Analysis of Transcriptome Complexity Through RNA Sequencing in Normal and Failing Murine Hearts

Nuclear Effects of G-Protein Receptor Kinase 5 on Histone Deacetylase 5–Regulated Gene Transcription in Heart Failure

(2011) Yan Zhang et al.   Circulation-Heart Failure

Receptor-independent Protein Kinase Cα (PKCα) Signaling by Calpain-generated Free Catalytic Domains Induces HDAC5 Nuclear Export and Regulates Cardiac Transcription

(2011) Yan Zhang et al.   JOURNAL OF BIOLOGICAL CHEMISTRY

RhoA protects the mouse heart against ischemia/reperfusion injury

(2011) Sunny Yang Xiang et al.   JOURNAL OF CLINICAL INVESTIGATION

Computational methods for transcriptome annotation and quantification using RNA-seq

(2011) Manuel Garber et al.   NATURE METHODS

The H19 locus: Role of an imprinted non-coding RNA in growth and development

(2010) Anne Gabory et al.   BIOESSAYS

Evaluation of statistical methods for normalization and differential expression in mRNA-Seq experiments

(2010) James H Bullard et al.   BMC BIOINFORMATICS

Deep mRNA Sequencing for In Vivo Functional Analysis of Cardiac Transcriptional Regulators

(2010) Scot J. Matkovich et al.   CIRCULATION RESEARCH

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

(2010) Cole Trapnell et al.   NATURE BIOTECHNOLOGY

Ab initio reconstruction of cell type–specific transcriptomes in mouse reveals the conserved multi-exonic structure of lincRNAs

(2010) Mitchell Guttman et al.   NATURE BIOTECHNOLOGY

High-Resolution Analysis of Parent-of-Origin Allelic Expression in the Mouse Brain

(2010) C. Gregg et al.   SCIENCE

Long noncoding RNAs: functional surprises from the RNA world

(2009) J. E. Wilusz et al.   GENES & DEVELOPMENT

Genomic and Transcriptional Co-Localization of Protein-Coding and Long Non-Coding RNA Pairs in the Developing Brain

(2009) Jasmina Ponjavic et al.   PLoS Genetics

Ultrafast and memory-efficient alignment of short DNA sequences to the human genome

(2009) Ben Langmead et al.   GENOME BIOLOGY

WGCNA: an R package for weighted correlation network analysis

(2008) Peter Langfelder et al.   BMC BIOINFORMATICS

RNA-seq: An assessment of technical reproducibility and comparison with gene expression arrays

(2008) J. C. Marioni et al.   GENOME RESEARCH

Mapping and quantifying mammalian transcriptomes by RNA-Seq

(2008) Ali Mortazavi et al.   NATURE METHODS

RNA-Seq: a revolutionary tool for transcriptomics

(2008) Zhong Wang et al.   NATURE REVIEWS GENETICS

Cardiac Plasticity

(2008) Joseph A. Hill et al.   NEW ENGLAND JOURNAL OF MEDICINE