标题
A cis-regulatory atlas in maize at single-cell resolution
作者
关键词
chromatin, single-cell, epigenomics, maize, gene regulation, ATAC-seq, plant development, pseudotime, transcription factor, cis-regulatory elements
出版物
CELL
Volume -, Issue -, Pages -
出版商
Elsevier BV
发表日期
2021-05-08
DOI
10.1016/j.cell.2021.04.014
参考文献
相关参考文献
注意:仅列出部分参考文献,下载原文获取全部文献信息。- H3K27me3-rich genomic regions can function as silencers to repress gene expression via chromatin interactions
- (2021) Yichao Cai et al. Nature Communications
- Chromatin interaction analyses elucidate the roles of PRC2-bound silencers in mouse development
- (2020) Chew Yee Ngan et al. NATURE GENETICS
- Mechanisms of tissue and cell-type specificity in heritable traits and diseases
- (2020) Idan Hekselman et al. NATURE REVIEWS GENETICS
- Genome-wide selection and genetic improvement during modern maize breeding
- (2020) Baobao Wang et al. NATURE GENETICS
- Stable unmethylated DNA demarcates expressed genes and their cis-regulatory space in plant genomes
- (2020) Peter A. Crisp et al. PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA
- Mobile PEAR transcription factors integrate positional cues to prime cambial growth
- (2019) Shunsuke Miyashima et al. NATURE
- Phloem companion cell-specific transcriptomic and epigenomic analyses identify MRF1, a novel regulator of flowering
- (2019) Yuan You et al. PLANT CELL
- Defining the developmental program leading to meiosis in maize
- (2019) Brad Nelms et al. SCIENCE
- Comprehensive Integration of Single-Cell Data
- (2019) Tim Stuart et al. CELL
- Single-Cell Multi-omic Integration Compares and Contrasts Features of Brain Cell Identity
- (2019) Joshua D. Welch et al. CELL
- Chromatin interaction maps reveal genetic regulation for quantitative traits in maize
- (2019) Yong Peng et al. Nature Communications
- Massively parallel single-cell chromatin landscapes of human immune cell development and intratumoral T cell exhaustion
- (2019) Ansuman T. Satpathy et al. NATURE BIOTECHNOLOGY
- Fast, sensitive and accurate integration of single-cell data with Harmony
- (2019) Ilya Korsunsky et al. NATURE METHODS
- Determinants of enhancer and promoter activities of regulatory elements
- (2019) Robin Andersson et al. NATURE REVIEWS GENETICS
- OUP accepted manuscript
- (2018) BIOINFORMATICS
- Enhanced JBrowse plugins for epigenomics data visualization
- (2018) Brigitte T. Hofmeister et al. BMC BIOINFORMATICS
- Recovering Gene Interactions from Single-Cell Data Using Data Diffusion
- (2018) David van Dijk et al. CELL
- Genetic determinants of co-accessible chromatin regions in activated T cells across humans
- (2018) Rachel E. Gate et al. NATURE GENETICS
- Alignment of single-cell trajectories to compare cellular expression dynamics
- (2018) Ayelet Alpert et al. NATURE METHODS
- Proliferation of Regulatory DNA Elements Derived from Transposable Elements in the Maize Genome
- (2018) Hainan Zhao et al. PLANT PHYSIOLOGY
- A Single-Cell Atlas of In Vivo Mammalian Chromatin Accessibility
- (2018) Darren A. Cusanovich et al. CELL
- Selection Signatures Underlying Dramatic Male Inflorescence Transformation During Modern Hybrid Maize Breeding
- (2018) Joseph L. Gage et al. GENETICS
- Cicero Predicts cis-Regulatory DNA Interactions from Single-Cell Chromatin Accessibility Data
- (2018) Hannah A. Pliner et al. MOLECULAR CELL
- The chromatin accessibility landscape of primary human cancers
- (2018) M. Ryan Corces et al. SCIENCE
- The DNA binding landscape of the maize AUXIN RESPONSE FACTOR family
- (2018) Mary Galli et al. Nature Communications
- 3D Chromatin Architecture of Large Plant Genomes Determined by Local A/B Compartments
- (2017) Pengfei Dong et al. Molecular Plant
- Improved maize reference genome with single-molecule technologies
- (2017) Yinping Jiao et al. NATURE
- Cis and trans determinants of epigenetic silencing by Polycomb repressive complex 2 in Arabidopsis
- (2017) Jun Xiao et al. NATURE GENETICS
- chromVAR: inferring transcription-factor-associated accessibility from single-cell epigenomic data
- (2017) Alicia N Schep et al. NATURE METHODS
- Cistrome and Epicistrome Features Shape the Regulatory DNA Landscape
- (2016) Ronan C. O’Malley et al. CELL
- Genome-wide analysis of chromatin packing inArabidopsis thalianaat single-gene resolution
- (2016) Chang Liu et al. GENOME RESEARCH
- Functionally Similar WRKY Proteins Regulate Vacuolar Acidification in Petunia and Hair Development in Arabidopsis
- (2016) Walter Verweij et al. PLANT CELL
- Sucrose Transporter ZmSut1 Expression and Localization Uncover New Insights into Sucrose Phloem Loading
- (2016) R. Frank Baker et al. PLANT PHYSIOLOGY
- Enhancer Evolution across 20 Mammalian Species
- (2015) Diego Villar et al. CELL
- Prolonged expression of the BX1 signature enzyme is associated with a recombination hotspot in the benzoxazinoid gene cluster in Zea mays
- (2015) Linlin Zheng et al. JOURNAL OF EXPERIMENTAL BOTANY
- Single-cell chromatin accessibility reveals principles of regulatory variation
- (2015) Jason D. Buenrostro et al. NATURE
- MaizeSBP-boxtranscription factorsunbranched2andunbranched3affect yield traits by regulating the rate of lateral primordia initiation
- (2014) George S. Chuck et al. PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA
- Association Mapping across Numerous Traits Reveals Patterns of Functional Variation in Maize
- (2014) Jason G. Wallace et al. PLoS Genetics
- Architecture of the human regulatory network derived from ENCODE data
- (2012) Mark B. Gerstein et al. NATURE
- Characterizing Regulatory and Functional Differentiation between Maize Mesophyll and Bundle Sheath Cells by Transcriptomic Analysis
- (2012) Y.-M. Chang et al. PLANT PHYSIOLOGY
- The chromatin insulator CTCF and the emergence of metazoan diversity
- (2012) P. Heger et al. PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA
- MEME-ChIP: motif analysis of large DNA datasets
- (2011) Philip Machanick et al. BIOINFORMATICS
- FIMO: scanning for occurrences of a given motif
- (2011) Charles E. Grant et al. BIOINFORMATICS
- BEDTools: a flexible suite of utilities for comparing genomic features
- (2010) Aaron R. Quinlan et al. BIOINFORMATICS
- An Atlas of Combinatorial Transcriptional Regulation in Mouse and Man
- (2010) Timothy Ravasi et al. CELL
- The INTACT method for cell type–specific gene expression and chromatin profiling in Arabidopsis thaliana
- (2010) Roger B Deal et al. Nature Protocols
- VND-INTERACTING2, a NAC Domain Transcription Factor, Negatively Regulates Xylem Vessel Formation inArabidopsis
- (2010) Masatoshi Yamaguchi et al. PLANT CELL
- The Sequence Alignment/Map format and SAMtools
- (2009) H. Li et al. BIOINFORMATICS
- edgeR: a Bioconductor package for differential expression analysis of digital gene expression data
- (2009) M. D. Robinson et al. BIOINFORMATICS
- A penalized matrix decomposition, with applications to sparse principal components and canonical correlation analysis
- (2009) D. M. Witten et al. BIOSTATISTICS
- BLAST+: architecture and applications
- (2009) Christiam Camacho et al. BMC BIOINFORMATICS
- CTCF: Master Weaver of the Genome
- (2009) Jennifer E. Phillips et al. CELL
- The maize root stem cell niche: a partnership between two sister cell populations
- (2009) Keni Jiang et al. PLANTA
- miR319a targeting ofTCP4is critical for petal growth and development inArabidopsis
- (2009) Anwesha Nag et al. PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA
- Who begets whom? Plant cell fate determination by asymmetric cell division
- (2008) Colette A ten Hove et al. CURRENT OPINION IN PLANT BIOLOGY
- Model-based Analysis of ChIP-Seq (MACS)
- (2008) Yong Zhang et al. GENOME BIOLOGY
- Transcription factor AtTCP14 regulates embryonic growth potential during seed germination inArabidopsis thaliana
- (2007) Kiyoshi Tatematsu et al. PLANT JOURNAL
Find Funding. Review Successful Grants.
Explore over 25,000 new funding opportunities and over 6,000,000 successful grants.
ExploreDiscover Peeref hubs
Discuss science. Find collaborators. Network.
Join a conversation