UT-Austin ChIP Tracks
 
University of Texas, Austin ChIP-chip and STAGE tracks   (All Pilot ENCODE Chromatin Immunoprecipitation tracks)

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UT-Austin ChIP  University of Texas, Austin ChIP-chip  Source data version: ENCODE Oct 2005 Freeze
UT-Austin STAGE  University of Texas, Austin STAGE (Sequence Tag Analysis of Genomic Enrichment)  Source data version: ENCODE Oct 2005 Freeze, Oct 2006
Data coordinates converted via liftOver from: May 2004 (NCBI35/hg17)

Overview

This super-track combines related tracks of ChIP data generated by the Iyer laboratory at The University of Texas at Austin. Two technologies are presented in this super-track: ChIP-chip and ChIP-STAGE. ChIP-chip, also known as genome-wide location analysis, is a technique for isolation and identification of DNA sequences bound by specific proteins in cells. Instead of detecting bound fragments by microarray, ChIP-STAGE uses Sequence Tag Analysis of Genomic Enrichment, or STAGE, technology by cloning STAGE tags, sequencing and mapping to the human genome.

These tracks contain ChIP data for several transcription factors, including c-Myc, E2F4 and STAT1, in cell lines including 2091 (foreskin fibroblast) and HeLa (cervical carcinoma).

Credits

ChIP-chip data were contributed by Jonghwan Kim, Akshay Bhinge, and Vishy Iyer from the Iyer lab at The University of Texas at Austin, in collaboration with Mike Singer, Nan Jiang, and Roland Green of NimbleGen Systems, Inc.

ChIP-STAGE data were contributed by Jonghwan Kim, Akshay Bhinge, and Vishy Iyer from the Iyer lab, and by Ghia Euskirchen and Michael Snyder of the Snyder lab at Yale University.

References

Bhinge AA, Kim J, Euskirchen G, Snyder M, Iyer VR. Mapping the chromosomal targets of STAT1 by Sequence Tag Analysis of Genomic Enrichment (STAGE). Genome Res. 2007 Jun;17(6):910-6.

Kim J, Bhinge A, Morgan XC, Iyer VR. Mapping DNA-protein interactions in large genomes by sequence tag analysis of genomic enrichment. Nat Methods. 2005 Jan;2(1):47-53.