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ENCODE Project at NHGRI Guidelines for Experiments

Current Guidelines:

Landt SG, Marinov GK, Kundaje A, Kheradpour P, Pauli F, Batzoglou S, Bernstein BE, Bickel P, Brown JB, Cayting P et al. ChIP-seq guidelines and practices of the ENCODE and modENCODE consortia. Genome Res. 2012 Sep;22(9):1813-31.

ChIP-seq, ChIP-chip, DNase-seq, FAIRE-seq and DNAme Standards v2.0 (July 2011)

RNA Standards v1.0 (May 2011)

RIP Standards v2.0 (Jan 2012)

Previous Versions of Guidelines:

Cell Culture Guidelines

Chromatin and Transcription Factor Data Standards v1.0 (April 2010)

ChIP-seq Standards v1.0 ( Nov 2008)

DNase-seq and FAIRE-seq Standards (Jan 2009)

Standards for Data Reporting (Jan 2009)

Standards for Characterizing Histone Modification Antibodies (Nov 2008)

RNA-seq Best Practices (2009)

Updated 18 October 2012