Prospecting for genes involved in transcriptional regulation of plant defenses, a bioinformatics approach (Q33905868)

29 July 2017

Prospecting for genes involved in transcriptional regulation of plant defenses, a bioinformatics approach (English)

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defence against herbivory

29 July 2017

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Marcel C van Verk

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29 July 2017

John F Bol

series ordinal

2

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29 July 2017

Huub J M Linthorst

series ordinal

3

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29 July 2017

19 May 2011

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29 July 2017

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29 July 2017

11

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29 July 2017

88

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describes a project that uses

29 July 2017

Cytoscape

object named as

Cytoscape

2 references

9 June 2022

https://europepmc.org/search?query=(METHODS:'Cytoscape')

inferred from PubMed Central ID database lookup

CZ Software Mentions: A large dataset of software mentions in the biomedical literature

exact match

https://scigraph.springernature.com/pub.10.1186/1471-2229-11-88

0 references

cites work

WRKY transcription factors involved in activation of SA biosynthesis genes

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3125348

Ethylene-induced stabilization of ETHYLENE INSENSITIVE3 and EIN3-LIKE1 is mediated by proteasomal degradation of EIN3 binding F-box 1 and 2 that requires EIN2 in Arabidopsis.

5 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3125348

Genevestigator v3: a reference expression database for the meta-analysis of transcriptomes

5 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3125348

Comparison of threshold selection methods for microarray gene co-expression matrices.

5 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3125348

Stress- and pathogen-induced Arabidopsis WRKY48 is a transcriptional activator that represses plant basal defense.

5 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3125348

Co-expression tools for plant biology: opportunities for hypothesis generation and caveats

5 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3125348

The More We Know, the Less We Understand?: Complexity of MAP Kinase Signaling

5 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3125348

Networking by small-molecule hormones in plant immunity.

5 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3125348

Drought tolerance in Arabidopsis is controlled by the OCP3 disease resistance regulator.

5 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3125348

Role of plant hormones in plant defence responses

5 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3125348

ATTED-II provides coexpressed gene networks for Arabidopsis

5 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3125348

Antagonistic interaction between systemic acquired resistance and the abscisic acid-mediated abiotic stress response in Arabidopsis

5 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3125348

CressExpress: a tool for large-scale mining of expression data from Arabidopsis

5 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3125348

Dual control of nuclear EIN3 by bifurcate MAPK cascades in C2H4 signalling

5 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3125348

COXPRESdb: a database of coexpressed gene networks in mammals

5 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3125348

An Arabidopsis gene network based on the graphical Gaussian model.

5 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3125348

The JAZ family of repressors is the missing link in jasmonate signalling.

5 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3125348

Omics-based identification of Arabidopsis Myb transcription factors regulating aliphatic glucosinolate biosynthesis

5 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3125348

Approaches for extracting practical information from gene co-expression networks in plant biology

5 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3125348

ATTED-II: a database of co-expressed genes and cis elements for identifying co-regulated gene groups in Arabidopsis

5 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3125348

A genomic approach to identify regulatory nodes in the transcriptional network of systemic acquired resistance in plants

5 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3125348

Repressor- and activator-type ethylene response factors functioning in jasmonate signaling and disease resistance identified via a genome-wide screen of Arabidopsis transcription factor gene expression

5 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3125348

Identification of genes required for cellulose synthesis by regression analysis of public microarray data sets

5 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3125348

Solution structure of an Arabidopsis WRKY DNA binding domain

5 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3125348

Direct interaction of a divergent CaM isoform and the transcription factor, MYB2, enhances salt tolerance in arabidopsis.

5 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3125348

GENEVESTIGATOR. Arabidopsis microarray database and analysis toolbox

5 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3125348

CSB.DB: a comprehensive systems-biology database

5 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3125348

The transcriptional innate immune response to flg22. Interplay and overlap with Avr gene-dependent defense responses and bacterial pathogenesis

5 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3125348

A gene expression map of the Arabidopsis root

5 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3125348

Ethylene signaling: the MAPK module has finally landed

5 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3125348

A MAPK pathway mediates ethylene signaling in plants

5 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3125348

ArrayExpress--a public repository for microarray gene expression data at the EBI

5 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3125348

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

5 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3125348

Direct interaction between the Arabidopsis disease resistance signaling proteins, EDS1 and PAD4

5 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3125348

Roles and activities of Aux/IAA proteins in Arabidopsis

5 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3125348

Real-time RT-PCR profiling of over 1400 Arabidopsis transcription factors: unprecedented sensitivity reveals novel root- and shoot-specific genes.

5 July 2018

1 reference

https://api.crossref.org/works/10.1186%2F1471-2229-11-88

Arabidopsis Co-expression Tool (ACT): web server tools for microarray-based gene expression analysis

21 January 2018

1 reference

https://api.crossref.org/works/10.1186%2F1471-2229-11-88

Expanded molecular diversity generation during directed evolution by trinucleotide exchange (TriNEx).

21 January 2018

1 reference

https://api.crossref.org/works/10.1186%2F1471-2229-11-88

MAP kinase signalling cascade in Arabidopsis innate immunity.

21 January 2018

1 reference

https://api.crossref.org/works/10.1186%2F1471-2229-11-88

The mitogen-activated protein kinase cascade MKK3-MPK6 is an important part of the jasmonate signal transduction pathway in Arabidopsis.

21 January 2018

1 reference

https://api.crossref.org/works/10.1186%2F1471-2229-11-88

MYC2 differentially modulates diverse jasmonate-dependent functions in Arabidopsis.

21 January 2018

1 reference

https://api.crossref.org/works/10.1186%2F1471-2229-11-88

The MAP kinase substrate MKS1 is a regulator of plant defense responses

21 January 2018

1 reference

https://api.crossref.org/works/10.1186%2F1471-2229-11-88

The transcription factors WRKY11 and WRKY17 act as negative regulators of basal resistance in Arabidopsis thaliana.

21 January 2018

1 reference

https://api.crossref.org/works/10.1186%2F1471-2229-11-88

Arabidopsis mitogen-activated protein kinase kinases MKK1 and MKK2 have overlapping functions in defense signaling mediated by MEKK1, MPK4, and MKS1.

21 January 2018

1 reference

https://api.crossref.org/works/10.1186%2F1471-2229-11-88

Members of the Arabidopsis WRKY group III transcription factors are part of different plant defense signaling pathways.

21 January 2018

1 reference

https://api.crossref.org/works/10.1186%2F1471-2229-11-88

Ethylene modulates the role of NONEXPRESSOR OF PATHOGENESIS-RELATED GENES1 in cross talk between salicylate and jasmonate signaling.

21 January 2018

1 reference

https://api.crossref.org/works/10.1186%2F1471-2229-11-88

Ca(2+)/calmodulin regulates salicylic-acid-mediated plant immunity

21 January 2018

1 reference

https://api.crossref.org/works/10.1186%2F1471-2229-11-88

Gene-expression analysis and network discovery using Genevestigator

21 January 2018

1 reference

https://api.crossref.org/works/10.1186%2F1471-2229-11-88

PRIMe: a Web site that assembles tools for metabolomics and transcriptomics.

21 January 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3125348

Arabidopsis MAP kinase 4 regulates salicylic acid- and jasmonic acid/ethylene-dependent responses via EDS1 and PAD4

29 October 2018

1 reference

https://api.crossref.org/works/10.1186%2F1471-2229-11-88

JAZ repressor proteins are targets of the SCFCOI1 complex during jasmonate signalling

21 January 2018

1 reference

https://api.crossref.org/works/10.1186%2F1471-2229-11-88

MEKK1 is required for flg22-induced MPK4 activation in Arabidopsis plants

21 January 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3125348

Nuclear genes that encode mitochondrial proteins for DNA and RNA metabolism are clustered in the Arabidopsis genome

29 October 2018

1 reference

12 December 2020

Arabidopsis MEKK1 can take a short cut: it can directly interact with senescence-related WRKY53 transcription factor on the protein level and can bind to its promoter

1 reference

12 December 2020

The Botany Array Resource: e-Northerns, Expression Angling, and promoter analyses

1 reference

12 December 2020

Phosphorylation of 1-aminocyclopropane-1-carboxylic acid synthase by MPK6, a stress-responsive mitogen-activated protein kinase, induces ethylene biosynthesis in Arabidopsis

1 reference

12 December 2020

Physical and functional interactions between pathogen-induced Arabidopsis WRKY18, WRKY40, and WRKY60 transcription factors

1 reference

12 December 2020

Specific Bacterial Suppressors of MAMP Signaling Upstream of MAPKKK in Arabidopsis Innate Immunity

1 reference

12 December 2020

Identifiers

DOI

10.1186/1471-2229-11-88

1 reference

Dimensions Publication ID

29 July 2017

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1 reference

29 July 2017

1 reference