An in-depth map of polyadenylation sites in cancer

Coding Region Polyadenylation Generates a Truncated tRNA Synthetase that Counters Translation Repression

(2012) Peng Yao et al.   CELL

Intragenic Enhancers Act as Alternative Promoters

(2012) Monika S. Kowalczyk et al.   MOLECULAR CELL

Inferring direct DNA binding from ChIP-seq

(2012) Timothy L. Bailey et al.   NUCLEIC ACIDS RESEARCH

Shortening of 3′UTRs Correlates with Poor Prognosis in Breast and Lung Cancer

(2012) Antonio Lembo et al.   PLoS One

DREME: motif discovery in transcription factor ChIP-seq data

(2011) Timothy L. Bailey   BIOINFORMATICS

The majority of total nuclear-encoded non-ribosomal RNA in a human cell is 'dark matter' un-annotated RNA

(2011) Philipp Kapranov et al.   BMC BIOLOGY

Differential genome-wide profiling of tandem 3' UTRs among human breast cancer and normal cells by high-throughput sequencing

(2011) Y. Fu et al.   GENOME RESEARCH

Open chromatin defined by DNaseI and FAIRE identifies regulatory elements that shape cell-type identity

(2011) L. Song et al.   GENOME RESEARCH

Extracellular matrix and cell signalling: the dynamic cooperation of integrin, proteoglycan and growth factor receptor

(2011) Soo-Hyun Kim et al.   JOURNAL OF ENDOCRINOLOGY

Transcriptional Activators Enhance Polyadenylation of mRNA Precursors

(2011) Takashi Nagaike et al.   MOLECULAR CELL

Molecular Mechanisms of Long Noncoding RNAs

(2011) Kevin C. Wang et al.   MOLECULAR CELL

Transcriptional activity regulates alternative cleavage and polyadenylation

(2011) Z. Ji et al.   Molecular Systems Biology

A germline variant in the TP53 polyadenylation signal confers cancer susceptibility

(2011) Simon N Stacey et al.   NATURE GENETICS

Non-coding RNAs in human disease

(2011) Manel Esteller   NATURE REVIEWS GENETICS

Precursor miR-886, a novel noncoding RNA repressed in cancer, associates with PKR and modulates its activity

(2011) K. Lee et al.   RNA

Complex and dynamic landscape of RNA polyadenylation revealed by PAS-Seq

(2011) P. J. Shepard et al.   RNA

A User's Guide to the Encyclopedia of DNA Elements (ENCODE)

(2011)   PLOS BIOLOGY

Comprehensive Polyadenylation Site Maps in Yeast and Human Reveal Pervasive Alternative Polyadenylation

(2010) Fatih Ozsolak et al.   CELL

Heterogeneity in mammalian RNA 3′ end formation

(2010) Joel R. Neilson et al.   EXPERIMENTAL CELL RESEARCH

Mammalian microRNAs predominantly act to decrease target mRNA levels

(2010) Huili Guo et al.   NATURE

Formation, regulation and evolution of Caenorhabditis elegans 3′UTRs

(2010) Calvin H. Jan et al.   NATURE

Discovery of microRNAs and other small RNAs in solid tumors

(2010) Eti Meiri et al.   NUCLEIC ACIDS RESEARCH

The UCSC Genome Browser database: update 2011

(2010) P. A. Fujita et al.   NUCLEIC ACIDS RESEARCH

Most “Dark Matter” Transcripts Are Associated With Known Genes

(2010) Harm van Bakel et al.   PLOS BIOLOGY

Role of 5′- and 3′-untranslated regions of mRNAs in human diseases

(2009) Sangeeta Chatterjee et al.   BIOLOGY OF THE CELL

Global Changes in Processing of mRNA 3' Untranslated Regions Characterize Clinically Distinct Cancer Subtypes

(2009) P. Singh et al.   CANCER RESEARCH

Pre-mRNA Processing Reaches Back toTranscription and Ahead to Translation

(2009) Melissa J. Moore et al.   CELL

Widespread Shortening of 3′UTRs by Alternative Cleavage and Polyadenylation Activates Oncogenes in Cancer Cells

(2009) Christine Mayr et al.   CELL

Direct RNA sequencing

(2009) Fatih Ozsolak et al.   NATURE

A small-cell lung cancer genome with complex signatures of tobacco exposure

(2009) Erin D. Pleasance et al.   NATURE

Reprogramming of 3′ Untranslated Regions of mRNAs by Alternative Polyadenylation in Generation of Pluripotent Stem Cells from Different Cell Types

(2009) Zhe Ji et al.   PLoS One

Progressive lengthening of 3' untranslated regions of mRNAs by alternative polyadenylation during mouse embryonic development

(2009) Z. Ji et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Concordant Regulation of Translation and mRNA Abundance for Hundreds of Targets of a Human microRNA

(2009) David G. Hendrickson et al.   PLOS BIOLOGY

Alternative Polyadenylation: A Twist on mRNA 3′ End Formation

(2008) Carol S. Lutz   ACS Chemical Biology

NET1-mediated RhoA activation facilitates lysophosphatidic acid-induced cell migration and invasion in gastric cancer

(2008) D Murray et al.   BRITISH JOURNAL OF CANCER

Rapid whole-genome mutational profiling using next-generation sequencing technologies

(2008) D. R. Smith et al.   GENOME RESEARCH

Mechanistic insights into the link between a polymorphism of the 3′UTR of theSLC7A1gene and hypertension

(2008) Zhiyong Yang et al.   HUMAN MUTATION

Alternative isoform regulation in human tissue transcriptomes

(2008) Eric T. Wang et al.   NATURE

The impact of microRNAs on protein output

(2008) Daehyun Baek et al.   NATURE

Widespread changes in protein synthesis induced by microRNAs

(2008) Matthias Selbach et al.   NATURE

Nectins and nectin-like molecules: roles in contact inhibition of cell movement and proliferation

(2008) Yoshimi Takai et al.   NATURE REVIEWS MOLECULAR CELL BIOLOGY

Reactome knowledgebase of human biological pathways and processes

(2008) L. Matthews et al.   NUCLEIC ACIDS RESEARCH

GAS5, a non-protein-coding RNA, controls apoptosis and is downregulated in breast cancer

(2008) M Mourtada-Maarabouni et al.   ONCOGENE

Proliferating Cells Express mRNAs with Shortened 3' Untranslated Regions and Fewer MicroRNA Target Sites

(2008) R. Sandberg et al.   SCIENCE