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Human Genbank Ids

I am working on a sequencing run that contains contamination. I did a de novo assembly and blasted the results against NR and filtered for the best hits. I now have a list of Genbank Ids. I simply want to know which IDs are human so I pull those contigs for further analyses.

Thanks

genbank blast
• 2,653 views • link
updated by deanna.church deanna.church • written by Zev.Kronenberg Zev.Kronenberg

Hello, Downloading a list of genbank ids (limits - human) from ucsc (table browser) and using fgrep to your list helps?

• 175 views • link
written by AndreiR AndreiR

1 answer

Use e-utilities to pull the records and get the taxonomic ids. http://www.ncbi.nlm.nih.gov/books/NBK25500/

taxid 9606 == human

• 108 views • link
written by deanna.church deanna.church

bingo. I knew there was a "right/easy" way.

• 0 views • link
written by Zev.Kronenberg Zev.Kronenberg

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