Related references
Note: Only part of the references are listed.The Noncoding RNA Revolution-Trashing Old Rules to Forge New Ones
Thomas R. Cech et al.
CELL (2014)
An atlas of active enhancers across human cell types and tissues
Robin Andersson et al.
NATURE (2014)
A promoter-level mammalian expression atlas
Alistair R. R. Forrest et al.
NATURE (2014)
JASPAR 2014: an extensively expanded and updated open-access database of transcription factor binding profiles
Anthony Mathelier et al.
NUCLEIC ACIDS RESEARCH (2014)
Enhancer RNAs and regulated transcriptional programs
Michael T. Y. Lam et al.
TRENDS IN BIOCHEMICAL SCIENCES (2014)
Transcription-associated quality control of mRNP
Manfred Schmid et al.
BIOCHIMICA ET BIOPHYSICA ACTA-GENE REGULATORY MECHANISMS (2013)
STAR: ultrafast universal RNA-seq aligner
Alexander Dobin et al.
BIOINFORMATICS (2013)
lincRNAs: Genomics, Evolution, and Mechanisms
Igor Ulitsky et al.
CELL (2013)
Dealing with Pervasive Transcription
Torben Heick Jensen et al.
MOLECULAR CELL (2013)
Promoter directionality is controlled by U1 snRNP and polyadenylation signals
Albert E. Almada et al.
NATURE (2013)
The human cap-binding complex is functionally connected to the nuclear RNA exosome
Peter Refsing Andersen et al.
NATURE STRUCTURAL & MOLECULAR BIOLOGY (2013)
Polyadenylation site-induced decay of upstream transcripts enforces promoter directionality
Evgenia Ntini et al.
NATURE STRUCTURAL & MOLECULAR BIOLOGY (2013)
Divergent transcription of long noncoding RNA/mRNA gene pairs in embryonic stem cells
Alla A. Sigova et al.
PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA (2013)
Chromatin signatures at transcriptional start sites separate two equally populated yet distinct classes of intergenic long noncoding RNAs
Ana C. Marques et al.
GENOME BIOLOGY (2013)
Genome Regulation by Long Noncoding RNAs
John L. Rinn et al.
ANNUAL REVIEW OF BIOCHEMISTRY, VOL 81 (2012)
Sequence features and chromatin structure around the genomic regions bound by 119 human transcription factors
Jie Wang et al.
GENOME RESEARCH (2012)
The GENCODE v7 catalog of human long noncoding RNAs: Analysis of their gene structure, evolution, and expression
Thomas Derrien et al.
GENOME RESEARCH (2012)
Intragenic Enhancers Act as Alternative Promoters
Monika S. Kowalczyk et al.
MOLECULAR CELL (2012)
Landscape of transcription in human cells
Sarah Djebali et al.
NATURE (2012)
An integrated encyclopedia of DNA elements in the human genome
Ian Dunham et al.
NATURE (2012)
The accessible chromatin landscape of the human genome
Robert E. Thurman et al.
NATURE (2012)
Unsupervised pattern discovery in human chromatin structure through genomic segmentation
Michael M. Hoffman et al.
NATURE METHODS (2012)
ChromHMM: automating chromatin-state discovery and characterization
Jason Ernst et al.
NATURE METHODS (2012)
5′ end-centered expression profiling using cap-analysis gene expression and next-generation sequencing
Hazuki Takahashi et al.
NATURE PROTOCOLS (2012)
Differential gene and transcript expression analysis of RNA-seq experiments with TopHat and Cufflinks
Cole Trapnell et al.
NATURE PROTOCOLS (2012)
Defining the Status of RNA Polymerase at Promoters
Leighton J. Core et al.
CELL REPORTS (2012)
PhyloCSF: a comparative genomics method to distinguish protein coding and non-coding regions
Michael F. Lin et al.
BIOINFORMATICS (2011)
Integrative annotation of human large intergenic noncoding RNAs reveals global properties and specific subclasses
Moran N. Cabili et al.
GENES & DEVELOPMENT (2011)
Transcription initiation platforms and GTF recruitment at tissue-specific enhancers and promoters
Frederic Koch et al.
NATURE STRUCTURAL & MOLECULAR BIOLOGY (2011)
BEDTools: a flexible suite of utilities for comparing genomic features
Aaron R. Quinlan et al.
BIOINFORMATICS (2010)
Simple Combinations of Lineage-Determining Transcription Factors Prime cis-Regulatory Elements Required for Macrophage and B Cell Identities
Sven Heinz et al.
MOLECULAR CELL (2010)
U1 snRNP protects pre-mRNAs from premature cleavage and polyadenylation
Daisuke Kaida et al.
NATURE (2010)
Widespread transcription at neuronal activity-regulated enhancers
Tae-Kyung Kim et al.
NATURE (2010)
A Large Fraction of Extragenic RNA Pol II Transcription Sites Overlap Enhancers
Francesca De Santa et al.
PLOS BIOLOGY (2010)
Post-transcriptional processing generates a diversity of 5'-modified long and short RNAs
Katalin Fejes-Toth et al.
NATURE (2009)
An Abundance of Ubiquitously Expressed Genes Revealed by Tissue Transcriptome Sequence Data
Daniel Ramskold et al.
PLOS COMPUTATIONAL BIOLOGY (2009)
Ultrafast and memory-efficient alignment of short DNA sequences to the human genome
Ben Langmead et al.
GENOME BIOLOGY (2009)
Rapidly evolving human promoter regions
Martin S. Taylor et al.
NATURE GENETICS (2008)
Asap: A Framework for Over-Representation Statistics for Transcription Factor Binding Sites
Troels T. Marstrand et al.
PLOS ONE (2008)
Divergent Transcription from Active Promoters
Amy C. Seila et al.
SCIENCE (2008)
RNA Exosome Depletion Reveals Transcription Upstream of Active Human Promoters
Pascal Preker et al.
SCIENCE (2008)
Nascent RNA Sequencing Reveals Widespread Pausing and Divergent Initiation at Human Promoters
Leighton J. Core et al.
SCIENCE (2008)
Sparse non-negative matrix factorizations via alternating non-negativity-constrained least squares for microarray data analysis
Hyunsoo Kim et al.
BIOINFORMATICS (2007)
Identification and analysis of functional elements in 1% of the human genome by the ENCODE pilot project
Ewan Birney et al.
NATURE (2007)
RNA maps reveal new RNA classes and a possible function for pervasive transcription
Philipp Kapranov et al.
SCIENCE (2007)
The transcriptional landscape of the mammalian genome
P Carninci et al.
SCIENCE (2005)
Distribution and intensity of constraint in mammalian genomic sequence
GM Cooper et al.
GENOME RESEARCH (2005)