Overview of the 2012 ENCODE Rollout
From GersteinInfo
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| + | The rollout for the ENCODE consortium (Human Genome Annotation) papers occurred in early fall 2012. The Gerstein lab is associated with 9 papers. The 3 Nature submissions comprise >35 formatted journal pages in total. In addition to the core ENCODE papers, the Gerstein lab contributed a small comment on the “big data” aspect of ENCODE, which appeared in a subsequent issue of Nature, and a review on the machine-learning aspects of ENCODE which will come out in Genome Biology. | ||
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== Papers == | == Papers == | ||
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http://papers.gersteinlab.org/subject/encode | http://papers.gersteinlab.org/subject/encode | ||
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| + | * Yale website for ENCODE pilot project | ||
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| + | http://encode.gersteinlab.org/ | ||
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== Press == | == Press == | ||
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containing bits of the talks above: | containing bits of the talks above: | ||
http://www.genome.gov/27549319 | http://www.genome.gov/27549319 | ||
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== Subway Map == | == Subway Map == | ||
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https://docs.google.com/spreadsheet/ccc?key=0AvRr07RHaF5cdFZlOFJ1YmdOT2pUM1VEODM1bE5CRHc#gid=0 | https://docs.google.com/spreadsheet/ccc?key=0AvRr07RHaF5cdFZlOFJ1YmdOT2pUM1VEODM1bE5CRHc#gid=0 | ||
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| + | == Easy to Read Introductory Papers == | ||
http://papers.gersteinlab.org/papers/sciam2 | http://papers.gersteinlab.org/papers/sciam2 | ||
http://papers.gersteinlab.org/papers/amsci | http://papers.gersteinlab.org/papers/amsci | ||
Revision as of 19:01, 28 September 2012
The rollout for the ENCODE consortium (Human Genome Annotation) papers occurred in early fall 2012. The Gerstein lab is associated with 9 papers. The 3 Nature submissions comprise >35 formatted journal pages in total. In addition to the core ENCODE papers, the Gerstein lab contributed a small comment on the “big data” aspect of ENCODE, which appeared in a subsequent issue of Nature, and a review on the machine-learning aspects of ENCODE which will come out in Genome Biology.
Contents |
Papers
- Other ENCODE associated papers
http://papers.gersteinlab.org/subject/otherencodepapers
- Papers related to the actual ENCODE rollout
http://papers.gersteinlab.org/subject/encoderollout
- Listing of ENCODE and modENCODE "rollout" papers from the ENCODE pilot and modENCODE rollouts
http://papers.gersteinlab.org/subject/encodecore
- Gencode Pseudogene work
http://papers.gersteinlab.org/subject/encode-pgenes
- Original Pilot Grant Papers
http://papers.gersteinlab.org/subject/encode
- Yale website for ENCODE pilot project
http://encode.gersteinlab.org/
Press
- Articles about the ENCODE rollout
http://linkstream2.gerstein.info/tag/prencroll0mg
- Articles that describe the Gerstein lab's work on the project :
http://linkstream2.gerstein.info/tag/x78qtecore/
- An article in Spanish :
http://archive.gersteinlab.org/mark/out/log/2012/09.09/encoderollout-PR/P038MAD_SOC06092012038_1.pdf
- Schematic showing key point of ENCODE networks analysis:
annotation to hairball to interpretable hierarchy
- 3 Yale Press Releases on ENCODE (written by Bill Hathaway)
https://docs.google.com/document/d/1q6EYtxN5Ym_0OBwrSm6EtLELfpIG9xmGd38-5O4hAR8/edit#
Talks
2 * Slide pack on networks and pseudogenes (pdf & ppt): http://lectures.gersteinlab.org/summary/ENCODE_Nets_as_Nextgen_Annotation_v_Partially_Active_Pgenes--20120530-i0hsb/
3 * Another slide pack containing information on statistical models relating output expression to genomic inputs (pdf & ppt): http://lectures.gersteinlab.org/summary/ENCODE_Nets_as_Nextgen_Annotation_v_HM_TF_Models_For_GeneExpr--20120604-i0ucla/
4 * Finally, here's a link to the modENCODE symposium, which has a video containing bits of the talks above: http://www.genome.gov/27549319
Subway Map
We have created another iteration of the subway map figures using the most recent data located in the google docs. There are now coauthor networks labeled/colored by both country and state.
The new figures are located here: http://homes.gersteinlab.org/people/rar62/subwaymap/SubwayMap8_16_12.pdf
https://docs.google.com/spreadsheet/ccc?key=0AvRr07RHaF5cdFZlOFJ1YmdOT2pUM1VEODM1bE5CRHc#gid=0
