Previous Versions of ENCODE Guidelines

Antibody Characterizations

Antibody Characterization Standards (August 2015)

Antibody Characterization Standards (February 2014)

Standards for Characterizing Histone Modification Antibodies (Nov 2008)


Cell Culture Guidelines (2008)


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

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

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

ChIP-seq Standards v1.0 (Nov 2008)


RNA Standards v1.0 (May 2011)

RNA-seq Best Practices (2009)

Other Assay

microRNA-seq (ENCODE 3)  (May 2017)

ENCODE Experimental Guidelines for ENCODE3 ChIA-PET v1.0 (January 2017)

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

RIP Standards v2.0 (Jan 2012)

Standards for Data Reporting (Jan 2009)