Encode

Annotation of functional variation in personal genomes using RegulomeDB
Boyle, A.P. et al.
Genome Res.
(6 September 2012)

ChIP-seq guidelines and practices used by the ENCODE and modENCODE consortia
Landt, S.G. et al.
Genome Res.
(6 September 2012)

Combining RT-PCR-seq and RNA-seq to catalog all genic elements encoded in the human genome
Howald, C. et al.
Genome Res.
(6 September 2012)

Deep sequencing of subcellular RNA fractions shows splicing to be predominantly co-transcriptional in the human genome but inefficient for lncRNAs
Tilgner, H. et al.
Genome Res.
(6 September 2012)

Discovery of hundreds of mirtrons in mouse and human small RNA data
Ladewig, E. et al.
Genome Res.
(6 September 2012)

GENCODE: The reference human genome annotation for the ENCODE project
Harrow, J. et al.
Genome Res.
(6 September 2012)

Linking disease associations with regulatory information in the human genome
Schaub, M.A. et al.
Genome Res.
(6 September 2012)

Long noncoding RNAs are rarely translated in two human cell lines
Bánfai, B. et al.
Genome Res.
(6 September 2012)

Personal and population genomics of human regulatory variation
Vernot, B. et al.
Genome Res.
(6 September 2012)

Predicting cell-type–specific gene expression from regions of open chromatin
Natarajan, A. et al.
Genome Res.
(6 September 2012)

RNA editing in the human ENCODE RNA-seq data
Park, E. et al.
Genome Res.
(6 September 2012)

Sequence and chromatin determinants of cell-type–specific transcription factor binding
Arvey, A. et al.
Genome Res.
(6 September 2012)

Sequence features and chromatin structure around the genomic regions bound by 119 human transcription factors
Wang, J. et al.
Genome Res.
(6 September 2012)

The GENCODE v7 catalog of human long noncoding RNAs: Analysis of their gene structure, evolution, and expression
Derrien, T. et al.
Genome Res.
(6 September 2012)

Ubiquitous heterogeneity and asymmetry of the chromatin environment at regulatory elements
Kundaje, A. et al.
Genome Res.
(6 September 2012)

Understanding transcriptional regulation by integrative analysis of transcription factor binding data
Cheng, C. et al.
Genome Res.
(6 September 2012)

Widespread plasticity in CTCF occupancy linked to DNA methylation
Wang, H. et al.
Genome Res.
(6 September 2012)

A highly integrated and complex PPARGC1A transcription factor binding network in HepG2 cells
Charos, A.E. et al.
Genome Res.
(6 September 2012)

Analysis of variation at transcription factor binding sites in Drosophila and humans
Spivakov, M. et al.
Genome Biol.
(6 September 2012)

Cell type-specific binding patterns reveal that TCF7L2 can be tethered to the genome by association with GATA3
Frietze, S. et al.
Genome Biol.
(6 August 2012)

Classification of human genomic regions based on experimentally determined binding sites of more than 100 transcription related factors
Yip, K.Y. et al.
Genome Biol.
(6 September 2012)

Functional analysis of transcription factor binding sites in human promoters
Whitfield, T.W. et al.
Genome Biol.
(6 September 2012)

Modeling gene expression using chromatin features in various cellular contexts
Dong, X. et al.
Genome Biol.
(6 September 2012)

The GENCODE pseudogene resource
Pei, B. et al.
Genome Biol.
(6 September 2012)

Simultaneous SNP identification and assessment of allele-specific bias from ChIP-seq data
Ni et al.
BMC Gen.
(6 September 2012)