User: shzhang

shzhang • 20

Reputation:: 20
Status:: New User
Location:: Australia
Last seen:: 1 week, 6 days ago
Joined:: 8 years, 7 months ago
Email:: s**********@gmail.com

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Posts by shzhang

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Answer: A: how to get database of plants in FASTA format from uniprot

... In case others need to retrieve the plant uniprot sprot database, one can download the .dat file (**uniprot_sprot_plants.dat.gz**) from [ftp://ftp.uniprot.org/pub/databases/uniprot/current_release/knowledgebase/taxonomic_divisions/][1], and then use a Python script (**swissprot2fasta.py**) from Make ...

written 20 days ago by shzhang • 20

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Comment: C: Retrieve Go Terms Using Uniprot Blasts Results (Together W/ Gene_Association.Goa

... Hi Andre, thanks for your reply. The script is very useful to split blast xml results. Maybe I didn't express my question clearly. I'm wondering what's the relationship between this script and retrieve GO ids from gene_association.goa_uniprot.gz dataset? I tried Blast2GO, it's so slow. So I'd like ...

written 7.6 years ago by shzhang • 20

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Retrieve Go Terms Using Uniprot Blasts Results (Together W/ Gene_Association.Goa_Uniprot.Gz)

... Hi all! I got some differential expressed (DE) genes from a non-model RNA-seq project and I'd like to assign some GO ids to some of these DE genes. I ran a blastx search of these DE genes against UniProtKB/Swiss-Prot using a cut-off E-value of 1e-5, and retained one best match (-max_target_seqs ...

uniprot go written 7.6 years ago by shzhang • 20 • updated 5.8 years ago by Biostar ♦♦ 20

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Popular Question 7.6 years ago, created a question with more than 1,000 views. For Retrieve Go Terms Using Uniprot Blasts Results (Together W/ Gene_Association.Goa_Uniprot.Gz)