Reconstructing the maize leaf regulatory network using ChIP-seq data of 104 transcription factors

Reconstructing the maize leaf regulatory network using ChIP-seq data of 104 transcription factors

Transcriptional factors (TFs) bind in a combinatorial fashion to specify the on-and-off states of genes in a complex and redundant regulatory network. Here, the authors construct the transcription regulatory network in maize leaf using 104 TFs ChIP-seq data and train machine learning models to predi...

書誌詳細
主要な著者:	Xiaoyu Tu, María Katherine Mejía-Guerra, Jose A. Valdes Franco, David Tzeng, Po-Yu Chu, Wei Shen, Yingying Wei, Xiuru Dai, Pinghua Li, Edward S. Buckler, Silin Zhong
フォーマット:	論文
言語:	English
出版事項:	Nature Portfolio 2020-10-01
シリーズ:	Nature Communications
オンライン･アクセス:	https://doi.org/10.1038/s41467-020-18832-8

類似資料

Author Correction: Reconstructing the maize leaf regulatory network using ChIP-seq data of 104 transcription factors
著者:: Xiaoyu Tu, 等
出版事項: (2023-03-01)

Impact of artefact removal on ChIP quality metrics in ChIP-seq and ChIP-exo data.
著者:: Thomas Samuel Carroll, 等
出版事項: (2014-04-01)

ChIP-chip versus ChIP-seq: Lessons for experimental design and data analysis
著者:: Karchenko Peter V, 等
出版事項: (2011-02-01)

ChIP-Seq in Candida albicans
著者:: Sadri Znaidi, 等
出版事項: (2014-06-01)

ChIPpeakAnno: a Bioconductor package to annotate ChIP-seq and ChIP-chip data
著者:: Pagès Hervé, 等
出版事項: (2010-05-01)

Impact of genome assembly status on ChIP-Seq and ChIP-PET data mapping
著者:: Sachs Laurent, 等
出版事項: (2009-12-01)

Fish the ChIPs: a pipeline for automated genomic annotation of ChIP-Seq data
著者:: Minucci Saverio, 等
出版事項: (2011-10-01)

De novo ChIP-seq analysis
著者:: He, Xin, 等
出版事項: (2015)

Normalization of ChIP-seq data with control
著者:: Liang Kun, 等
出版事項: (2012-08-01)

Model-based Analysis of ChIP-Seq (MACS)
著者:: Zhang, Yong, 等
出版事項: (2010)

ChIPseqR: analysis of ChIP-seq experiments
著者:: Helliwell Chris A, 等
出版事項: (2011-01-01)

In silico pooling of ChIP-seq control experiments.
著者:: Guannan Sun, 等
出版事項: (2014-01-01)

Shape-based peak identification for ChIP-Seq
著者:: Evans Steven N, 等
出版事項: (2011-01-01)

ChIPulate: A comprehensive ChIP-seq simulation pipeline.
著者:: Vishaka Datta, 等
出版事項: (2019-03-01)

A widespread distribution of genomic CeMyoD binding sites revealed and cross validated by ChIP-Chip and ChIP-Seq techniques.
著者:: Haiyan Lei, 等
出版事項: (2010-12-01)

About the variability, quality and reproducibility of ChIP-seq data
著者:: Hamzavi-Pinon Violaine, 等
出版事項: (2016-06-01)

CSSQ: a ChIP-seq signal quantifier pipeline
著者:: Ashwath Kumar, 等
出版事項: (2023-05-01)

An integrated ChIP-seq analysis platform with customizable workflows
著者:: Giannopoulou Eugenia G, 等
出版事項: (2011-07-01)

BayesPeak: Bayesian analysis of ChIP-seq data
著者:: Stark Rory, 等
出版事項: (2009-09-01)

Limitations and possibilities of low cell number ChIP-seq
著者:: Gilfillan Gregor D, 等
出版事項: (2012-11-01)

Evaluation of algorithm performance in ChIP-seq peak detection.
著者:: Elizabeth G Wilbanks, 等
出版事項: (2010-07-01)

Practical guidelines for the comprehensive analysis of ChIP-seq data.
著者:: Timothy Bailey, 等
出版事項: (2013-01-01)

Identifying differential transcription factor binding in ChIP-seq
著者:: Dai-Ying eWu, 等
出版事項: (2015-04-01)

Histone modification ChIP-seq on Arabidopsis thaliana Plantlets
著者:: Juan Ramirez-Prado, 等
出版事項: (2021-11-01)

Quantitative ChIP-Seq Normalization Reveals Global Modulation of the Epigenome
著者:: David A. Orlando, 等
出版事項: (2014-11-01)

aFARP-ChIP-seq, a convenient and reliable method for genome profiling in as few as 100 cells with a capability for multiplexing ChIP-seq
著者:: Wenbin Liu, 等
出版事項: (2019-09-01)

Profiling chromatin regulatory landscape: insights into the development of ChIP-seq and ATAC-seq
著者:: Shaoqian Ma, 等
出版事項: (2020-10-01)

iASeq: integrative analysis of allele-specificity of protein-DNA interactions in multiple ChIP-seq datasets
著者:: Wei Yingying, 等
出版事項: (2012-11-01)

ChIP-seq guidelines and practices of the ENCODE and modENCODE consortia
著者:: Kheradpour, Pouya, 等
出版事項: (2013)

Large-Scale Quality Analysis of Published ChIP-seq Data
著者:: Kundaje, Anshul, 等
出版事項: (2014)

peaksat: an R package for ChIP-seq peak saturation analysis
著者:: Joseph R Boyd, 等
出版事項: (2023-01-01)

A Clustering Approach for Motif Discovery in ChIP-Seq Dataset
著者:: Chun-xiao Sun, 等
出版事項: (2019-08-01)

A comparison of control samples for ChIP-seq of histone modifications
著者:: Christoffer eFlensburg, 等
出版事項: (2014-09-01)

Purification of nanogram-range immunoprecipitated DNA in ChIP-seq application
著者:: Jian Zhong, 等
出版事項: (2017-12-01)

Q&A: ChIP-seq technologies and the study of gene regulation
著者:: Pott Sebastian, 等
出版事項: (2010-05-01)

Population size estimation for quality control of ChIP-Seq datasets.
著者:: Semyon K Kolmykov, 等
出版事項: (2019-01-01)

Nonparametric Tests for Differential Histone Enrichment with ChIP-Seq Data
著者:: Qian Wu, 等
出版事項: (2015-01-01)

Nonparametric Tests for Differential Histone Enrichment with ChIP-Seq Data
著者:: Qian Wu, 等
出版事項: (2015-01-01)

Quantitative ChIP-seq by Adding Spike-in from Another Species
著者:: Kongyan Niu, 等
出版事項: (2018-08-01)

Effects of sheared chromatin length on ChIP-seq quality and sensitivity
著者:: Cheryl A Keller, 等
出版事項: (2021-03-01)