UNBRANCHED3 Expression and Inflorescence Development is Mediated by UNBRANCHED2 and the Distal Enhancer, KRN4, in Maize

Chromatin interaction maps reveal genetic regulation for quantitative traits in maize

(2019) Yong Peng et al.   Nature Communications

Long-range interactions between proximal and distal regulatory regions in maize

(2019) En Li et al.   Nature Communications

Coactivator condensation at super-enhancers links phase separation and gene control

(2018) Benjamin R. Sabari et al.   SCIENCE

Protein Phase Separation: A New Phase in Cell Biology

(2018) Steven Boeynaems et al.   TRENDS IN CELL BIOLOGY

The maize W22 genome provides a foundation for functional genomics and transposon biology

(2018) Nathan M. Springer et al.   NATURE GENETICS

Evolutionarily Conserved Principles Predict 3D Chromatin Organization

(2017) M. Jordan Rowley et al.   MOLECULAR CELL

Long-read ChIA-PET for base-pair-resolution mapping of haplotype-specific chromatin interactions

(2017) Xingwang Li et al.   Nature Protocols

UNBRANCHED3 regulates branching by modulating cytokinin biosynthesis and signaling in maize and rice

(2017) Yanfang Du et al.   NEW PHYTOLOGIST

Non-coding RNAs as regulators in epigenetics

(2016) Jian-Wei Wei et al.   ONCOLOGY REPORTS

Open chromatin reveals the functional maize genome

(2016) Eli Rodgers-Melnick et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Plant Enhancers: A Call for Discovery

(2016) Blaise Weber et al.   TRENDS IN PLANT SCIENCE

A Long-Distance Chromatin Affair

(2015) Annette Denker et al.   CELL

Progress, challenges and the future of crop genomes

(2015) Todd P Michael et al.   CURRENT OPINION IN PLANT BIOLOGY

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

HISAT: a fast spliced aligner with low memory requirements

(2015) Daehwan Kim et al.   NATURE METHODS

Genome-Wide Prediction and Validation of Intergenic Enhancers in Arabidopsis Using Open Chromatin Signatures

(2015) Bo Zhu et al.   PLANT CELL

The Hierarchy of Transcriptional Activation: From Enhancer to Promoter

(2015) Douglas Vernimmen et al.   TRENDS IN GENETICS

KRN4 Controls Quantitative Variation in Maize Kernel Row Number

(2015) Lei Liu et al.   PLoS Genetics

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

A MITE Transposon Insertion Is Associated with Differential Methylation at the Maize Flowering Time QTL Vgt1

(2014) Sara Castelletti et al.   G3-Genes Genomes Genetics

Association Mapping across Numerous Traits Reveals Patterns of Functional Variation in Maize

(2014) Jason G. Wallace et al.   PLoS Genetics

Super-Enhancers in the Control of Cell Identity and Disease

(2013) Denes Hnisz et al.   CELL

Genome-Wide Analysis of Histone Modifications: H3K4me2, H3K4me3, H3K9ac, and H3K27ac in Oryza sativa L. Japonica

(2013) Zhou Du et al.   Molecular Plant

Quantitative variation in maize kernel row number is controlled by the FASCIATED EAR2 locus

(2013) Peter Bommert et al.   NATURE GENETICS

Genome-wide identification of genes regulated intransby transposable element small interfering RNAs

(2013) Andrea D McCue et al.   RNA Biology

Integrative Genomics Viewer (IGV): high-performance genomics data visualization and exploration

(2012) H. Thorvaldsdottir et al.   BRIEFINGS IN BIOINFORMATICS

Extensive Promoter-Centered Chromatin Interactions Provide a Topological Basis for Transcription Regulation

(2012) Guoliang Li et al.   CELL

Functional and Mechanistic Diversity of Distal Transcription Enhancers

(2011) Michael Bulger et al.   CELL

Enhancer and promoter interactions—long distance calls

(2011) Ivan Krivega et al.   CURRENT OPINION IN GENETICS & DEVELOPMENT

H3K4 tri-methylation provides an epigenetic signature of active enhancers

(2011) Aleksandra Pekowska et al.   EMBO JOURNAL

Identification of a functional transposon insertion in the maize domestication gene tb1

(2011) Anthony Studer et al.   NATURE GENETICS

Enhancer function: new insights into the regulation of tissue-specific gene expression

(2011) Chin-Tong Ong et al.   NATURE REVIEWS GENETICS

Paramutation in maize: RNA mediated trans-generational gene silencing

(2010) Mario Alberto Arteaga-Vazquez et al.   CURRENT OPINION IN GENETICS & DEVELOPMENT

Annotating non-coding regions of the genome

(2010) Roger P. Alexander et al.   NATURE REVIEWS GENETICS

Histone H3K27ac separates active from poised enhancers and predicts developmental state

(2010) M. P. Creyghton et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

The B73 Maize Genome: Complexity, Diversity, and Dynamics

(2009) P. S. Schnable et al.   SCIENCE

Genome-wide analysis of mono-, di- and trimethylation of histone H3 lysine 4 in Arabidopsis thaliana

(2009) Xiaoyu Zhang et al.   GENOME BIOLOGY

Model-based Analysis of ChIP-Seq (MACS)

(2008) Yong Zhang et al.   GENOME BIOLOGY