ChIP-seq guidelines and practices of the ENCODE and modENCODE consortia.

  title={ChIP-seq guidelines and practices of the ENCODE and modENCODE consortia.},
  author={Stephen G. Landt and Georgi K. Marinov and Anshul Kundaje and Pouya Kheradpour and Florencia Pauli and Serafim Batzoglou and Bradley E. Bernstein and Peter Bickel and J. Ben Brown and Philip Cayting and Yiwen Chen and Gilberto Desalvo and C. Epstein and Katherine I. Fisher-Aylor and Ghia M Euskirchen and Mark Gerstein and Jason Gertz and Alexander J. Hartemink and Michael M. Hoffman and Vishwanath R. Iyer and Youngsook L. Jung and Subhradip Karmakar and Manolis Kellis and Peter V. Kharchenko and Qunhua Li and Tao Liu and X. Shirley Liu and Lijia Ma and Aleksandar Milosavljevic and Richard M. Myers and Peter J. Park and Michael J. Pazin and Marc D. Perry and Debasish Raha and Timothy E. Reddy and Joel S. Rozowsky and Noam Shoresh and Arend Sidow and Matthew Slattery and John A. Stamatoyannopoulos and Michael Y. Tolstorukov and Kevin P. White and Simon Hualin Xi and Peggy J. Farnham and Jason D. Lieb and Barbara J. Wold and Michael Snyder},
  journal={Genome research},
  volume={22 9},
Chromatin immunoprecipitation (ChIP) followed by high-throughput DNA sequencing (ChIP-seq) has become a valuable and widely used approach for mapping the genomic location of transcription-factor binding and histone modifications in living cells. Despite its widespread use, there are considerable differences in how these experiments are conducted, how the results are scored and evaluated for quality, and how the data and metadata are archived for public use. These practices affect the quality… CONTINUE READING
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