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. 2010 Jan;38(Database issue):D620-5.
doi: 10.1093/nar/gkp961. Epub 2009 Nov 17.

ENCODE whole-genome data in the UCSC Genome Browser

Kate R Rosenbloom  1 , Timothy R Dreszer, Michael Pheasant, Galt P Barber, Laurence R Meyer, Andy Pohl, Brian J Raney, Ting Wang, Angie S Hinrichs, Ann S Zweig, Pauline A Fujita, Katrina Learned, Brooke Rhead, Kayla E Smith, Robert M Kuhn, Donna Karolchik, David Haussler, W James Kent
Affiliations

ENCODE whole-genome data in the UCSC Genome Browser

Kate R Rosenbloom et al. Nucleic Acids Res. 2010 Jan.

Abstract

The Encyclopedia of DNA Elements (ENCODE) project is an international consortium of investigators funded to analyze the human genome with the goal of producing a comprehensive catalog of functional elements. The ENCODE Data Coordination Center at The University of California, Santa Cruz (UCSC) is the primary repository for experimental results generated by ENCODE investigators. These results are captured in the UCSC Genome Bioinformatics database and download server for visualization and data mining via the UCSC Genome Browser and companion tools (Rhead et al. The UCSC Genome Browser Database: update 2010, in this issue). The ENCODE web portal at UCSC (http://encodeproject.org or http://genome.ucsc.edu/ENCODE) provides information about the ENCODE data and convenient links for access.

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Figures

Figure 1.
Figure 1.
A portion of the Genome Browser track group controls section on the hg18 human assembly, showing tracks in the ‘expression’ and ‘regulation’ track groups. The ENCODE tracks are distinguished by the NHGRI helix icon appearing in the label.
Figure 2.
Figure 2.
Example configuration and details pages for an ENCODE track, showing important navigation and informational items.
See this image and copyright information in PMC

References

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    1. Kuhn RM, Karolchik D, Zweig AS, Wang T, Smith K, Rosenbloom KR, Rhead B, Raney BJ, Pohl A, Pheasant M, et al. The UCSC Genome Browser Database: update 2009. Nucleic Acids Res. 2009;37:D755–D761. - PMC - PubMed

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