Cargando…

PTHGRN: unraveling post-translational hierarchical gene regulatory networks using PPI, ChIP-seq and gene expression data

Interactions among transcriptional factors (TFs), cofactors and other proteins or enzymes can affect transcriptional regulatory capabilities of eukaryotic organisms. Post-translational modifications (PTMs) cooperate with TFs and epigenetic alterations to constitute a hierarchical complexity in trans...

Descripción completa

Detalles Bibliográficos
Autores principales:	Guan, Daogang, Shao, Jiaofang, Zhao, Zhongying, Wang, Panwen, Qin, Jing, Deng, Youping, Boheler, Kenneth R., Wang, Junwen, Yan, Bin
Formato:	Online Artículo Texto
Lenguaje:	English
Publicado:	Oxford University Press 2014
Materias:	Article
Acceso en línea:	https://www.ncbi.nlm.nih.gov/pmc/articles/PMC4086064/ https://www.ncbi.nlm.nih.gov/pubmed/24875471 http://dx.doi.org/10.1093/nar/gku471

Ejemplares similares

ChIP-Array: combinatory analysis of ChIP-seq/chip and microarray gene expression data to discover direct/indirect targets of a transcription factor
por: Qin, Jing, et al.
Publicado: (2011)

ChIP-PED enhances the analysis of ChIP-seq and ChIP-chip data
por: Wu, George, et al.
Publicado: (2013)

ChIP-Enrich: gene set enrichment testing for ChIP-seq data
por: Welch, Ryan P., et al.
Publicado: (2014)

ChIPXpress: using publicly available gene expression data to improve ChIP-seq and ChIP-chip target gene ranking
por: Wu, George, et al.
Publicado: (2013)

Impact of artifact removal on ChIP quality metrics in ChIP-seq and ChIP-exo data
por: Carroll, Thomas S., et al.
Publicado: (2014)

MM-ChIP enables integrative analysis of cross-platform and between-laboratory ChIP-chip or ChIP-seq data
por: Chen, Yiwen, et al.
Publicado: (2011)

An integrated system CisGenome for analyzing ChIP-chip and ChIP-seq data
por: Ji, Hongkai, et al.
Publicado: (2008)

ChIP-chip versus ChIP-seq: Lessons for experimental design and data analysis
por: Ho, Joshua WK, et al.
Publicado: (2011)

ChIPpeakAnno: a Bioconductor package to annotate ChIP-seq and ChIP-chip data
por: Zhu, Lihua J, et al.
Publicado: (2010)

ChIP-AP: an integrated analysis pipeline for unbiased ChIP-seq analysis
por: Suryatenggara, Jeremiah, et al.
Publicado: (2021)

ChIP-Array 2: integrating multiple omics data to construct gene regulatory networks
por: Wang, Panwen, et al.
Publicado: (2015)

Fish the ChIPs: a pipeline for automated genomic annotation of ChIP-Seq data
por: Barozzi, Iros, et al.
Publicado: (2011)

Impact of genome assembly status on ChIP-Seq and ChIP-PET data mapping
por: Buisine, Nicolas, et al.
Publicado: (2009)

iTAR: a web server for identifying target genes of transcription factors using ChIP-seq or ChIP-chip data
por: Yang, Chia-Chun, et al.
Publicado: (2016)

W-ChIPeaks: a comprehensive web application tool for processing ChIP-chip and ChIP-seq data
por: Lan, Xun, et al.
Publicado: (2011)

Q&A: ChIP-seq technologies and the study of gene regulation
por: Liu, Edison T, et al.
Publicado: (2010)

ChIP-BIT: Bayesian inference of target genes using a novel joint probabilistic model of ChIP-seq profiles
por: Chen, Xi, et al.
Publicado: (2016)

Normalization of ChIP-seq data with control
por: Liang, Kun, et al.
Publicado: (2012)

De novo ChIP-seq analysis
por: He, Xin, et al.
Publicado: (2015)

Parallel factor ChIP provides essential internal control for quantitative differential ChIP-seq
por: Guertin, Michael J, et al.
Publicado: (2018)

ChIPseqR: analysis of ChIP-seq experiments
por: Humburg, Peter, et al.
Publicado: (2011)

The ChIP-Seq tools and web server: a resource for analyzing ChIP-seq and other types of genomic data
por: Ambrosini, Giovanna, et al.
Publicado: (2016)

HyperChIP: identification of hypervariable signals across ChIP-seq or ATAC-seq samples
por: Chen, Haojie, et al.
Publicado: (2022)

ChIP-PaM: an algorithm to identify protein-DNA interaction using ChIP-Seq data
por: Wu, Song, et al.
Publicado: (2010)

SNPs2ChIP: Latent Factors of ChIP-seq to infer functions of non-coding SNPs
por: Anand, Shankara, et al.
Publicado: (2019)

ChIPulate: A comprehensive ChIP-seq simulation pipeline
por: Datta, Vishaka, et al.
Publicado: (2019)

Model-based Analysis of ChIP-Seq (MACS)
por: Zhang, Yong, et al.
Publicado: (2008)

Shape-based peak identification for ChIP-Seq
por: Hower, Valerie, et al.
Publicado: (2011)

Impact of sequencing depth in ChIP-seq experiments
por: Jung, Youngsook L., et al.
Publicado: (2014)

Widespread Misinterpretable ChIP-seq Bias in Yeast
por: Park, Daechan, et al.
Publicado: (2013)

In Silico Pooling of ChIP-seq Control Experiments
por: Sun, Guannan, et al.
Publicado: (2014)

jChIP: a graphical environment for exploratory ChIP-Seq data analysis
por: Chojnowski, Krzysztof, et al.
Publicado: (2014)

ChIP‐Atlas: a data‐mining suite powered by full integration of public ChIP‐seq data
por: Oki, Shinya, et al.
Publicado: (2018)

SeqAcademy: an educational pipeline for RNA-Seq and ChIP-Seq analysis
por: Ather, Syed Hussain, et al.
Publicado: (2020)

seqMINER: an integrated ChIP-seq data interpretation platform
por: Ye, Tao, et al.
Publicado: (2011)

Statistical Issues in the Analysis of ChIP-Seq and RNA-Seq Data
por: Ghosh, Debashis, et al.
Publicado: (2010)

A highly efficient and effective motif discovery method for ChIP-seq/ChIP-chip data using positional information
por: Ma, Xiaotu, et al.
Publicado: (2012)

MicroScope: ChIP-seq and RNA-seq software analysis suite for gene expression heatmaps
por: Khomtchouk, Bohdan B., et al.
Publicado: (2016)

Hierarchical cooperation of transcription factors from integration analysis of DNA sequences, ChIP-Seq and ChIA-PET data
por: Wang, Ruimin, et al.
Publicado: (2019)

Network analysis of ChIP-Seq data reveals key genes in prostate cancer
por: Zhang, Yu, et al.
Publicado: (2014)

Cannot write session to /tmp/vufind_sessions/sess_e6do018osf0ste6ru5onl8isnf