Evaluation of gene association methods for coexpression network construction and biological knowledge discovery (Q34505364)

2 August 2017

title

Evaluation of gene association methods for coexpression network construction and biological knowledge discovery (English)

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2 August 2017

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Huann-Sheng Chen

3

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author name string

Sapna Kumari

1

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2 August 2017

Jeff Nie

2

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2 August 2017

Hao Ma

4

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2 August 2017

Ron Stewart

5

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2 August 2017

Xiang Li

6

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2 August 2017

Meng-Zhu Lu

7

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2 August 2017

William M Taylor

8

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2 August 2017

Hairong Wei

9

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2 August 2017

language of work or name

English

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publication date

30 November 2012

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2 August 2017

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2 August 2017

volume

7

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2 August 2017

issue

11

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2 August 2017

page(s)

e50411

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Creative Commons CC0 License

2 August 2017

copyright license

start time

30 November 2012

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April 2022 Public Data File from Crossref

copyright status

copyrighted, dedicated to the public domain by copyright holder

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cites work

TF-Cluster: a pipeline for identifying functionally coordinated transcription factors via network decomposition of the shared coexpression connectivity matrix (SCCM)

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3511551

Impact of gene expression noise on organismal fitness and the efficacy of natural selection

7 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3511551

Control of the embryonic stem cell state

7 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3511551

Assessing the biological significance of gene expression signatures and co-expression modules by studying their network properties

7 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3511551

Gene expression noise in spatial patterning: hunchback promoter structure affects noise amplitude and distribution in Drosophila segmentation

7 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3511551

TF-finder: a software package for identifying transcription factors involved in biological processes using microarray data and existing knowledge base

7 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3511551

Identification of modules in Aspergillus niger by gene co-expression network analysis

7 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3511551

SOMBRERO, BEARSKIN1, and BEARSKIN2 regulate root cap maturation in Arabidopsis

7 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3511551

Arabidopsis gene co-expression network and its functional modules.

7 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3511551

Nonidentifiability of the source of intrinsic noise in gene expression from single-burst data

7 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3511551

Oscillating signaling pathways during embryonic development

7 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3511551

High-resolution timing of cell cycle-regulated gene expression

7 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3511551

Regulation of the Arabidopsis root vascular initial population by LONESOME HIGHWAY.

7 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3511551

A robust measure of correlation between two genes on a microarray

7 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3511551

A general framework for weighted gene co-expression network analysis

7 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3511551

Core transcriptional regulatory circuitry in human embryonic stem cells

7 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3511551

Transcription switches for protoxylem and metaxylem vessel formation

7 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3511551

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

7 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3511551

Stochasticity in gene expression: from theories to phenotypes

7 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3511551

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

7 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3511551

Exploration, normalization, and summaries of high density oligonucleotide array probe level data

7 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3511551

Quantitative noise analysis for gene expression microarray experiments

7 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3511551

Gene expression profiles during the initial phase of salt stress in rice

7 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3511551

Control of time-dependent biological processes by temporally patterned input

7 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3511551

Transcriptional coordination of the metabolic network in Arabidopsis.

7 July 2018

1 reference

https://api.crossref.org/works/10.1371%2FJOURNAL.PONE.0050411

Comparing Pearson, Spearman and Hoeffding's D measure for gene expression association analysis.

21 January 2018

1 reference

https://api.crossref.org/works/10.1371%2FJOURNAL.PONE.0050411

On Brownian Distance Covariance and High Dimensional Data

21 January 2018

1 reference

https://api.crossref.org/works/10.1371%2FJOURNAL.PONE.0050411

A battery of transcription factors involved in the regulation of secondary cell wall biosynthesis in Arabidopsis.

21 January 2018

1 reference

https://api.crossref.org/works/10.1371%2FJOURNAL.PONE.0050411

Thirteen Ways to Look at the Correlation Coefficient

21 January 2018

1 reference

https://api.crossref.org/works/10.1371%2FJOURNAL.PONE.0050411

Robust estimation and outlier detection with correlation coefficients

21 January 2018

1 reference

https://api.crossref.org/works/10.1371%2FJOURNAL.PONE.0050411

Measuring and testing dependence by correlation of distances

21 January 2018

1 reference

https://api.crossref.org/works/10.1371%2FJOURNAL.PONE.0050411

"General Intelligence," Objectively Determined and Measured

21 January 2018

1 reference

https://api.crossref.org/works/10.1371%2FJOURNAL.PONE.0050411

Development and evaluation of an Arabidopsis whole genome Affymetrix probe array

21 January 2018

1 reference

https://api.crossref.org/works/10.1371%2FJOURNAL.PONE.0050411

Topological and Functional Discovery in a Gene Coexpression Meta-Network of Gastric Cancer

21 January 2018

1 reference

PubMed

https://pubmed.ncbi.nlm.nih.gov/23226279

inferred from PubMed ID database lookup

12 December 2020

based on heuristic

Identifiers

DOI

10.1371/JOURNAL.PONE.0050411

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2 August 2017

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2 August 2017

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