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ENCODE data in the UCSC Genome Browser: year 5 update
Kate R Rosenbloom1, Cricket A Sloan, Venkat S Malladi
1Center for Biomolecular Science and Engineering, School of Engineering, University of California Santa Cruz (UCSC), Santa Cruz, CA 95064, USA. kate@soe.ucsc.edu
Nucleic Acids Research
|November 30, 2012
Summary
The Encyclopedia of DNA Elements (ENCODE) project has cataloged more functional elements in the human and mouse genomes. This expanded dataset is publicly available for research and data mining.
Area of Science:
- Genomics
- Molecular Biology
- Bioinformatics
Background:
- The Encyclopedia of DNA Elements (ENCODE) project aims to identify all functional elements in the human and mouse genomes.
- ENCODE has been a large-scale international research effort involving multiple institutions.
Purpose of the Study:
- To report on the progress and expansion of the ENCODE project's data repertoire in human and mouse genomes.
- To highlight the availability and accessibility of ENCODE data for the scientific community.
Main Methods:
- Large-scale experimental generation of genomic data.
- Integrative analysis of diverse functional genomics datasets.
- Data curation and dissemination through public portals and browsers.
Main Results:
- Significant expansion of the ENCODE human dataset with 898 new experiments, totaling 2886.
- Growth in the ENCODE mouse dataset with 404 new experiments, reaching a total of 583.
- Major integrative analysis completed for human genome data.
Conclusions:
- The ENCODE project continues to build a comprehensive catalog of functional genomic elements.
- ENCODE data is readily accessible via the UCSC Genome Browser and ENCODE portal, facilitating research.
- The expanded datasets and analyses will advance our understanding of genome function.
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