scholarly journals Prediction of regulatory networks: genome-wide identification of transcription factor targets from gene expression data

2003 ◽  
Vol 19 (15) ◽  
pp. 1917-1926 ◽  
Author(s):  
J. Qian ◽  
J. Lin ◽  
N. M. Luscombe ◽  
H. Yu ◽  
M. Gerstein
Keyword(s):  
Gene Expression ◽  
Transcription Factor ◽  
Gene Expression Data ◽  
Regulatory Networks ◽  
Expression Data ◽  
Genome Wide

scholarly journals BICORN: An R package for integrative inference of de novo cis-regulatory modules

2019 ◽  
Author(s):  
Xi Chen
Keyword(s):  
Gene Expression ◽  
Transcription Factor ◽  
Gene Expression Data ◽  
Regulatory Networks ◽  
Target Genes ◽  
De Novo ◽  
R Package ◽  
Expression Data ◽  
Regulatory Modules ◽  
Regulatory Module

AbstractBICORN is an R package developed to integrate prior transcription factor binding information and gene expression data for cis-regulatory module (CRM) inference. BICORN searches for a list of candidate CRMs from binary bindings on potential target genes. Applying Gibbs sampling, BICORN samples CRMs for each gene using the fitting performance of transcription factor activities and regulation strengths of TFs in each CRM on gene expression. Consequently, sparse regulatory networks are inferred as functional CRMs regulating target genes. The BICORN package is implemented in R and is available at https://cran.r-project.org/web/packages/BICORN/index.html.

scholarly journals CMIP: a software package capable of reconstructing genome-wide regulatory networks using gene expression data

2016 ◽  
Vol 17 (S17) ◽  
Author(s):  
Guangyong Zheng ◽  
Yaochen Xu ◽  
Xiujun Zhang ◽  
Zhi-Ping Liu ◽  
Zhuo Wang ◽  
...  
Keyword(s):  
Gene Expression ◽  
Gene Expression Data ◽  
Software Package ◽  
Regulatory Networks ◽  
Expression Data ◽  
Genome Wide

Genome-wide identification of suitable zebrafish Danio rerio reference genes for normalization of gene expression data by RT-qPCR

2016 ◽  
Vol 88 (6) ◽  
pp. 2095-2110 ◽  
Author(s):  
H. Xu ◽  
C. Li ◽  
Q. Zeng ◽  
I. Agrawal ◽  
X. Zhu ◽  
...  
Keyword(s):  
Gene Expression ◽  
Gene Expression Data ◽  
Danio Rerio ◽  
Reference Genes ◽  
Expression Data ◽  
Genome Wide

scholarly journals A Genome-Wide Integrative Association Study of DNA Methylation and Gene Expression Data and Later Life Cognitive Functioning in Monozygotic Twins

2020 ◽  
Vol 14 ◽  
Author(s):  
Mette Soerensen ◽  
Dominika Marzena Hozakowska-Roszkowska ◽  
Marianne Nygaard ◽  
Martin J. Larsen ◽  
Veit Schwämmle ◽  
...  
Keyword(s):  
Gene Expression ◽  
Dna Methylation ◽  
Cognitive Functioning ◽  
Association Study ◽  
Gene Expression Data ◽  
Monozygotic Twins ◽  
Later Life ◽  
Expression Data ◽  
Genome Wide ◽  
A Genome
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