Overview of the 2012 ENCODE Rollout

From GersteinInfo

(Difference between revisions)
Jump to: navigation, search
(→Talks)
Line 1: Line 1:
-
The rollout for the ENCODE consortium (Human Genome Annotation) papers occurred in early fall 2012.  The Gerstein lab is associated with 10 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.
+
The rollout for the ENCODE consortium (Human Genome Annotation) papers occurred in early fall 2012.  This was the culmination of a decade of work in the ENCODE scaleup, the ENCODE pilot project, and modENCODE.  
-
 
+
__TOC__
__TOC__
Line 31: Line 30:
http://papers.gersteinlab.org/subject/encode
http://papers.gersteinlab.org/subject/encode
 +
== Press ==
-
* Yale website for ENCODE pilot project
+
* [http://linkstream2.gerstein.info/tag/x78qtecore/ Articles that describe the Gerstein lab's work on Rollout]
-
 
+
-
http://encode.gersteinlab.org/
+
-
 
+
-
 
+
-
== Press ==
+
* [http://linkstream2.gerstein.info/tag/prencroll0mg Articles about the ENCODE rollout]
* [http://linkstream2.gerstein.info/tag/prencroll0mg Articles about the ENCODE rollout]
* [http://blog.openhelix.eu/?p=13613 ENCODE floods the news networks…] - The OpenHelix Blog
* [http://blog.openhelix.eu/?p=13613 ENCODE floods the news networks…] - The OpenHelix Blog
-
* [http://linkstream2.gerstein.info/tag/x78qtecore/ Articles that describe the Gerstein lab's work on the project]
 
* [http://archive.gersteinlab.org/mark/out/log/2012/09.09/encoderollout-PR/P038MAD_SOC06092012038_1.pdf An article in Spanish]
* [http://archive.gersteinlab.org/mark/out/log/2012/09.09/encoderollout-PR/P038MAD_SOC06092012038_1.pdf An article in Spanish]
* [http://archive.gersteinlab.org/mark/out/log/2012/08.28/diag/encodenets--presss-release-schematic--Diagram-4-1.pdf Schematic] showing key point of ENCODE networks analysis: annotation to hairball to interpretable hierarchy
* [http://archive.gersteinlab.org/mark/out/log/2012/08.28/diag/encodenets--presss-release-schematic--Diagram-4-1.pdf Schematic] showing key point of ENCODE networks analysis: annotation to hairball to interpretable hierarchy
Line 71: Line 65:
http://papers.gersteinlab.org/papers/amsci
http://papers.gersteinlab.org/papers/amsci
 +
 +
== Misc ==
 +
 +
Yale website for ENCODE pilot project: http://encode.gersteinlab.org/

Revision as of 02:47, 30 September 2012

The rollout for the ENCODE consortium (Human Genome Annotation) papers occurred in early fall 2012. This was the culmination of a decade of work in the ENCODE scaleup, the ENCODE pilot project, and modENCODE.

Contents


Papers

  • 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


  • Other ENCODE associated papers

http://papers.gersteinlab.org/subject/otherencodepapers


  • Gencode Pseudogene work

http://papers.gersteinlab.org/subject/encode-pgenes


  • Original Pilot Grant Papers

http://papers.gersteinlab.org/subject/encode

Press

Talks

  • Slide pack on networks and pseudogenes (pdf & ppt):

http://lectures.gersteinlab.org/summary/ENCODE_Nets_as_Nextgen_Annotation_v_Partially_Active_Pgenes--20120530-i0hsb/

  • 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--20120917-i0corn/

  • Finally, here's a link to the modENCODE symposium, which has a video

containing bits of the talks above: http://lectures.gersteinlab.org/summary/Insights_from_Worm_modENCODE_Human_Applicable--i0modsymp-20120620/

Subway Map

We have created a subway map figure showing the overall collaboration in the consortium. There are now coauthor networks labeled/colored by both country and state.

http://homes.gersteinlab.org/people/rar62/subwaymap/SubwayMap8_16_12.pdf

https://docs.google.com/spreadsheet/ccc?key=0AvRr07RHaF5cdFZlOFJ1YmdOT2pUM1VEODM1bE5CRHc#gid=0

Easy to Read Introductory Papers

http://papers.gersteinlab.org/papers/sciam2

http://papers.gersteinlab.org/papers/amsci

Misc

Yale website for ENCODE pilot project: http://encode.gersteinlab.org/

Retrieved from "http://test.gersteinlab.org/Overview_of_the_2012_ENCODE_Rollout"
Personal tools