encodeproject.org

ENCODE: Encyclopedia of DNA Elements – ENCODE

ENCODE: Encyclopedia of DNA Elements. The ENCODE (Encyclopedia of DNA Elements) Consortium is an international collaboration of research groups funded by the National Human Genome Research Institute (NHGRI). The goal of ENCODE is to build a comprehensive parts list of functional elements in the human genome, including elements that act at the protein and RNA levels, and regulatory elements that control cells and circumstances in which a gene is active. News More ENCODE news.

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CONTACTS AT ENCODEPROJECT.ORG

Cherry Lab, Stanford Univ

Cherry Lab, Stanford Univ

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Cherry Lab, Stanford Univ

Cherry Lab, Stanford Univ

Dept Geneti●●●●●●●●●●● University

Sta●●●ord , CA, 94305-5120

US

1.65●●●●7541

1.65●●●●1534

ch●●●●@stanford.edu

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Cherry Lab, Stanford Univ

Cherry Lab, Stanford Univ

Dept Geneti●●●●●●●●●●● University

Sta●●●ord , CA, 94305-5120

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ENCODE: Encyclopedia of DNA Elements – ENCODE | encodeproject.org Reviews

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ENCODE: Encyclopedia of DNA Elements. The ENCODE (Encyclopedia of DNA Elements) Consortium is an international collaboration of research groups funded by the National Human Genome Research Institute (NHGRI). The goal of ENCODE is to build a comprehensive parts list of functional elements in the human genome, including elements that act at the protein and RNA levels, and regulatory elements that control cells and circumstances in which a gene is active. News More ENCODE news.

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2 encode

3 data

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6 reference epigenomes

7 publications

8 encyclopedia

9 materials and methods

10 antibodies

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ENCODE: Encyclopedia of DNA Elements – ENCODE | encodeproject.org Reviews

https://encodeproject.org

ENCODE: Encyclopedia of DNA Elements. The ENCODE (Encyclopedia of DNA Elements) Consortium is an international collaboration of research groups funded by the National Human Genome Research Institute (NHGRI). The goal of ENCODE is to build a comprehensive parts list of functional elements in the human genome, including elements that act at the protein and RNA levels, and regulatory elements that control cells and circumstances in which a gene is active. News More ENCODE news.

INTERNAL PAGES

encodeproject.org

1

Batch Download – ENCODE

https://www.encodeproject.org/help/batch-download

Batch download of files is available from a search result. When a set of experiments have been selected, click on the Download button to download a files.txt. File that contains a list of URLs. The first URL in files.txt is to metadata.tsv. A file described below that contains all the experimental metadata for the files resulting from the search. The remaining URLs in files.txt are links that will download each ENCFF accessioned file. Xargs -n 1 curl -O -L files.txt. The first line in the files.txt.

2

ENCODE 2015: Research Applications and Users Meeting – ENCODE

https://www.encodeproject.org/tutorials/encode-users-meeting-2015

ENCODE 2015: Research Applications and Users Meeting. On June 29 - July 1, 2015, the National Human Genome Research Institute (NHGRI) sponsored the ENCODE 2015: Research Applications and Users Meeting. At the Bolger Center in Potomac, MD. Feedback from participants was overwhelmingly positive, and discussions are underway for planning a second Users Meeting in 2016 on the west coast. Hands-on workshops on learning to navigate, analyze, and integrate ENCODE and mouseENCODE data into your research. Univers...

3

Data Processing Pipelines – ENCODE

https://www.encodeproject.org/pipelines

All data processing pipeline code is available from the ENCODE DCC github. And the pipelines can be run interactively from a featured project on the DNAnexus cloud-computing platform. To learn more, select a specific pipeline. Links to archived pipelines are listed on each pipeline page. RNA-seq measure RNA abundance, and RNA-seq data can be interpreted in terms of transcriptional activity and RNA stability. RNA-seq experiments contribute to our understanding of how RNA-based mechanisms impact gene r...

4

ENCODE: Encyclopedia of DNA Elements – ENCODE

https://www.encodeproject.org/ENCODE

ENCODE: Encyclopedia of DNA Elements. The ENCODE (Encyclopedia of DNA Elements) Consortium is an international collaboration of research groups funded by the National Human Genome Research Institute (NHGRI). The goal of ENCODE is to build a comprehensive parts list of functional elements in the human genome, including elements that act at the protein and RNA levels, and regulatory elements that control cells and circumstances in which a gene is active. To find and download ENCODE Consortium data:. ENCODE...

5

Comparative modENCODE/ENCODE

https://www.encodeproject.org/comparative

Data are available for the following papers of the ENCODE/modENCODE publication release. Comparative analysis of metazoan chromatin organization. Nature 512:449 452, 2014. Comparative analysis of regulatory information and circuits across distant species. Nature 512:453 456, 2014. Comparative analysis of the transcriptome across distant species. Nature 512:445 448, 2014. Members of the consortium have published several companion papers related to the three studies above. Nature 512:393 399, 2014. Chen et...

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genome.plantregulome.org

UCSC Genome Browser: News Archives

http://genome.plantregulome.org/goldenPath/newsarch.html

19 December 2014 - New Cow (bosTau8) Assembly Now Available in the Genome Browser. We are pleased to announce the release of a Genome Browser for the June 2014 assembly of cow, Bos taurus. Bos taurus UMD 3.1.1, UCSC version bosTau8). This updated cow assembly was provided by the UMD Center for Bioinformatics and Computational Biology. Bulk downloads of the sequence and annotation data are available via the Genome Browser FTP server. Page These data have specific conditions for use. Dm6) browser annotatio...

yuelab.org

Feng Yue lab at Penn State!

http://www.yuelab.org/index.html

Welcome to Yue Lab at Penn State. Dr Yue is a tenure-track assistant professor in the Dept. of Biochemistry and Molecular Biology. At Penn State School of Medicine and also serves as the director of Bioinformatics division for the Penn State Institute for Personalized Medicine (IPM). He has been an active member of several NIH funded consortia, including the ENCODE. Labmember Jie Xu, Sriranga Iyyanki, and Lin An all passed their Ph.D. Candidacy Exam. Congratulations! The main purpose of this website is t...

grch37.ensembl.org

ENCODE data in Ensembl

http://grch37.ensembl.org/info/website/tutorials/encode.html

Compare genes across species. Variants for my gene. ENCODE data in Ensembl. The GRCh37 assembly in Ensembl. Use my own data. ENCODE data in Ensembl. ENCODE data in Ensembl. ENCODE data in Ensembl. How to view ENCODE data. Multiple data tracks relating to gene regulation, based on ENCODE data can be turned on in the ' region in detail. Page on our GRCh37 archive for human and mouse. A full tutorial on how to use these tracks. Is available on the EMBL-EBI website. Link to add ENCODE integrative analysis hub.

inf-technology-news.blogspot.com

Information Technology News: April 2011

http://inf-technology-news.blogspot.com/2011_04_01_archive.html

Thursday, April 28, 2011. Good Eggs: Nanomagnets Offer Food for Thought About Computer Memories. To confirm localized magnetic effects andcolor the eggs, scientists made simulations of various magnets using NIST's object-oriented micromagnetic framework (OOMMF). Lighter colors indicate stronger frequency signals. For example, intentional patterning of egg-like distortions into spinRAM memory elements may facilitate more reliable switching, says NIST physicist Tom Silva, an author of the new paper. In hor...

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ENCODE: Encyclopedia of DNA Elements – ENCODE

ENCODE: Encyclopedia of DNA Elements. The ENCODE (Encyclopedia of DNA Elements) Consortium is an international collaboration of research groups funded by the National Human Genome Research Institute (NHGRI). The goal of ENCODE is to build a comprehensive parts list of functional elements in the human genome, including elements that act at the protein and RNA levels, and regulatory elements that control cells and circumstances in which a gene is active. News More ENCODE news.

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