The Arabidopsis Gene Regulatory Information Server
Names
More detailed information about this field from each metasource.
The Arabidopsis Gene Regulatory Information Server
metasource: Fairsharing.org
version: FAIRsharing.org: AGRIS; The Arabidopsis Gene Regulatory Information Server; DOI: https://doi.org/10.25504/FAIRsharing.6v2d2h; Last edited: Jan. 8, 2019, 1:15 p.m.; Last accessed: Jan 03 2022 7:06 p.m.
AGRIS
metasource: Fairsharing.org
version: FAIRsharing.org: AGRIS; The Arabidopsis Gene Regulatory Information Server; DOI: https://doi.org/10.25504/FAIRsharing.6v2d2h; Last edited: Jan. 8, 2019, 1:15 p.m.; Last accessed: Jan 03 2022 7:06 p.m.
metasource: bio.tools
version: extracted_at: 2022-11-04T11:34:10.370257
AGRIS - Arabidopsis Gene Regulatory Information Server
metasource: Nucleic Acid Research database catalogue
version: extracted_at: 2022-11-04T11:16:25.468657
agris
metasource: bio.tools
version: extracted_at: 2022-11-04T11:34:10.370257
Names
More detailed information about this field from each metasource.
The Arabidopsis Gene Regulatory Information Server
metasource: Fairsharing.orgversion: FAIRsharing.org: AGRIS; The Arabidopsis Gene Regulatory Information Server; DOI: https://doi.org/10.25504/FAIRsharing.6v2d2h; Last edited: Jan. 8, 2019, 1:15 p.m.; Last accessed: Jan 03 2022 7:06 p.m.
AGRIS
metasource: Fairsharing.orgversion: FAIRsharing.org: AGRIS; The Arabidopsis Gene Regulatory Information Server; DOI: https://doi.org/10.25504/FAIRsharing.6v2d2h; Last edited: Jan. 8, 2019, 1:15 p.m.; Last accessed: Jan 03 2022 7:06 p.m.
metasource: bio.tools
version: extracted_at: 2022-11-04T11:34:10.370257
AGRIS - Arabidopsis Gene Regulatory Information Server
metasource: Nucleic Acid Research database catalogueversion: extracted_at: 2022-11-04T11:16:25.468657
agris
metasource: bio.toolsversion: extracted_at: 2022-11-04T11:34:10.370257
Other names: AGRIS, AGRIS - Arabidopsis Gene Regulatory Information Server, agris
Names
More detailed information about this field from each metasource.
The Arabidopsis Gene Regulatory Information Server
metasource: Fairsharing.orgversion: FAIRsharing.org: AGRIS; The Arabidopsis Gene Regulatory Information Server; DOI: https://doi.org/10.25504/FAIRsharing.6v2d2h; Last edited: Jan. 8, 2019, 1:15 p.m.; Last accessed: Jan 03 2022 7:06 p.m.
AGRIS
metasource: Fairsharing.orgversion: FAIRsharing.org: AGRIS; The Arabidopsis Gene Regulatory Information Server; DOI: https://doi.org/10.25504/FAIRsharing.6v2d2h; Last edited: Jan. 8, 2019, 1:15 p.m.; Last accessed: Jan 03 2022 7:06 p.m.
metasource: bio.tools
version: extracted_at: 2022-11-04T11:34:10.370257
AGRIS - Arabidopsis Gene Regulatory Information Server
metasource: Nucleic Acid Research database catalogueversion: extracted_at: 2022-11-04T11:16:25.468657
agris
metasource: bio.toolsversion: extracted_at: 2022-11-04T11:34:10.370257
The Arabidopsis Gene Regulatory Information Server (AGRIS) is a new information resource of Arabidopsis promoter sequences, transcription factors and their target genes. AGRIS currently contains two databases, AtcisDB (Arabidopsis thaliana cis-regulatory database) and AtTFDB (Arabidopsis thaliana transcription factor database). The two databases, used in tandem, provide a powerful tool for use in continuous research.
Description
More detailed information about this field from each metasource.
The Arabidopsis Gene Regulatory Information Server (AGRIS) is a new information resource of Arabidopsis promoter sequences, transcription factors and their target genes. AGRIS currently contains two databases, AtcisDB (Arabidopsis thaliana cis-regulatory database) and AtTFDB (Arabidopsis thaliana transcription factor database). The two databases, used in tandem, provide a powerful tool for use in continuous research.
metasource: Fairsharing.orgversion: FAIRsharing.org: AGRIS; The Arabidopsis Gene Regulatory Information Server; DOI: https://doi.org/10.25504/FAIRsharing.6v2d2h; Last edited: Jan. 8, 2019, 1:15 p.m.; Last accessed: Jan 03 2022 7:06 p.m.
AGRIS is an information resource of Arabidopsis promoter sequences, transcription factors and their target genes. AGRIS currently contains two databases, AtTFDB (Arabidopsis thaliana transcription factor database) and AtcisDB (Arabidopsis thaliana cis-regulatory database). AtTFDB contains information on approximately 1,500 transcription factors identified through motif searches and grouped into families, based on the presence of conserved domains. AtTFDB links the sequence of the transcription factors with available mutants and, when known, with the possible genes they may regulate. AtcisDB consists of the 5' regulatory sequences of all 29,388 annotated genes with a description of the corresponding cis-regulatory elements. Users can search the databases for (i) promoter sequences, (ii) a transcription factor, (iii) a direct target gene for a specific transcription factor, or (vi) a regulatory network that consists of transcription factors and their target genes.
metasource: Nucleic Acid Research database catalogueversion: extracted_at: 2022-11-04T11:16:25.468657
Comprehensive resource for gene regulatory studies in the model plant Arabidopsis thaliana. Three interlinked databases, AtTFDB, AtcisDB and AtRegNet, furnish comprehensive and updated information on transcription factors (TFs), predicted and experimentally verified cis-regulatory elements (CREs) and their interactions, respectively.
metasource: bio.toolsversion: extracted_at: 2022-11-04T11:34:10.370257
Webpage:
http://arabidopsis.med.ohio-state.eduWebpage
More detailed information about this field from each metasource.
http://arabidopsis.med.ohio-state.edu
metasource: Fairsharing.orgversion: FAIRsharing.org: AGRIS; The Arabidopsis Gene Regulatory Information Server; DOI: https://doi.org/10.25504/FAIRsharing.6v2d2h; Last edited: Jan. 8, 2019, 1:15 p.m.; Last accessed: Jan 03 2022 7:06 p.m.
http://arabidopsis.med.ohio-state.edu/
metasource: Nucleic Acid Research database catalogueversion: extracted_at: 2022-11-04T11:16:25.468657
metasource: bio.tools
version: extracted_at: 2022-11-04T11:34:10.370257
Publications:
Publications
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AGRIS: the Arabidopsis Gene Regulatory Information Server, an update
PMID: 21059685
metasource: Fairsharing.org
version: FAIRsharing.org: AGRIS; The Arabidopsis Gene Regulatory Information Server; DOI: https://doi.org/10.25504/FAIRsharing.6v2d2h; Last edited: Jan. 8, 2019, 1:15 p.m.; Last accessed: Jan 03 2022 7:06 p.m.
metasource: bio.tools
version: extracted_at: 2022-11-04T11:34:10.370257
Publications
More detailed information about this field from each metasource.
AGRIS: the Arabidopsis Gene Regulatory Information Server, an update
PMID: 21059685
metasource: Fairsharing.org
version: FAIRsharing.org: AGRIS; The Arabidopsis Gene Regulatory Information Server; DOI: https://doi.org/10.25504/FAIRsharing.6v2d2h; Last edited: Jan. 8, 2019, 1:15 p.m.; Last accessed: Jan 03 2022 7:06 p.m.
metasource: bio.tools
version: extracted_at: 2022-11-04T11:34:10.370257
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AGRIS: the Arabidopsis Gene Regulatory Information Server, an update
PubMed citations: 157.
157 articles citing: AGRIS: the Arabidopsis Gene Regulatory Information Server, an update
ChIP-Hub provides an integrative platform for exploring plant regulome. PMID:35701419
B3 Transcription Factors Determine Iron Distribution and FERRITIN Gene Expression in Embryo but Do Not Control Total Seed Iron Content. PMID:35599858
Stress Conditions Modulate the Chromatin Interactions Network in Arabidopsis. PMID:35069698
Genomically Hardwired Regulation of Gene Activity Orchestrates Cellular Iron Homeostasis in Arabidopsis. PMID:35067184
Spatiotemporal analysis identifies ABF2 and ABF3 as key hubs of endodermal response to nitrate. PMID:35046022
Subcellular Localization of Seed-Expressed LEA_4 Proteins Reveals Liquid-Liquid Phase Separation for LEA9 and for LEA48 Homo- and LEA42-LEA48 Heterodimers. PMID:34944414
Three topological features of regulatory networks control life-essential and specialized subsystems. PMID:34930908
Evolutionarily informed machine learning enhances the power of predictive gene-to-phenotype relationships. PMID:34561450
PlantGSAD: a comprehensive gene set annotation database for plant species. PMID:34534340
Arabidopsis Coexpression Tool: a tool for gene coexpression analysis in Arabidopsis thaliana. PMID:34381973
Bow-tie architecture of gene regulatory networks in species of varying complexity. PMID:34102083
Genome-Wide In Silico Identification and Comparative Analysis of Dof Gene Family in Brassica napus. PMID:33916912
Integrative inference of transcriptional networks in Arabidopsis yields novel ROS signalling regulators. PMID:33846597
Promoter Architecture and Transcriptional Regulation of Genes Upregulated in Germination and Coleoptile Elongation of Diverse Rice Genotypes Tolerant to Submergence. PMID:33796132
ConnecTF: A platform to integrate transcription factor-gene interactions and validate regulatory networks. PMID:33631799
Microarray analysis of Arabidopsis thaliana exposed to single and mixed infections with Cucumber mosaic virus and turnip viruses. PMID:33627959
Alternative splicing landscapes in Arabidopsis thaliana across tissues and stress conditions highlight major functional differences with animals. PMID:33446251
CamRegBase: a gene regulation database for the biofuel crop, Camelina sativa. PMID:33306801
Prometheus, an omics portal for interkingdom comparative genomic analyses. PMID:33112870
Unusual DNA-binding properties of the Arabidopsis thaliana WRKY50 transcription factor at target gene promoters. PMID:33006643
MYB30 Orchestrates Systemic Reactive Oxygen Signaling and Plant Acclimation. PMID:32699028
ABI3 plays a role in de-novo root regeneration from Arabidopsis thaliana callus cells. PMID:32662721
Identification of small RNAs during cold acclimation in Arabidopsis thaliana. PMID:32600430
Immediate targets of ETTIN suggest a key role for pectin methylesterase inhibitors in the control of Arabidopsis gynecium development. PMID:32498600
Dynamics of Global Gene Expression and Regulatory Elements in Growing Brachypodium Root System. PMID:32341392
Carbon export from leaves is controlled via ubiquitination and phosphorylation of sucrose transporter SUC2. PMID:32123097
Tinkering Cis Motifs Jigsaw Puzzle Led to Root-Specific Drought-Inducible Novel Synthetic Promoters. PMID:32085397
The SWI/SNF ATP-Dependent Chromatin Remodeling Complex in Arabidopsis Responds to Environmental Changes in Temperature-Dependent Manner. PMID:31979421
The miR396-GRF Regulatory Module Controls the Embryogenic Response in Arabidopsis via an Auxin-Related Pathway. PMID:31640280
MUR1-mediated cell-wall fucosylation is required for freezing tolerance in Arabidopsis thaliana. PMID:31549420
Novel mRNAs 3' end-associated cis-regulatory elements with epigenomic signatures of mammalian enhancers in the Arabidopsis genome. PMID:31311821
Inferring Interaction Networks From Multi-Omics Data. PMID:31249591
Co-orthologues of ribosome biogenesis factors in A. thaliana are differentially regulated by transcription factors. PMID:31087154
Angiosperm-Wide and Family-Level Analyses of AP2/ERF Genes Reveal Differential Retention and Sequence Divergence After Whole-Genome Duplication. PMID:30863419
An Arabidopsis TIR-Lectin Two-Domain Protein Confers Defense Properties against Tetranychus urticae. PMID:30765478
Genome wide analysis of W-box element in Arabidopsis thaliana reveals TGAC motif with genes down regulated by heat and salinity. PMID:30737427
Pan- and core- gene association networks: Integrative approaches to understanding biological regulation. PMID:30625202
ICE1 and ZOU determine the depth of primary seed dormancy in Arabidopsis independently of their role in endosperm development. PMID:30570804
SOG1 activator and MYB3R repressors regulate a complex DNA damage network in Arabidopsis. PMID:30541889
PlaD: A Transcriptomics Database for Plant Defense Responses to Pathogens, Providing New Insights into Plant Immune System. PMID:30266409
Identification and characterization of ncRNA-associated ceRNA networks in Arabidopsis leaf development. PMID:30103673
Transcriptional profiling and genes involved in acquired thermotolerance in Banana: a non-model crop. PMID:30013168
Function, dynamics and evolution of network motif modules in integrated gene regulatory networks of worm and plant. PMID:29873777
Temporal transcriptional logic of dynamic regulatory networks underlying nitrogen signaling and use in plants. PMID:29769331
Delineation of condition specific Cis- and Trans-acting elements in plant promoters under various Endo- and exogenous stimuli. PMID:29764390
Telobox motifs recruit CLF/SWN-PRC2 for H3K27me3 deposition via TRB factors in Arabidopsis. PMID:29700471
A Vitis vinifera basic helix-loop-helix transcription factor enhances plant cell size, vegetative biomass and reproductive yield. PMID:29520945
Divergent N Deficiency-Dependent Senescence and Transcriptome Response in Developmentally Old and Young Brassica napus Leaves. PMID:29449851
WRKY23 is a component of the transcriptional network mediating auxin feedback on PIN polarity. PMID:29377885
Biology in the Dry Seed: Transcriptome Changes Associated with Dry Seed Dormancy and Dormancy Loss in the Arabidopsis GA-Insensitive sleepy1-2 Mutant. PMID:29312402
Redundant CArG Box Cis-motif Activity Mediates SHATTERPROOF2 Transcriptional Regulation during Arabidopsis thaliana Gynoecium Development. PMID:29085379
eQTLs Regulating Transcript Variations Associated with Rapid Internode Elongation in Deepwater Rice. PMID:29081784
Substantial contribution of genetic variation in the expression of transcription factors to phenotypic variation revealed by eRD-GWAS. PMID:29041960
Systematic discovery of novel eukaryotic transcriptional regulators using sequence homology independent prediction. PMID:28651538
Transcriptional mechanisms associated with seed dormancy and dormancy loss in the gibberellin-insensitive sly1-2 mutant of Arabidopsis thaliana. PMID:28628628
Topological features of a gene co-expression network predict patterns of natural diversity in environmental response. PMID:28615505
Network Analysis Reveals a Common Host-Pathogen Interaction Pattern in Arabidopsis Immune Responses. PMID:28611808
SeqEnrich: A tool to predict transcription factor networks from co-expressed Arabidopsis and Brassica napus gene sets. PMID:28575075
Large-scale transcriptome analysis reveals arabidopsis metabolic pathways are frequently influenced by different pathogens. PMID:28540497
Combinatorial requirement of W- and WT-boxes in microbe-associated molecular pattern-responsive synthetic promoters. PMID:28341984
Genome-wide analysis of cis-regulatory element structure and discovery of motif-driven gene co-expression networks in grapevine. PMID:28119334
PlantTFDB 4.0: toward a central hub for transcription factors and regulatory interactions in plants. PMID:27924042
Transcriptomic Effects of the Cell Cycle Regulator LGO in Arabidopsis Sepals. PMID:27920789
Differential Coexpression Analysis Reveals Extensive Rewiring of Arabidopsis Gene Coexpression in Response to Pseudomonas syringae Infection. PMID:27721457
Bioinformatic prediction of transcription factor binding sites at promoter regions of genes for photoperiod and vernalization responses in model and temperate cereal plants. PMID:27503086
The Arabidopsis hnRNP-Q Protein LIF2 and the PRC1 Subunit LHP1 Function in Concert to Regulate the Transcription of Stress-Responsive Genes. PMID:27495811
Intron sequences that stimulate gene expression in Arabidopsis. PMID:27492360
Coordinate Regulation of Metabolite Glycosylation and Stress Hormone Biosynthesis by TT8 in Arabidopsis. PMID:27432888
On the Origin of De Novo Genes in Arabidopsis thaliana Populations. PMID:27401176
A Collection of Conserved Noncoding Sequences to Study Gene Regulation in Flowering Plants. PMID:27261064
Gains and Losses of Cis-regulatory Elements Led to Divergence of the Arabidopsis APETALA1 and CAULIFLOWER Duplicate Genes in the Time, Space, and Level of Expression and Regulation of One Paralog by the Other. PMID:27208240
Transcriptomic Signature of the SHATTERPROOF2 Expression Domain Reveals the Meristematic Nature of Arabidopsis Gynoecial Medial Domain. PMID:26983993
Programming of Plant Leaf Senescence with Temporal and Inter-Organellar Coordination of Transcriptome in Arabidopsis. PMID:26966169
CURLY LEAF Regulates Gene Sets Coordinating Seed Size and Lipid Biosynthesis. PMID:26945048
Cis regulatory motifs and antisense transcriptional control in the apicomplexan Theileria parva. PMID:26896950
The diversification of the basic leucine zipper family in eukaryotes correlates with the evolution of multicellularity. PMID:26831906
Diffany: an ontology-driven framework to infer, visualise and analyse differential molecular networks. PMID:26729218
Bioinformatic landscapes for plant transcription factor system research. PMID:26719053
Transcriptional regulatory networks in Arabidopsis thaliana during single and combined stresses. PMID:26681689
An integrated network of Arabidopsis growth regulators and its use for gene prioritization. PMID:26620795
PlantPAN 2.0: an update of plant promoter analysis navigator for reconstructing transcriptional regulatory networks in plants. PMID:26476450
How to Isolate a Plant's Hypomethylome in One Shot. PMID:26421293
PlantDHS: a database for DNase I hypersensitive sites in plants. PMID:26400163
Global transcriptome and gene regulation network for secondary metabolite biosynthesis of tea plant (Camellia sinensis). PMID:26220550
Overview of the gene regulation network and the bacteria biotope tasks in BioNLP'13 shared task. PMID:26202448
Transcriptional profiles of Arabidopsis stomataless mutants reveal developmental and physiological features of life in the absence of stomata. PMID:26157447
Genome-Wide Nucleosome Occupancy and Positioning and Their Impact on Gene Expression and Evolution in Plants. PMID:26143253
Comprehensive Tissue-Specific Transcriptome Analysis Reveals Distinct Regulatory Programs during Early Tomato Fruit Development. PMID:26099271
Temporal transcriptome profiling reveals expression partitioning of homeologous genes contributing to heat and drought acclimation in wheat (Triticum aestivum L.). PMID:26092253
Selection for Improved Energy Use Efficiency and Drought Tolerance in Canola Results in Distinct Transcriptome and Epigenome Changes. PMID:26082400
GraP: platform for functional genomics analysis of Gossypium raimondii. PMID:25982315
In silico analysis of the genes encoding proteins that are involved in the biosynthesis of the RMS/MAX/D pathway revealed new roles of Strigolactones in plants. PMID:25815594
A fungal transcription factor gene is expressed in plants from its own promoter and improves drought tolerance. PMID:25809153
An Arabidopsis Transcriptional Regulatory Map Reveals Distinct Functional and Evolutionary Features of Novel Transcription Factors. PMID:25750178
Discovery of core biotic stress responsive genes in Arabidopsis by weighted gene co-expression network analysis. PMID:25730421
Sequence variation, differential expression, and divergent evolution in starch-related genes among accessions of Arabidopsis thaliana. PMID:25663508
Leaf responses to mild drought stress in natural variants of Arabidopsis. PMID:25604532
Arabidopsis ensemble reverse-engineered gene regulatory network discloses interconnected transcription factors in oxidative stress. PMID:25549671
Maize and millet transcription factors annotated using comparative genomic and transcriptomic data. PMID:25261191
Global transcriptomics identification and analysis of transcriptional factors in different tissues of the paper mulberry. PMID:25213425
RNAseq analysis of cassava reveals similar plant responses upon infection with pathogenic and non-pathogenic strains of Xanthomonas axonopodis pv. manihotis. PMID:25120000
Construction and analysis of microRNA-transcription factor regulation network in Arabidopsis. PMID:25014374
Regulatory network rewiring for secondary metabolism in Arabidopsis thaliana under various conditions. PMID:24993737
Vernalization of Oriental hybrid lily 'Sorbonne': changes in physiology metabolic activity and molecular mechanism. PMID:24990697
Inference of transcriptional networks in Arabidopsis through conserved noncoding sequence analysis. PMID:24989046
Genome-wide identification of transcription factors and transcription-factor binding sites in oleaginous microalgae Nannochloropsis. PMID:24965723
Hit-and-run transcriptional control by bZIP1 mediates rapid nutrient signaling in Arabidopsis. PMID:24958886
Metabolic and transcriptional regulatory mechanisms underlying the anoxic adaptation of rice coleoptile. PMID:24894389
Expression-based network biology identifies immune-related functional modules involved in plant defense. PMID:24888606
MiRNAting control of DNA methylation. PMID:24845501
Exploiting a Reference Genome in Terms of Duplications: The Network of Paralogs and Single Copy Genes in Arabidopsis thaliana. PMID:24833233
Integrating bioinformatic resources to predict transcription factors interacting with cis-sequences conserved in co-regulated genes. PMID:24773781
ARACNe-based inference, using curated microarray data, of Arabidopsis thaliana root transcriptional regulatory networks. PMID:24739361
Helix-loop-helix/basic helix-loop-helix transcription factor network represses cell elongation in Arabidopsis through an apparent incoherent feed-forward loop. PMID:24505057
Genome scale transcriptional response diversity among ten ecotypes of Arabidopsis thaliana during heat stress. PMID:24409190
ARABIDOPSIS THALIANA HOMEOBOX25 uncovers a role for Gibberellins in seed longevity. PMID:24335333
GPLEXUS: enabling genome-scale gene association network reconstruction and analysis for very large-scale expression data. PMID:24178033
PlantTFDB 3.0: a portal for the functional and evolutionary study of plant transcription factors. PMID:24174544
Genome-scale cold stress response regulatory networks in ten Arabidopsis thaliana ecotypes. PMID:24148294
Rice DB: an Oryza Information Portal linking annotation, subcellular location, function, expression, regulation, and evolutionary information for rice and Arabidopsis. PMID:24147765
De novo transcriptome of Brassica juncea seed coat and identification of genes for the biosynthesis of flavonoids. PMID:23990927
The Arabidopsis DREB2 genetic pathway is constitutively repressed by basal phosphoinositide-dependent phospholipase C coupled to diacylglycerol kinase. PMID:23964284
Temporal transcriptional response to ethylene gas drives growth hormone cross-regulation in Arabidopsis. PMID:23795294
miR172b controls the transition to autotrophic development inhibited by ABA in Arabidopsis. PMID:23717657
Transcriptome analysis of buds and leaves using 454 pyrosequencing to discover genes associated with the biosynthesis of active ingredients in Lonicera japonica Thunb. PMID:23638167
Functionally relevant microsatellite markers from chickpea transcription factor genes for efficient genotyping applications and trait association mapping. PMID:23633531
Disruption of AtWNK8 enhances tolerance of Arabidopsis to salt and osmotic stresses via modulating proline content and activities of catalase and peroxidase. PMID:23535337
The potential of text mining in data integration and network biology for plant research: a case study on Arabidopsis. PMID:23532071
NUCLEAR FACTOR Y transcription factors have both opposing and additive roles in ABA-mediated seed germination. PMID:23527203
Global approaches for telling time: omics and the Arabidopsis circadian clock. PMID:23435351
Expression-based and co-localization detection of arabinogalactan protein 6 and arabinogalactan protein 11 interactors in Arabidopsis pollen and pollen tubes. PMID:23297674
Reverse engineering: a key component of systems biology to unravel global abiotic stress cross-talk. PMID:23293646
Transcriptional regulation of tocopherol biosynthesis in tomato. PMID:23247837
Visual analysis of transcriptome data in the context of anatomical structures and biological networks. PMID:23162564
Linking the signaling cascades and dynamic regulatory networks controlling stress responses. PMID:23064748
Insights into the molecular mechanism of RGL2-mediated inhibition of seed germination in Arabidopsis thaliana. PMID:23035751
Conserved non-coding regulatory signatures in Arabidopsis co-expressed gene modules. PMID:23024789
ncDNA and drift drive binding site accumulation. PMID:22935101
Inferring transcriptional gene regulation network of starch metabolism in Arabidopsis thaliana leaves using graphical Gaussian model. PMID:22898356
A model-based method for gene dependency measurement. PMID:22829898
'MicroRNA Targets', a new AthaMap web-tool for genome-wide identification of miRNA targets in Arabidopsis thaliana. PMID:22800758
Application of the Gini correlation coefficient to infer regulatory relationships in transcriptome analysis. PMID:22797655
Genome-wide identification of regulatory DNA elements and protein-binding footprints using signatures of open chromatin in Arabidopsis. PMID:22773751
AraPath: a knowledgebase for pathway analysis in Arabidopsis. PMID:22760305
Taking the next step: building an Arabidopsis information portal. PMID:22751211
Integration of bioinformatics and synthetic promoters leads to the discovery of novel elicitor-responsive cis-regulatory sequences in Arabidopsis. PMID:22744985
β-empirical Bayes inference and model diagnosis of microarray data. PMID:22713095
Divergence and Redundancy in CSLD2 and CSLD3 Function During Arabidopsis Thaliana Root Hair and Female Gametophyte Development. PMID:22661983
Molecular screening tools to study Arabidopsis transcription factors. PMID:22645547
RNase MRP RNA and RNase P activity in plants are associated with a Pop1p containing complex. PMID:22641852
Activation of the carbon concentrating mechanism by CO2 deprivation coincides with massive transcriptional restructuring in Chlamydomonas reinhardtii. PMID:22634764
In silico analyses of pericycle cell populations reinforce their relation with associated vasculature in Arabidopsis. PMID:22527390
AtPAN: an integrated system for reconstructing transcriptional regulatory networks in Arabidopsis thaliana. PMID:22397531
MotifMap: integrative genome-wide maps of regulatory motif sites for model species. PMID:22208852
Apoplastic reactive oxygen species transiently decrease auxin signaling and cause stress-induced morphogenic response in Arabidopsis. PMID:22007024
In-depth temporal transcriptome profiling reveals a crucial developmental switch with roles for RNA processing and organelle metabolism that are essential for germination in Arabidopsis. PMID:21908688
Simple database to select promoters for plant transgenesis. PMID:21811802
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biological regulation
metasource: Fairsharing.org
version: FAIRsharing.org: AGRIS; The Arabidopsis Gene Regulatory Information Server; DOI: https://doi.org/10.25504/FAIRsharing.6v2d2h; Last edited: Jan. 8, 2019, 1:15 p.m.; Last accessed: Jan 03 2022 7:06 p.m.
genome
metasource: Fairsharing.org
version: FAIRsharing.org: AGRIS; The Arabidopsis Gene Regulatory Information Server; DOI: https://doi.org/10.25504/FAIRsharing.6v2d2h; Last edited: Jan. 8, 2019, 1:15 p.m.; Last accessed: Jan 03 2022 7:06 p.m.
nucleotide sequence databases
metasource: Nucleic Acid Research database catalogue
version: extracted_at: 2022-11-04T11:16:25.468657
transcriptional regulator sites and transcription factors
metasource: Nucleic Acid Research database catalogue
version: extracted_at: 2022-11-04T11:16:25.468657
plant databases
metasource: Nucleic Acid Research database catalogue
version: extracted_at: 2022-11-04T11:16:25.468657
arabidopsis thaliana
metasource: Nucleic Acid Research database catalogue
version: extracted_at: 2022-11-04T11:16:25.468657
molecular interactions, pathways and networks
metasource: bio.tools
version: extracted_at: 2022-11-04T11:34:10.370257
transcription factors and regulatory sites
metasource: bio.tools
version: extracted_at: 2022-11-04T11:34:10.370257
plant biology
metasource: bio.tools
version: extracted_at: 2022-11-04T11:34:10.370257
gene expression
metasource: bio.tools
version: extracted_at: 2022-11-04T11:34:10.370257
gene regulation
metasource: bio.tools
version: extracted_at: 2022-11-04T11:34:10.370257
Tags
More detailed information about this field from each metasource.
biological regulation
metasource: Fairsharing.orgversion: FAIRsharing.org: AGRIS; The Arabidopsis Gene Regulatory Information Server; DOI: https://doi.org/10.25504/FAIRsharing.6v2d2h; Last edited: Jan. 8, 2019, 1:15 p.m.; Last accessed: Jan 03 2022 7:06 p.m.
genome
metasource: Fairsharing.orgversion: FAIRsharing.org: AGRIS; The Arabidopsis Gene Regulatory Information Server; DOI: https://doi.org/10.25504/FAIRsharing.6v2d2h; Last edited: Jan. 8, 2019, 1:15 p.m.; Last accessed: Jan 03 2022 7:06 p.m.
nucleotide sequence databases
metasource: Nucleic Acid Research database catalogueversion: extracted_at: 2022-11-04T11:16:25.468657
transcriptional regulator sites and transcription factors
metasource: Nucleic Acid Research database catalogueversion: extracted_at: 2022-11-04T11:16:25.468657
plant databases
metasource: Nucleic Acid Research database catalogueversion: extracted_at: 2022-11-04T11:16:25.468657
arabidopsis thaliana
metasource: Nucleic Acid Research database catalogueversion: extracted_at: 2022-11-04T11:16:25.468657
molecular interactions, pathways and networks
metasource: bio.toolsversion: extracted_at: 2022-11-04T11:34:10.370257
transcription factors and regulatory sites
metasource: bio.toolsversion: extracted_at: 2022-11-04T11:34:10.370257
plant biology
metasource: bio.toolsversion: extracted_at: 2022-11-04T11:34:10.370257
gene expression
metasource: bio.toolsversion: extracted_at: 2022-11-04T11:34:10.370257
gene regulation
metasource: bio.toolsversion: extracted_at: 2022-11-04T11:34:10.370257
biological regulation genome nucleic acid sequence transcription plant molecular interactions, pathways and networks transcription factors and regulatory sites plant biology gene expression gene regulation
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