a multifaceted pathway database bridging metabolomics to other omics research. PMID:29136241
jMorp: Japanese Multi Omics Reference Panel. PMID:29069501
The BioStudies database-one stop shop for all data supporting a life sciences study. PMID:29069414
Deciphering lipid structures based on platform-independent decision rules. PMID:29058722
PKM2 methylation by CARM1 activates aerobic glycolysis to promote tumorigenesis. PMID:29058718
Compliance with minimum information guidelines in public metabolomics repositories. PMID:28949328
Navigating freely-available software tools for metabolomics analysis. PMID:28890673
Automated assembly of species metabolomes through data submission into a public repository. PMID:28830114
Metabolomics based markers predict type 2 diabetes in a 14-year follow-up study. PMID:28804275
Volatile Metabolites Emission by In Vivo Microalgae-An Overlooked Opportunity? PMID:28788107
Metabolomic Analysis of Alfalfa (Medicago sativa L.) Root-Symbiotic Rhizobia Responses under Alkali Stress. PMID:28744296
Synthetic and systems biology for microbial production of commodity chemicals. PMID:28725470
Seed Metabolome Analysis of a Transgenic Rice Line Expressing Cholera Toxin B-subunit. PMID:28701756
Metabolomics Identifies Metabolic Markers of Maturation in Human Pluripotent Stem Cell-Derived Cardiomyocytes. PMID:28656061
Unique identifiers for small molecules enable rigorous labeling of their atoms. PMID:28534867
NOREVA: normalization and evaluation of MS-based metabolomics data. PMID:28525573
From chromatogram to analyte to metabolite. How to pick horses for courses from the massive web resources for mass spectral plant metabolomics. PMID:28520864
A Web Service Framework for Interactive Analysis of Metabolomics Data. PMID:28514166
Longevity of major coenzymes allows minimal de novo synthesis in microorganisms. PMID:28504670
Development of a core Clostridium thermocellum kinetic metabolic model consistent with multiple genetic perturbations. PMID:28469704
Identification of small molecules using accurate mass MS/MS search. PMID:28436590
Evidence of a DHA Signature in the Lipidome and Metabolome of Human Hepatocytes. PMID:28208746
How close are we to complete annotation of metabolomes? PMID:28113135
Global open data management in metabolomics. PMID:28092796
MASTR-MS: a web-based collaborative laboratory information management system (LIMS) for metabolomics. PMID:28090199
Computational tools and workflows in metabolomics: An international survey highlights the opportunity for harmonisation through Galaxy. PMID:28090198
A complete workflow for high-resolution spectral-stitching nanoelectrospray direct-infusion mass-spectrometry-based metabolomics and lipidomics. PMID:28079878
Considerations when choosing a genetic model organism for metabolomics studies. PMID:28025166
Performance Evaluation and Online Realization of Data-driven Normalization Methods Used in LC/MS based Untargeted Metabolomics Analysis. PMID:27958387
Genome, transcriptome and proteome: the rise of omics data and their integration in biomedical sciences. PMID:27881428
A Conversation on Data Mining Strategies in LC-MS Untargeted Metabolomics: Pre-Processing and Pre-Treatment Steps. PMID:27827887
The Poly (ADP-Ribose) Polymerase Inhibitor Veliparib and Radiation Cause Significant Cell Line Dependent Metabolic Changes in Breast Cancer Cells. PMID:27811964
Updates in Rhea - an expert curated resource of biochemical reactions. PMID:27789701
Prediction, Detection, and Validation of Isotope Clusters in Mass Spectrometry Data. PMID:27775610
The metabolome 18 years on: a concept comes of age. PMID:27695392
Alterations in Serum Polyunsaturated Fatty Acids and Eicosanoids in Patients with Mild to Moderate Chronic Obstructive Pulmonary Disease (COPD). PMID:27657052
The Lipopolysaccharide-Induced Metabolome Signature in Arabidopsis thaliana Reveals Dynamic Reprogramming of Phytoalexin and Phytoanticipin Pathways. PMID:27656890
Systems Medicine as an Emerging Tool for Cardiovascular Genetics. PMID:27626034
Meta-analysis of clinical metabolic profiling studies in cancer: challenges and opportunities. PMID:27601137
Sharing and community curation of mass spectrometry data with Global Natural Products Social Molecular Networking. PMID:27504778
Editorial: Metabolome Informatics and Statistics: Current State and Emerging Trends. PMID:27486579
Coordinate Regulation of Metabolite Glycosylation and Stress Hormone Biosynthesis by TT8 in Arabidopsis. PMID:27432888
Metabolomics: an emerging but powerful tool for precision medicine. PMID:27148576
Advantages and Pitfalls of Mass Spectrometry Based Metabolome Profiling in Systems Biology. PMID:27128910
The Ontology for Biomedical Investigations. PMID:27128319
Emerging applications of metabolomics in drug discovery and precision medicine. PMID:26965202
Deciphering ocean carbon in a changing world. PMID:26951682
libChEBI: an API for accessing the ChEBI database. PMID:26933452
Galaxy-M: a Galaxy workflow for processing and analyzing direct infusion and liquid chromatography mass spectrometry-based metabolomics data. PMID:26913198
A Computational Solution to Automatically Map Metabolite Libraries in the Context of Genome Scale Metabolic Networks. PMID:26909353
The Time Is Right to Focus on Model Organism Metabolomes. PMID:26891337
Taking Bioinformatics to Systems Medicine. PMID:26677177
Data standards can boost metabolomics research, and if there is a will, there is a way. PMID:26612985
ATP-binding Cassette Subfamily C Member 5 (ABCC5) Functions as an Efflux Transporter of Glutamate Conjugates and Analogs. PMID:26515061
A Glimpse to Background and Characteristics of Major Molecular Biological Networks. PMID:26491677
COordination of Standards in MetabOlomicS (COSMOS): facilitating integrated metabolomics data access. PMID:26491418
Metabolic responses induced by DNA damage and poly (ADP-ribose) polymerase (PARP) inhibition in MCF-7 cells. PMID:26478723
ChEBI in 2016: Improved services and an expanding collection of metabolites. PMID:26467479
Metabolomics Workbench: An international repository for metabolomics data and metadata, metabolite standards, protocols, tutorials and training, and analysis tools. PMID:26467476
Joint Analysis of Dependent Features within Compound Spectra Can Improve Detection of Differential Features. PMID:26442246
Cheminformatics Research at the Unilever Centre for Molecular Science Informatics Cambridge. PMID:26435758
Systems analysis of host-parasite interactions. PMID:26306749
PhenoMeter: A Metabolome Database Search Tool Using Statistical Similarity Matching of Metabolic Phenotypes for High-Confidence Detection of Functional Links. PMID:26284240
SEEK: a systems biology data and model management platform. PMID:26160520
From Peer-Reviewed to Peer-Reproduced in Scholarly Publishing: The Complementary Roles of Data Models and Workflows in Bioinformatics. PMID:26154165
Standardizing the experimental conditions for using urine in NMR-based metabolomic studies with a particular focus on diagnostic studies: a review. PMID:26109927
Many InChIs and quite some feat. PMID:26081259
Metabolic differences in ripening of Solanum lycopersicum 'Ailsa Craig' and three monogenic mutants. PMID:25977786
Direct infusion mass spectrometry metabolomics dataset: a benchmark for data processing and quality control. PMID:25977770
The SwissLipids knowledgebase for lipid biology. PMID:25943471
The Da Vinci European BioBank: A Metabolomics-Driven Infrastructure. PMID:25913579
Metabolonote: a wiki-based database for managing hierarchical metadata of metabolome analyses. PMID:25905099
BiNChE: a web tool and library for chemical enrichment analysis based on the ChEBI ontology. PMID:25879798
The EBI Search engine: providing search and retrieval functionality for biological data from EMBL-EBI. PMID:25855807
Analytical methods in untargeted metabolomics: state of the art in 2015. PMID:25798438
A 'rule of 0.5' for the metabolite-likeness of approved pharmaceutical drugs. PMID:25750602
Molecular phenotyping of a UK population: defining the human serum metabolome. PMID:25598764
MetaDB a Data Processing Workflow in Untargeted MS-Based Metabolomics Experiments. PMID:25566535
A public repository for mass spectrometry imaging data. PMID:25542566
Metabolism of skin-absorbed resveratrol into its glucuronized form in mouse skin. PMID:25506824
Pathomx: an interactive workflow-based tool for the analysis of metabolomic data. PMID:25490956
linkedISA: semantic representation of ISA-Tab experimental metadata. PMID:25472428
CeCaFDB: a curated database for the documentation, visualization and comparative analysis of central carbon metabolic flux distributions explored by 13C-fluxomics. PMID:25392417
Updates in Rhea--a manually curated resource of biochemical reactions. PMID:25332395
Comparative proteome analysis reveals conserved and specific adaptation patterns of Staphylococcus aureus after internalization by different types of human non-professional phagocytic host cells. PMID:25136337
The mzTab data exchange format: communicating mass-spectrometry-based proteomics and metabolomics experimental results to a wider audience. PMID:24980485
Recent applications of metabolomics toward cyanobacteria. PMID:24957891
Tools and databases of the KOMICS web portal for preprocessing, mining, and dissemination of metabolomics data. PMID:24949426
Impacts of the Callipyge mutation on ovine plasma metabolites and muscle fibre type. PMID:24937646
Phototrophic biofilm assembly in microbial-mat-derived unicyanobacterial consortia: model systems for the study of autotroph-heterotroph interactions. PMID:24778628
Data Mining Methods for Omics and Knowledge of Crude Medicinal Plants toward Big Data Biology. PMID:24688691
jmzTab: a java interface to the mzTab data standard. PMID:24659499
GigaDB: promoting data dissemination and reproducibility. PMID:24622612
The Risa R/Bioconductor package: integrative data analysis from experimental metadata and back again. PMID:24564732
ABCC6 prevents ectopic mineralization seen in pseudoxanthoma elasticum by inducing cellular nucleotide release. PMID:24277820
The European Bioinformatics Institute's data resources 2014. PMID:24271396
EBI metagenomics--a new resource for the analysis and archiving of metagenomic data. PMID:24165880
The role of reporting standards for metabolite annotation and identification in metabolomic studies. PMID:24131531
metabolicMine: an integrated genomics, genetics and proteomics data warehouse for common metabolic disease research. PMID:23935057
Metabolomics and systems pharmacology: why and how to model the human metabolic network for drug discovery. PMID:23892182
An analysis of a 'community-driven' reconstruction of the human metabolic network. PMID:23888127
Predicting network activity from high throughput metabolomics. PMID:23861661
Dissemination of metabolomics results: role of MetaboLights and COSMOS. PMID:23683662
Error Analysis and Propagation in Metabolomics Data Analysis. PMID:23667718
The MetaboLights repository: curation challenges in metabolomics. PMID:23630246
Recent progress in the development of metabolome databases for plant systems biology. PMID:23577015 -
ISA software suite: supporting standards-compliant experimental annotation and enabling curation at the community level
PubMed citations: 131.
131 articles citing: ISA software suite: supporting standards-compliant experimental annotation and enabling curation at the community level
A Current Encyclopedia of Bioinformatics Tools, Data Formats and Resources for Mass Spectrometry Lipidomics. PMID:35888710
NExtSEEK: Extending SEEK for Active Management of Interoperable Metadata. PMID:35836998
End-to-End provenance representation for the understandability and reproducibility of scientific experiments using a semantic approach. PMID:34991705
Linking big biomedical datasets to modular analysis with Portable Encapsulated Projects. PMID:34890448
Mutation of the ALBOSTRIANS Ohnologous Gene HvCMF3 Impairs Chloroplast Development and Thylakoid Architecture in Barley. PMID:34659298
The role of metadata in reproducible computational research. PMID:34553169
ISA API: An open platform for interoperable life science experimental metadata. PMID:34528664
Opportunities and limits of controlled-environment plant phenotyping for climate response traits. PMID:34302493
A streamlined workflow for conversion, peer review, and publication of genomics metadata as omics data papers. PMID:33983435
NASA GeneLab RNA-seq consensus pipeline: standardized processing of short-read RNA-seq data. PMID:33870146
isa4j: a scalable Java library for creating ISA-Tab metadata. PMID:33728038
HastaLaVista, a web-based user interface for NMR-based untargeted metabolic profiling analysis in biomedical sciences: towards a new publication standard. PMID:33430999
LabPipe: an extensible bioinformatics toolkit to manage experimental data and metadata. PMID:33267792
Ten simple rules for annotating sequencing experiments. PMID:33017400
Facilitating author-driven, machine-readable descriptions with the new minISA metadata format. PMID:32934235
BRIDGE - A Visual Analytics Web Tool for Barley Genebank Genomics. PMID:32595658
Community standards for open cell migration data. PMID:32396199
QIIME 2 Enables Comprehensive End-to-End Analysis of Diverse Microbiome Data and Comparative Studies with Publicly Available Data. PMID:32343490
BioHackathon 2015: Semantics of data for life sciences and reproducible research. PMID:32308977
The CEDAR Workbench: An Ontology-Assisted Environment for Authoring Metadata that Describe Scientific Experiments. PMID:32219223
Enabling reusability of plant phenomic datasets with MIAPPE 1.1. PMID:32171029
Experiment design driven FAIRification of omics data matrices, an exemplar. PMID:31831744
The Empusa code generator and its application to GBOL, an extendable ontology for genome annotation. PMID:31685817
Annot: a Django-based sample, reagent, and experiment metadata tracking system. PMID:31675914
Key challenges facing data-driven multicellular systems biology. PMID:31648301
The metaRbolomics Toolbox in Bioconductor and beyond. PMID:31548506
Using association rule mining and ontologies to generate metadata recommendations from multiple biomedical databases. PMID:31210270
Ontology-based metabolomics data integration with quality control. PMID:31179719
Impact framework: A python package for writing data analysis workflows to interpret microbial physiology. PMID:31011536
OMeta: an ontology-based, data-driven metadata tracking system. PMID:30612540
PhenoMeNal: processing and analysis of metabolomics data in the cloud. PMID:30535405
Evaluation of a novel cloud-based software platform for structured experiment design and linked data analytics. PMID:30280721
Open data, open curation. PMID:30251993
Computational workflow to study the seasonal variation of secondary metabolites in nine different bryophytes. PMID:30152810
MS-based lipidomics of human blood plasma: a community-initiated position paper to develop accepted guidelines. PMID:30115755
The value of universally available raw NMR data for transparency, reproducibility, and integrity in natural product research. PMID:30003207
A decade after the metabolomics standards initiative it's time for a revision. PMID:29989594
AVOCADO: Visualization of Workflow-Derived Data Provenance for Reproducible Biomedical Research. PMID:29973745
Fast and Accurate Metadata Authoring Using Ontology-Based Recommendations. PMID:29854196
A FAIR guide for data providers to maximise sharing of human genomic data. PMID:29543799
Data Sharing: Convert Challenges into Opportunities. PMID:29270401
Assessing Public Metabolomics Metadata, Towards Improving Quality. PMID:29236679
The Library of Integrated Network-Based Cellular Signatures NIH Program: System-Level Cataloging of Human Cells Response to Perturbations. PMID:29199020
MicrobiomeDB: a systems biology platform for integrating, mining and analyzing microbiome experiments. PMID:29106667
Navigating freely-available software tools for metabolomics analysis. PMID:28890673
Synthetic and systems biology for microbial production of commodity chemicals. PMID:28725470
Predicting biomedical metadata in CEDAR: A study of Gene Expression Omnibus (GEO). PMID:28625880
mzML2ISA & nmrML2ISA: generating enriched ISA-Tab metadata files from metabolomics XML data. PMID:28402395
Global open data management in metabolomics. PMID:28092796
Measures for interoperability of phenotypic data: minimum information requirements and formatting. PMID:27843484
cual-id: Globally Unique, Correctable, and Human-Friendly Sample Identifiers for Comparative Omics Studies. PMID:27822516
The environment ontology in 2016: bridging domains with increased scope, semantic density, and interoperation. PMID:27664130
Quantitative monitoring of Arabidopsis thaliana growth and development using high-throughput plant phenotyping. PMID:27529152
Keemei: cloud-based validation of tabular bioinformatics file formats in Google Sheets. PMID:27296526
BioSharing: curated and crowd-sourced metadata standards, databases and data policies in the life sciences. PMID:27189610
How should the completeness and quality of curated nanomaterial data be evaluated? PMID:27143028
The Ontology for Biomedical Investigations. PMID:27128319
PGP repository: a plant phenomics and genomics data publication infrastructure. PMID:27087305
The Human Physiome: how standards, software and innovative service infrastructures are providing the building blocks to make it achievable. PMID:27051515
Principles of metadata organization at the ENCODE data coordination center. PMID:26980513
The Electron Microscopy eXchange (EMX) initiative. PMID:26873784
An ISA-TAB-Nano based data collection framework to support data-driven modelling of nanotoxicology. PMID:26665069
Data standards can boost metabolomics research, and if there is a will, there is a way. PMID:26612985
COordination of Standards in MetabOlomicS (COSMOS): facilitating integrated metabolomics data access. PMID:26491418
Use of semantic workflows to enhance transparency and reproducibility in clinical omics. PMID:26289940
The National NeuroAIDS Tissue Consortium (NNTC) Database: an integrated database for HIV-related studies. PMID:26228431
SEEK: a systems biology data and model management platform. PMID:26160520
A reproducible approach to high-throughput biological data acquisition and integration. PMID:26157642
From Peer-Reviewed to Peer-Reproduced in Scholarly Publishing: The Complementary Roles of Data Models and Workflows in Bioinformatics. PMID:26154165
Omics Metadata Management Software (OMMS). PMID:26124554
The center for expanded data annotation and retrieval. PMID:26112029
Standardizing the experimental conditions for using urine in NMR-based metabolomic studies with a particular focus on diagnostic studies: a review. PMID:26109927
A general concept for consistent documentation of computational analyses. PMID:26055099
Metabolic differences in ripening of Solanum lycopersicum 'Ailsa Craig' and three monogenic mutants. PMID:25977786
Direct infusion mass spectrometry metabolomics dataset: a benchmark for data processing and quality control. PMID:25977770
Metabolonote: a wiki-based database for managing hierarchical metadata of metabolome analyses. PMID:25905099
Metazen - metadata capture for metagenomes. PMID:25780508
Optimizing experimental procedures for quantitative evaluation of crop plant performance in high throughput phenotyping systems. PMID:25653655
MetaDB a Data Processing Workflow in Untargeted MS-Based Metabolomics Experiments. PMID:25566535
VectorBase: an updated bioinformatics resource for invertebrate vectors and other organisms related with human diseases. PMID:25510499
diXa: a data infrastructure for chemical safety assessment. PMID:25505093
linkedISA: semantic representation of ISA-Tab experimental metadata. PMID:25472428
Workshop report: Identifying opportunities for global integration of toxicogenomics databases, 26-27 June 2013, Research Triangle Park, NC, USA. PMID:25326818
Structuring research methods and data with the research object model: genomics workflows as a case study. PMID:25276335
ProtocolNavigator: emulation-based software for the design, documentation and reproduction biological experiments. PMID:25150250
Semantic Web repositories for genomics data using the eXframe platform. PMID:25093072
A digital repository with an extensible data model for biobanking and genomic analysis management. PMID:25077808
e!DAL--a framework to store, share and publish research data. PMID:24958009
Standardized metadata for human pathogen/vector genomic sequences. PMID:24936976
The eGenVar data management system--cataloguing and sharing sensitive data and metadata for the life sciences. PMID:24682735
Advances in genome studies in plants and animals. PMID:24626952
QTREDS: a Ruby on Rails-based platform for omics laboratories. PMID:24564791
The Risa R/Bioconductor package: integrative data analysis from experimental metadata and back again. PMID:24564732
EBI metagenomics--a new resource for the analysis and archiving of metagenomic data. PMID:24165880
The role of reporting standards for metabolite annotation and identification in metabolomic studies. PMID:24131531
Biomarkers in autism spectrum disorder: the old and the new. PMID:24096533
Modeling functional Magnetic Resonance Imaging (fMRI) experimental variables in the Ontology of Experimental Variables and Values (OoEVV). PMID:23684873
The MetaboLights repository: curation challenges in metabolomics. PMID:23630246
The HUPO proteomics standards initiative- mass spectrometry controlled vocabulary. PMID:23482073
The Metadata Coverage Index (MCI): A standardized metric for quantifying database metadata richness. PMID:23409217
ISA-TAB-Nano: a specification for sharing nanomaterial research data in spreadsheet-based format. PMID:23311978
OntoMaton: a bioportal powered ontology widget for Google Spreadsheets. PMID:23267176
MetaboLights--an open-access general-purpose repository for metabolomics studies and associated meta-data. PMID:23109552
Data management strategies for multinational large-scale systems biology projects. PMID:23047157
Report of the 13(th) Genomic Standards Consortium Meeting, Shenzhen, China, March 4-7, 2012. PMID:22768370
Conceptualizing a Genomics Software Institute (GSI). PMID:22675605
DIPSBC--data integration platform for systems biology collaborations. PMID:22568834
graph2tab, a library to convert experimental workflow graphs into tabular formats. PMID:22556367
Developing predictive molecular maps of human disease through community-based modeling. PMID:22281773
Toward interoperable bioscience data. PMID:22281772
Guidelines for information about therapy experiments: a proposal on best practice for recording experimental data on cancer therapy. PMID:22226027
VectorBase: improvements to a bioinformatics resource for invertebrate vector genomics. PMID:22135296
The Stem Cell Discovery Engine: an integrated repository and analysis system for cancer stem cell comparisons. PMID:22121217
eXframe: reusable framework for storage, analysis and visualization of genomics experiments. PMID:22103807
The BioSample Database (BioSD) at the European Bioinformatics Institute. PMID:22096232
Empowering industrial research with shared biomedical vocabularies. PMID:21963522
CDinFusion--submission-ready, on-line integration of sequence and contextual data. PMID:21935468
Knowledge engineering tools for reasoning with scientific observations and interpretations: a neural connectivity use case. PMID:21859449
The Genomic Standards Consortium. PMID:21713030
BioPortal: enhanced functionality via new Web services from the National Center for Biomedical Ontology to access and use ontologies in software applications. PMID:21672956
MeRy-B: a web knowledgebase for the storage, visualization, analysis and annotation of plant NMR metabolomic profiles. PMID:21668943
Sharing and archiving nucleic acid structure mapping data. PMID:21610212
Minimum information about a marker gene sequence (MIMARKS) and minimum information about any (x) sequence (MIxS) specifications. PMID:21552244
The genomic standards consortium: bringing standards to life for microbial ecology. PMID:21472015
Answering biological questions: querying a systems biology database for nutrigenomics. PMID:21437033
LabKey Server: an open source platform for scientific data integration, analysis and collaboration. PMID:21385461
Meeting Report from the Second "Minimum Information for Biological and Biomedical Investigations" (MIBBI) workshop. PMID:21304730
Meeting Report: BioSharing at ISMB 2010. PMID:21304729
Meeting Report from the Genomic Standards Consortium (GSC) Workshop 10. PMID:21304723
Meeting Report from the Genomic Standards Consortium (GSC) Workshop 9. PMID:21304722
Meeting Report from the Genomic Standards Consortium (GSC) Workshop 8. PMID:21304696 -
OntoMaton: a bioportal powered ontology widget for Google Spreadsheets
PubMed citations: 25.
25 articles citing: OntoMaton: a bioportal powered ontology widget for Google Spreadsheets
A curated, ontology-based, large-scale knowledge graph of artificial intelligence tasks and benchmarks. PMID:35715466
A proteomics sample metadata representation for multiomics integration and big data analysis. PMID:34615866
ISA API: An open platform for interoperable life science experimental metadata. PMID:34528664
isa4j: a scalable Java library for creating ISA-Tab metadata. PMID:33728038
"METAGENOTE: a simplified web platform for metadata annotation of genomic samples and streamlined submission to NCBI's sequence read archive". PMID:32883210
Scientist and data architect collaborate to curate and archive an inner ear electrophysiology data collection. PMID:31626635
Data Management in Computational Systems Biology: Exploring Standards, Tools, Databases, and Packaging Best Practices. PMID:31602618
The D2Refine Platform for the Standardization of Clinical Research Study Data Dictionaries: Usability Study. PMID:30045832
The eXtensible ontology development (XOD) principles and tool implementation to support ontology interoperability. PMID:29329592
An ontology-based search engine for digital reconstructions of neuronal morphology. PMID:28337675
A scientist's guide for submitting data to ZFIN. PMID:27443940
Keemei: cloud-based validation of tabular bioinformatics file formats in Google Sheets. PMID:27296526
The Ontology for Biomedical Investigations. PMID:27128319
Webulous and the Webulous Google Add-On--a web service and application for ontology building from templates. PMID:27042287
COordination of Standards in MetabOlomicS (COSMOS): facilitating integrated metabolomics data access. PMID:26491418
Identifying acne treatment uncertainties via a James Lind Alliance Priority Setting Partnership. PMID:26187120
From Peer-Reviewed to Peer-Reproduced in Scholarly Publishing: The Complementary Roles of Data Models and Workflows in Bioinformatics. PMID:26154165
VectorBase: an updated bioinformatics resource for invertebrate vectors and other organisms related with human diseases. PMID:25510499
linkedISA: semantic representation of ISA-Tab experimental metadata. PMID:25472428
Structuring research methods and data with the research object model: genomics workflows as a case study. PMID:25276335
Standardized metadata for human pathogen/vector genomic sequences. PMID:24936976
The Risa R/Bioconductor package: integrative data analysis from experimental metadata and back again. PMID:24564732
Biomarkers in autism spectrum disorder: the old and the new. PMID:24096533
NCBO Technology: Powering semantically aware applications. PMID:23734708
The MetaboLights repository: curation challenges in metabolomics. PMID:23630246
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assay
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biological sample
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dna microarray
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device
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experimental measurement
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experimentally determined
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gene expression data
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assay
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biological sample
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dna microarray
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experimental measurement
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experimentally determined
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gene expression data
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protocol
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reagent
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report
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metasource: Fairsharing.org
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study design
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assay biological sample dna microarray device experimental measurement experimentally determined gene expression protocol reagent report study design
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