Encode

Spark: A navigational paradigm for genomic data exploration
Nielsen, C.B. et al.
Genome Res. 22, 2262-2269 (2012)

Integrative annotation of chromatin elements from ENCODE data
Hoffman, M.M. et al.
Nucleic Acids Res. 41 (2), 827-841 (2012)

Comparative Proteomics Reveals a Significant Bias Toward Alternative Protein Isoforms with Conserved Structure and Function
Ezkurdia, I. et al.
Mol. Biol. Evol. 29, 2265-2283 (2012)

An Atlas of the Epstein-Barr Virus Transcriptome and Epigenome Reveals Host-Virus Regulatory Interactions
Arvey, A. et al.
Cell Host Microbe 12, 233-245 (2012)

The Chromatin Fingerprint of Gene Enhancer Elements
Zentner, G.E. & Scacheri, P.C.
J. Biol. Chem. 287, 30888-30896 (2012)

Genome-wide studies of CTCF and cohesin provide insight into chromatin structure and regulation
Lee, B.K. & Iyer, V.R.
J. Biol. Chem. 287, 30906-30913 (2012)

Transcription factor mediated epigenetic reprogramming
Sindu, C. et al.
J. Biol. Chem. 287, 30922-30931 (2012)

SWI/SNF Chromatin Remodeling Factors: Multiscale Analyses and Diverse Functions
Euskirchen, G. et al.
J. Biol. Chem. 287, 30897-30905 (2012)

Uncovering transcription factor modules using one-dimensional and three-dimensional analyses
Lan, X. et al.
J. Biol. Chem. 287, 30914-30921 (2012)

Thematic Minireview Series on Results from the ENCODE Project: Integrative Global Analyses of Regulatory Regions in the Human Genome
Farnham, P.J.
J. Biol. Chem. 287, 30885-30887 (2012)

Integration of Hi-C and ChIP-seq data reveals distinct types of chromatin linkages
Lan, X. et al.
Nucleic Acids Res. 40, 7690-7704 (2012)

Genome-wide Epigenetic Data Facilitate Understanding of Disease Susceptibility Association Studies
Hardison, R.C.
J. Biol. Chem. 287, 30932-30940 (2012)

The Hypersensitive Glucocorticoid Response Specifically Regulates Period 1 and Expression of Circadian Genes
Reddy, T.E. et al.
Mol. Cell. Biol. 32, 3756-3767 (2012)

Circuitry and dynamics of human transcription factor regulatory networks
Neph, S. et al.
Cell 150, 1274–1286 (2012)

Evidence of abundant purifying selection in humans for recently acquired regulatory functions
Ward, L.D. & Kellis, M.
Science 337, 1675-1678 (2012)

Systematic localization of common disease-associated variation in regulatory DNA
Maurano, M.T. et al.
Science 337, 1190-1195 (2012)