Genome-wide comparative analysis of H3K4me3 profiles between diploid and allotetraploid cotton to refine genome annotation

Dynamic and Antagonistic Allele-Specific Epigenetic Modifications Controlling the Expression of Imprinted Genes in Maize Endosperm

(2017) Xiaomei Dong et al.   Molecular Plant

A systemic identification approach for primary transcription start site of Arabidopsis miRNAs from multidimensional omics data

(2016) Qi You et al.   FUNCTIONAL & INTEGRATIVE GENOMICS

ccNET: Database of co-expression networks with functional modules for diploid and polyploidGossypium

(2016) Qi You et al.   NUCLEIC ACIDS RESEARCH

Histone Modifications Define Expression Bias of Homoeologous Genomes in Allotetraploid Cotton

(2016) Dewei Zheng et al.   PLANT PHYSIOLOGY

Response and Tolerance Mechanism of Cotton Gossypium hirsutum L. to Elevated Temperature Stress: A Review

(2016) Kashif Rafiq Zahid et al.   Frontiers in Plant Science

Glutathione S-Transferase Gene Family in Gossypium raimondii and G. arboreum: Comparative Genomic Study and their Expression under Salt Stress

(2016) Yating Dong et al.   Frontiers in Plant Science

Co-expression network analyses identify functional modules associated with development and stress response in Gossypium arboreum

(2016) Qi You et al.   Scientific Reports

Enhanced somatic embryogenesis in Theobroma cacao using the homologous BABY BOOM transcription factor

(2015) Sergio L Florez et al.   BMC PLANT BIOLOGY

Genome sequence of cultivated Upland cotton (Gossypium hirsutum TM-1) provides insights into genome evolution

(2015) Fuguang Li et al.   NATURE BIOTECHNOLOGY

Sequencing of allotetraploid cotton (Gossypium hirsutum L. acc. TM-1) provides a resource for fiber improvement

(2015) Tianzhen Zhang et al.   NATURE BIOTECHNOLOGY

Regulation of Histone Methylation and Reprogramming of Gene Expression in the Rice Inflorescence Meristem

(2015) Xiaoyun Liu et al.   PLANT CELL

H3K27me3 and H3K4me3 Chromatin Environment at Super-Induced Dehydration Stress Memory Genes of Arabidopsis thaliana

(2014) Ning Liu et al.   Molecular Plant

Genome sequence of the cultivated cotton Gossypium arboreum

(2014) Fuguang Li et al.   NATURE GENETICS

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

(2013) Zhou Du et al.   Molecular Plant

CottonGen: a genomics, genetics and breeding database for cotton research

(2013) Jing Yu et al.   NUCLEIC ACIDS RESEARCH

mRNA-seq Analysis of the Gossypium arboreum transcriptome Reveals Tissue Selective Signaling in Response to Water Stress during Seedling Stage

(2013) Xueyan Zhang et al.   PLoS One

Profiling spatial enrichment of chromatin marks suggests an additional epigenomic dimension in gene regulation

(2013) Claudia Chica et al.   Frontiers in Life Science

The draft genome of a diploid cotton Gossypium raimondii

(2012) Kunbo Wang et al.   NATURE GENETICS

The Epigenome and Plant Development

(2011) Guangming He et al.   Annual Review of Plant Biology

Histone modifications in transcriptional activation during plant development

(2011) Alexandre Berr et al.   Biochimica et Biophysica Acta-Gene Regulatory Mechanisms

Epigenetic control of gene regulation in plants

(2011) Massimiliano Lauria et al.   Biochimica et Biophysica Acta-Gene Regulatory Mechanisms

Identification of novel transcripts in annotated genomes using RNA-Seq

(2011) A. Roberts et al.   BIOINFORMATICS

Regulation of chromatin by histone modifications

(2011) Andrew J Bannister et al.   CELL RESEARCH

Coordinated histone modifications are associated with gene expression variation within and between species

(2011) M. Ha et al.   GENOME RESEARCH

Transcriptome analysis reveals salt-stress-regulated biological processes and key pathways in roots of cotton (Gossypium hirsutum L.)

(2011) Dongxia Yao et al.   GENOMICS

Next-generation transcriptome assembly

(2011) Jeffrey A. Martin et al.   NATURE REVIEWS GENETICS

Biomass allocation to leaves, stems and roots: meta-analyses of interspecific variation and environmental control

(2011) Hendrik Poorter et al.   NEW PHYTOLOGIST

The Arabidopsis Information Resource (TAIR): improved gene annotation and new tools

(2011) Philippe Lamesch et al.   NUCLEIC ACIDS RESEARCH

Advancing RNA-Seq analysis

(2010) Brian J Haas et al.   NATURE BIOTECHNOLOGY

Transcript assembly and quantification by RNA-Seq reveals unannotated transcripts and isoform switching during cell differentiation

(2010) Cole Trapnell et al.   NATURE BIOTECHNOLOGY

Global Epigenetic and Transcriptional Trends among Two Rice Subspecies and Their Reciprocal Hybrids

(2010) G. He et al.   PLANT CELL

ANCORP: a high-resolution approach that generates distinct chromatin state models from multiple genome-wide datasets

(2010) Chongyuan Luo et al.   PLANT JOURNAL

Histone modification levels are predictive for gene expression

(2010) R. Karlic et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Bioinformatics approaches for genomics and post genomics applications of next-generation sequencing

(2009) D. S. Horner et al.   BRIEFINGS IN BIOINFORMATICS

Genome-Wide and Organ-Specific Landscapes of Epigenetic Modifications and Their Relationships to mRNA and Small RNA Transcriptomes in Maize

(2009) X. Wang et al.   PLANT CELL

Dynamic Landscapes of Four Histone Modifications during Deetiolation in Arabidopsis

(2009) J.-B. F. Charron et al.   PLANT CELL

High-Resolution Mapping of Epigenetic Modifications of the Rice Genome Uncovers Interplay between DNA Methylation, Histone Methylation, and Gene Expression

(2008) X. Li et al.   PLANT CELL

Annotating genomes with massive-scale RNA sequencing

(2008) France Denoeud et al.   GENOME BIOLOGY