Overview of the 2012 ENCODE Rollout

From GersteinInfo

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 1 Papers 2 Press 3 Talks 4 Subway Map 5 Introductory Papers 6 Grants 7 Misc

         

Papers

• Papers related to the 2012 ENCODE rollout

• Papers related to the 2010 modENCODE rollout

• Papers related to the 2007 ENCODE pilot rollout

• Other ENCODE associated papers
• Gencode pseudogenes work

Press

• NY Times article on ENCODE
• Occupy comes to DNA: A genome for the 99 percent - Reuters article that uses Mark's comment in its title
• other key articles that describe the Gerstein lab's work on the rollout
• More articles about the ENCODE rollout and an OpenHelix Blog entry that has lots of press links
• NHGRI press release on ENCODE
• Yale Press Releases on ENCODE (written by Bill Hathaway)
  • including a schematic showing a key point of ENCODE networks analysis: annotation to hairball to interpretable hierarchy

Talks

• Slide pack on networks and pseudogenes (pdf & ppt)
• Another slide pack containing information on statistical models relating output expression to genomic inputs (pdf & ppt)
• Finally, here's a link to the modENCODE symposium, which has a video containing bits of the talks above

Subway Map

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

Introductory Papers

These introductory papers are easy to read and provide context on the ENCODE rollout.

• The ENCODE (ENCyclopedia Of DNA Elements) Project Science (2004)
• The real life of pseudogenes American Scientist (2006)
• Genomics Confounds Gene Classification American Scientist (2008)

Grants

We had 3 NIH ENCODE grants

• GENCODE (NIH-encode-pgenes)
• The ENCODE Data Analysis Center (NIH-encode-DAC)
• The ENCODE "chip center" (NIH-encode-chip)

in addition to the original pilot grant (papers, website).

Misc

Hartford Courant article about how Connecticut is aiming to become a genomics hub. Adjacent to the story was a timeline highlighting the major genomic achievements in the state.

An article in Spanish about the ENCODE rollout.