Encode3rollout: Difference between revisions
From GersteinInfo
Jump to navigationJump to search
No edit summary |
|||
| Line 1: | Line 1: | ||
= Gerstein Lab publications for ENCODE 3 rollout = | = Gerstein Lab publications for ENCODE 3 rollout = | ||
The ENCODE project has been extended to model organisms, particularly the mouse. Through the third phase of ENCODE (ENCODE 3) nearly a million and more than 300K cCRE annotations have been generated for human and mouse, respectively, and these have provided a valuable resource for the scientific community. | |||
* Summary http://papers.gersteinlab.org/subject/encode3rollout/index.html | * Summary http://papers.gersteinlab.org/subject/encode3rollout/index.html | ||
== Core Papers == | == Core Papers == | ||
* Perspectives on ENCODE (https://doi.org/10.1038/s41586-020-2449-8) | * Perspectives on ENCODE (https://doi.org/10.1038/s41586-020-2449-8) | ||
* | * Expanded Encyclopedias of DNA Elements in the Human and Mouse Genomes | ||
* ENCODEC http://papers.gersteinlab.org/papers/encodec/index.html | * ENCODEC http://papers.gersteinlab.org/papers/encodec/index.html (https://www.nature.com/articles/s41467-020-14743-w) | ||
* RADAR http://papers.gersteinlab.org/papers/radar/index.html | * RADAR http://papers.gersteinlab.org/papers/radar/index.html | ||
* MatchFilter http://papers.gersteinlab.org/papers/matchfilter/index.html | * MatchFilter http://papers.gersteinlab.org/papers/matchfilter/index.html (https://www.nature.com/articles/s41592-020-0907-8) | ||
* Mouse Pseudogene http://papers.gersteinlab.org/papers/mspgenes/index.html | * Mouse Pseudogene http://papers.gersteinlab.org/papers/mspgenes/index.html (https://www.nature.com/articles/s41467-020-17157-w) | ||
== | == Companion Papers == | ||
* ESPRNN http://papers.gersteinlab.org/papers/esprnn/index.html | * ESPRNN http://papers.gersteinlab.org/papers/esprnn/index.html | ||
* DINER http://papers.gersteinlab.org/papers/diner/index.html | * DINER http://papers.gersteinlab.org/papers/diner/index.html | ||
| Line 16: | Line 18: | ||
== Lectures & Images == | == Lectures & Images == | ||
http://lectures.gersteinlab.org/summary/Annotation-Variants-Dysregulation-Cancer--20190614-i0lon19+bern/ | * http://lectures.gersteinlab.org/summary/Annotation-Variants-Dysregulation-Cancer--20190614-i0lon19+bern/ | ||
== News & Media Coverage == | |||
* TBD | |||
== Figures == | == Figures & Videos == | ||
* Figures on ENCODE3 rollout [https://docs.google.com/presentation/d/1UIT5QfAr7YgNBazU7XbuBA5u9dcZTaBkFZz6HWsBdRI/edit?usp=sharing (Google Slide)] | * Figures on ENCODE3 rollout [https://docs.google.com/presentation/d/1UIT5QfAr7YgNBazU7XbuBA5u9dcZTaBkFZz6HWsBdRI/edit?usp=sharing (Google Slide)] | ||
* ENCODEC Figure Evolution [https://youtu.be/ | * ENCODEC Rewiring of Gene Regulatory Network [https://youtu.be/g3R0xv3x2Wc (YouTube link)] | ||
* ENCODEC Figure Evolution [https://youtu.be/MQMBdqO1Tzs (YouTube link)] [http://files.gersteinlab.org/public-docs/2020/06.02/ENCODEC_figure_evolution.mp4 (Source video in mp4)] | |||
Revision as of 21:14, 23 July 2020
Gerstein Lab publications for ENCODE 3 rollout
The ENCODE project has been extended to model organisms, particularly the mouse. Through the third phase of ENCODE (ENCODE 3) nearly a million and more than 300K cCRE annotations have been generated for human and mouse, respectively, and these have provided a valuable resource for the scientific community.
Core Papers
- Perspectives on ENCODE (https://doi.org/10.1038/s41586-020-2449-8)
- Expanded Encyclopedias of DNA Elements in the Human and Mouse Genomes
- ENCODEC http://papers.gersteinlab.org/papers/encodec/index.html (https://www.nature.com/articles/s41467-020-14743-w)
- RADAR http://papers.gersteinlab.org/papers/radar/index.html
- MatchFilter http://papers.gersteinlab.org/papers/matchfilter/index.html (https://www.nature.com/articles/s41592-020-0907-8)
- Mouse Pseudogene http://papers.gersteinlab.org/papers/mspgenes/index.html (https://www.nature.com/articles/s41467-020-17157-w)
Companion Papers
- ESPRNN http://papers.gersteinlab.org/papers/esprnn/index.html
- DINER http://papers.gersteinlab.org/papers/diner/index.html
- TopicNet http://papers.gersteinlab.org/papers/tfmem/index.html
Lectures & Images
News & Media Coverage
- TBD
Figures & Videos
- Figures on ENCODE3 rollout (Google Slide)
- ENCODEC Rewiring of Gene Regulatory Network (YouTube link)
- ENCODEC Figure Evolution (YouTube link) (Source video in mp4)
