(Q34372952)

https://www.ebi.ac.uk/europepmc/webservices/rest/search?query=EXT_ID:22877077%20AND%20SRC:MED&resulttype=core&format=json

10 February 2020

title

Genome-scale identification of cell-wall related genes in Arabidopsis based on co-expression network analysis (English)

1 reference

https://www.ebi.ac.uk/europepmc/webservices/rest/search?query=EXT_ID:22877077%20AND%20SRC:MED&resulttype=core&format=json

10 February 2020

1 reference

3

1 reference

https://www.ebi.ac.uk/europepmc/webservices/rest/search?query=EXT_ID:22877077%20AND%20SRC:MED&resulttype=core&format=json

10 February 2020

Xiaojia Tang

4

1 reference

https://www.ebi.ac.uk/europepmc/webservices/rest/search?query=EXT_ID:22877077%20AND%20SRC:MED&resulttype=core&format=json

10 February 2020

author name string

Shan Wang

1

1 reference

https://www.ebi.ac.uk/europepmc/webservices/rest/search?query=EXT_ID:22877077%20AND%20SRC:MED&resulttype=core&format=json

10 February 2020

Yanbin Yin

2

1 reference

https://www.ebi.ac.uk/europepmc/webservices/rest/search?query=EXT_ID:22877077%20AND%20SRC:MED&resulttype=core&format=json

10 February 2020

Dongyun Hao

5

1 reference

https://www.ebi.ac.uk/europepmc/webservices/rest/search?query=EXT_ID:22877077%20AND%20SRC:MED&resulttype=core&format=json

10 February 2020

Ying Xu

6

1 reference

https://www.ebi.ac.uk/europepmc/webservices/rest/search?query=EXT_ID:22877077%20AND%20SRC:MED&resulttype=core&format=json

10 February 2020

publication date

9 August 2012

1 reference

https://www.ebi.ac.uk/europepmc/webservices/rest/search?query=EXT_ID:22877077%20AND%20SRC:MED&resulttype=core&format=json

10 February 2020

1 reference

https://www.ebi.ac.uk/europepmc/webservices/rest/search?query=EXT_ID:22877077%20AND%20SRC:MED&resulttype=core&format=json

10 February 2020

volume

12

1 reference

https://www.ebi.ac.uk/europepmc/webservices/rest/search?query=EXT_ID:22877077%20AND%20SRC:MED&resulttype=core&format=json

10 February 2020

page(s)

138

1 reference

https://www.ebi.ac.uk/europepmc/webservices/rest/search?query=EXT_ID:22877077%20AND%20SRC:MED&resulttype=core&format=json

describes a project that uses

10 February 2020

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.10.1186/1471-2229-12-138

0 references

cites work

Transcriptional networks for lignin biosynthesis: more complex than we thought?

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3463447

A new framework for identifying cis-regulatory motifs in prokaryotes.

6 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3463447

Mutation of WRKY transcription factors initiates pith secondary wall formation and increases stem biomass in dicotyledonous plants

6 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3463447

GolgiP: prediction of Golgi-resident proteins in plants

6 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3463447

Regulation of plant biomass production

6 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3463447

Transcriptional regulation of lignin biosynthesis

6 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3463447

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

6 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3463447

QUBIC: a qualitative biclustering algorithm for analyses of gene expression data

6 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3463447

The Carbohydrate-Active EnZymes database (CAZy): an expert resource for Glycogenomics

6 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3463447

Regulon organization of Arabidopsis

6 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3463447

The SLiMDisc server: short, linear motif discovery in proteins

6 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3463447

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

6 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3463447

The Arabidopsis irregular xylem8 mutant is deficient in glucuronoxylan and homogalacturonan, which are essential for secondary cell wall integrity

6 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3463447

TransportDB: a comprehensive database resource for cytoplasmic membrane transport systems and outer membrane channels

6 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3463447

How does DNA sequence motif discovery work?

6 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3463447

Practical strategies for discovering regulatory DNA sequence motifs

6 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3463447

Growth of the plant cell wall

6 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3463447

Genomics of plant cell wall biogenesis

6 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3463447

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

6 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3463447

Fast and systematic genome-wide discovery of conserved regulatory elements using a non-alignment based approach

6 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3463447

Combinatorial control of gene expression.

6 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3463447

Weeder Web: discovery of transcription factor binding sites in a set of sequences from co-regulated genes

6 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3463447

Glycosyltransferases and cell wall biosynthesis: novel players and insights

6 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3463447

The role of plant cell wall polysaccharide composition in disease resistance

6 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3463447

Coordinate enhancers share common organizational features in the Drosophila genome

6 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3463447

Characterisation of Pt MYB1, an R2R3-MYB from pine xylem.

6 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3463447

Network biology: understanding the cell's functional organization

6 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3463447

Plant innate immunity - direct and indirect recognition of general and specific pathogen-associated molecules.

6 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3463447

Computational prediction of transcription-factor binding site locations

6 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3463447

Combining phylogenetic data with co-regulated genes to identify regulatory motifs

6 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3463447

Cytoscape: a software environment for integrated models of biomolecular interaction networks

6 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3463447

A gene-coexpression network for global discovery of conserved genetic modules

6 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3463447

An automated method for finding molecular complexes in large protein interaction networks

6 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3463447

Cellulose biosynthesis in plants: from genes to rosettes.

6 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3463447

MAFFT: a novel method for rapid multiple sequence alignment based on fast Fourier transform

6 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3463447

Large-scale prediction of Saccharomyces cerevisiae gene function using overlapping transcriptional clusters

6 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3463447

An efficient algorithm for large-scale detection of protein families

6 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3463447

Predicting transmembrane protein topology with a hidden Markov model: application to complete genomes

6 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3463447

Coupled two-way clustering analysis of gene microarray data

6 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3463447

EMBOSS: the European Molecular Biology Open Software Suite

6 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3463447

Gene ontology: tool for the unification of biology

6 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3463447

Computational identification of cis-regulatory elements associated with groups of functionally related genes in Saccharomyces cerevisiae

6 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3463447

6 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3463447

Plant cis-acting regulatory DNA elements (PLACE) database: 1999

6 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3463447

Activation of the maize anthocyanin gene a2 is mediated by an element conserved in many anthocyanin promoters

6 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3463447

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

6 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3463447

The meaning and use of the area under a receiver operating characteristic (ROC) curve

6 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3463447

Cloning and characterization of irregular xylem4 (irx4): a severely lignin-deficient mutant of Arabidopsis

6 July 2018

1 reference

https://api.crossref.org/works/10.1186%2F1471-2229-12-138

Principles of transcriptional control in the metabolic network of Saccharomyces cerevisiae

21 January 2018

1 reference

https://api.crossref.org/works/10.1186%2F1471-2229-12-138

Comparison of five xylan synthesis mutants reveals new insight into the mechanisms of xylan synthesis

21 January 2018

1 reference

https://api.crossref.org/works/10.1186%2F1471-2229-12-138

Arabidopsis irregular xylem8 and irregular xylem9: implications for the complexity of glucuronoxylan biosynthesis.

21 January 2018

1 reference

https://api.crossref.org/works/10.1186%2F1471-2229-12-138

Transcriptional Wiring of Cell Wall-Related Genes in Arabidopsis

21 January 2018

1 reference

https://api.crossref.org/works/10.1186%2F1471-2229-12-138

Predicting gene expression from sequence

21 January 2018

1 reference

https://api.crossref.org/works/10.1186%2F1471-2229-12-138

Genome-wide characterization of the lignification toolbox in Arabidopsis

21 January 2018

1 reference

https://api.crossref.org/works/10.1186%2F1471-2229-12-138

Comparative analysis of orthologous cellulose synthase promoters from Arabidopsis, Populus and Eucalyptus: evidence of conserved regulatory elements in angiosperms.

21 January 2018

1 reference

https://api.crossref.org/works/10.1186%2F1471-2229-12-138

Two classes of cis sequences contribute to tissue-specific expression of a PAL2 promoter in transgenic tobacco.

21 January 2018

1 reference

https://api.crossref.org/works/10.1186%2F1471-2229-12-138

Characterisation of a pine MYB that regulates lignification.

21 January 2018

1 reference

https://api.crossref.org/works/10.1186%2F1471-2229-12-138

A Gibbs sampling method to detect overrepresented motifs in the upstream regions of coexpressed genes.

21 January 2018

1 reference

https://api.crossref.org/works/10.1186%2F1471-2229-12-138

Large-scale co-expression approach to dissect secondary cell wall formation across plant species

21 January 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3463447

A higher-order background model improves the detection of promoter regulatory elements by Gibbs sampling.

27 October 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3463447

Molecular biology of the plant cell wall: searching for the genes that define structure, architecture and dynamics

27 October 2018

1 reference

12 December 2020

DATF: a database of Arabidopsis transcription factors

1 reference

12 December 2020

Collapsed xylem phenotype of Arabidopsis identifies mutants deficient in cellulose deposition in the secondary cell wall

1 reference

12 December 2020

Identification of novel genes in Arabidopsis involved in secondary cell wall formation using expression profiling and reverse genetics

1 reference

12 December 2020

AGRIS and AtRegNet. a platform to link cis-regulatory elements and transcription factors into regulatory networks

1 reference

12 December 2020

Elements of the maize A1 promoter required for transactivation by the anthocyanin B/C1 or phlobaphene P regulatory genes

1 reference

12 December 2020

Identifiers

DOI

10.1186/1471-2229-12-138

1 reference

https://www.ebi.ac.uk/europepmc/webservices/rest/search?query=EXT_ID:22877077%20AND%20SRC:MED&resulttype=core&format=json

Dimensions Publication ID

10 February 2020

0 references

1 reference

https://www.ebi.ac.uk/europepmc/webservices/rest/search?query=EXT_ID:22877077%20AND%20SRC:MED&resulttype=core&format=json

10 February 2020

1 reference

https://www.ebi.ac.uk/europepmc/webservices/rest/search?query=EXT_ID:22877077%20AND%20SRC:MED&resulttype=core&format=json