(Q30621151)

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Comparative analyses of stress-responsive genes in Arabidopsis thaliana: insight from genomic data mining, functional enrichment, pathway analysis and phenomics

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scholarly article

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Europe PubMed Central

PubMed publication ID

25 June 2017

Comparative analyses of stress-responsive genes in Arabidopsis thaliana: insight from genomic data mining, functional enrichment, pathway analysis and phenomics (English)

1 reference

Europe PubMed Central

PubMed publication ID

25 June 2017

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Arabidopsis thaliana

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pathway analysis

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based on heuristic

inferred from title

author name string

Mahantesha Naika

1

1 reference

Europe PubMed Central

PubMed publication ID

25 June 2017

Khader Shameer

2

1 reference

Europe PubMed Central

PubMed publication ID

25 June 2017

Ramanathan Sowdhamini

3

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Europe PubMed Central

PubMed publication ID

25 June 2017

publication date

3 May 2013

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Europe PubMed Central

PubMed publication ID

25 June 2017

Molecular BioSystems

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Europe PubMed Central

PubMed publication ID

25 June 2017

9

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Europe PubMed Central

PubMed publication ID

25 June 2017

7

1 reference

Europe PubMed Central

PubMed publication ID

25 June 2017

1888-1908

1 reference

Europe PubMed Central

PubMed publication ID

25 June 2017

The interaction of plant biotic and abiotic stresses: from genes to the field

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Abiotic stress signal transduction in plants: Molecular and genetic perspectives

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big data: The future of biocuration

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Advanced genomic data mining

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Bioinformatics enrichment tools: paths toward the comprehensive functional analysis of large gene lists

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Finding the right questions: exploratory pathway analysis to enhance biological discovery in large datasets

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Plant Ontology (PO): a Controlled Vocabulary of Plant Structures and Growth Stages

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The plant structure ontology, a unified vocabulary of anatomy and morphology of a flowering plant

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Mapping genes for plant structure, development and evolution: functional mapping meets ontology

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The Plant Ontology Consortium and plant ontologies

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Phenomics--technologies to relieve the phenotyping bottleneck.

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Influence of abiotic stress signals on secondary metabolites in plants

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Molecular mechanisms regulating rapid stress signaling networks in Arabidopsis

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The association among gene expression responses to nine abiotic stress treatments in Arabidopsis thaliana

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Arabidopsis transcriptome analysis under drought, cold, high-salinity and ABA treatment conditions using a tiling array

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Integration of Arabidopsis thaliana stress-related transcript profiles, promoter structures, and cell-specific expression

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The bHLH transcription factor POPEYE regulates response to iron deficiency in Arabidopsis roots

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Early transcriptional defense responses in Arabidopsis cell suspension culture under high-light conditions.

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Cis-regulatory code of stress-responsive transcription in Arabidopsis thaliana

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Photosynthesis under drought and salt stress: regulation mechanisms from whole plant to cell

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Transcription factors in plant defense and stress responses

1 reference

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STIF: Identification of stress-upregulated transcription factor binding sites in Arabidopsis thaliana

1 reference

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21 January 2018

STIFDB-Arabidopsis Stress Responsive Transcription Factor DataBase

1 reference

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Microarray-based analysis of stress-regulated microRNAs in Arabidopsis thaliana

1 reference

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Role of miRNAs and siRNAs in biotic and abiotic stress responses of plants

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Dynamic differential methylation facilitates pathogen stress response in Arabidopsis

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Abscisic acid-mediated epigenetic processes in plant development and stress responses

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Quantitative transcriptomic analysis of abscisic acid-induced and reactive oxygen species-dependent expression changes and proteomic profiling in Arabidopsis suspension cells.

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Metabolic regulation of leaf senescence: interactions of sugar signalling with biotic and abiotic stress responses

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Nitric oxide, stomatal closure, and abiotic stress.

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Drought, salt, and temperature stress-induced metabolic rearrangements and regulatory networks.

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Molecular genetic perspectives on cross-talk and specificity in abiotic stress signalling in plants.

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Arabidopsis seed germination under abiotic stress as a concert of action of phytohormones.

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Characterization of the Nrt2.6 gene in Arabidopsis thaliana: a link with plant response to biotic and abiotic stress

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Cold, salinity and drought stresses: an overview

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Arabidopsis PPR40 connects abiotic stress responses to mitochondrial electron transport

1 reference

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Molecular and physiological analysis of drought stress in Arabidopsis reveals early responses leading to acclimation in plant growth

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Effects of abiotic stress on plants: a systems biology perspective

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The AtGenExpress global stress expression data set: protocols, evaluation and model data analysis of UV-B light, drought and cold stress responses.

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Natural variation in Arabidopsis thaliana revealed a genetic network controlling germination under salt stress

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Research on plant abiotic stress responses in the post-genome era: past, present and future

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Systems approaches to identifying gene regulatory networks in plants.

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Ontologizer 2.0--a multifunctional tool for GO term enrichment analysis and data exploration

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Gene Expression Omnibus: NCBI gene expression and hybridization array data repository

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NCBI GEO: archive for functional genomics data sets--10 years on

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KEGG for integration and interpretation of large-scale molecular data sets

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The Pfam protein families database

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The Arabidopsis Information Resource (TAIR): improved gene annotation and new tools

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BioMart Central Portal--unified access to biological data

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The OBO Foundry: coordinated evolution of ontologies to support biomedical data integration

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PASS2 version 4: an update to the database of structure-based sequence alignments of structural domain superfamilies.

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Gapped BLAST and PSI-BLAST: a new generation of protein database search programs

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Profile hidden Markov models

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Improvement of the GenTHREADER method for genomic fold recognition

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REVIGO summarizes and visualizes long lists of gene ontology terms

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STIFDB2: an updated version of plant stress-responsive transcription factor database with additional stress signals, stress-responsive transcription factor binding sites and stress-responsive genes in Arabidopsis and rice

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The UniProt-GO Annotation database in 2011.

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Identifiers

10.1039/C3MB70072K

1 reference

Europe PubMed Central

PubMed publication ID

25 June 2017

PubMed publication ID

1 reference

Europe PubMed Central

PubMed publication ID

25 June 2017

ResearchGate publication ID

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