hg38 with decoy sequences
Albert Vilella
Is there a hg38 genome reference with decoy sequences? How was it produced?
Thanks,
Albert.
Jonathan Casper
Hello Albert,
Thank you for your question about the hg38 human genome assembly. Many details about this assembly are available on our gateway page at http://genome.ucsc.edu/cgi-bin/hgGateway when you select the human/hg38 assembly. In particular, this assembly does include two versions of an analysis set that contains Epstein-Barr virus sequence as a decoy. More information is available in NCBI's README file for the analysis set at ftp://ftp.ncbi.nih.gov/genbank/genomes/Eukaryotes/vertebrates_mammals/Homo_sapiens/GRCh38/seqs_for_alignment_pipelines/README_ANALYSIS_SETS and in the parent README for the hg38 assembly at ftp://ftp.ncbi.nih.gov/genbank/genomes/Eukaryotes/vertebrates_mammals/Homo_sapiens/GRCh38/README.
You may also be interested in NCBI's Insights site, which gives more information about NCBI resources and the work underlying them. You can find the posts tagged "GRCh38" at http://ncbiinsights.ncbi.nlm.nih.gov/tag/grch38/.
I hope this is helpful. If you have any further questions, please reply to gen...@soe.ucsc.edu or genome...@soe.ucsc.edu. Questions sent to those addresses will be archived in publicly-accessible forums for the benefit of other users. If your question contains sensitive data, you may send it instead to genom...@soe.ucsc.edu.
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Jonathan Casper
UCSC Genome Bioinformatics Group
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