User: Elisabeth Gasteiger

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Geneva
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http://www.uniprot.org/
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Joined:
8 years, 4 months ago
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Posts by Elisabeth Gasteiger

<prev • 192 results • page 1 of 20 • next >
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Answer: A: protein databases with GI numbers
... If you have UniProtKB identifiers for your proteins, you can try the UniProt IDmapping tool at https://www.uniprot.org/uploadlists to map from UniProt to GI numbers. However, the underlying data is based on the GI numbers that existed before NCBI obsoleted them, and the tool may therefore not be abl ...
written 3 days ago by Elisabeth Gasteiger1.7k
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Answer: A: How do I get FASTA if i have a protein ID (in 10000's) ?
... You can upload your list of identifiers to the UniProt batch retrieval tool at https://www.uniprot.org/uploadlists Please don't hesitate to contact the UniProt helpdesk if you have any additional questions. ...
written 3 days ago by Elisabeth Gasteiger1.7k
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Answer: A: What is the reference genome version of snps in humsavar variant set (2019_10)
... The reference genome for variants in humsavar.txt is GRCh38 (hg38) and is updated every release. If you want the genomic coordinates for these variants you can get them via the proteins API (https://www.ebi.ac.uk/proteins/api/doc/#/variation) and setting the sourcetype filter to ‘uniprot,mixed’; but ...
written 6 weeks ago by Elisabeth Gasteiger1.7k
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Answer: A: Is UniProt part of the browser release agreement?
... UniProt is maintained by the UniProt Consortium, which consists of the SIB Swiss Institute of Bioinformatics, EMBL-EBI and PIR (Proteome Information Resource), see https://www.uniprot.org/help/about. UniProt has been released every 4 weeks for several years, but will switch to releases every 8 week ...
written 9 weeks ago by Elisabeth Gasteiger1.7k
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Answer: A: UniProt: Change of FT and CC section in UniProtKB text format
... Just a brief reminder about this upcoming format change - if you are parsing UniProtKB text format, your code is likely to stumble over this. Please have a look at the announcements! ...
written 3 months ago by Elisabeth Gasteiger1.7k
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Comment: C: problem using UniprotR's " GetFamily_Domains() "
... Your URL seems correct in principle, and the http request is redirected to https. But it might help to use https instead of http straightaway? I'm not familiar with this R package. https://www.uniprot.org/uniprot/?query=accession:Q9HCE5&format=tab&columns=comment(DOMAIN),comment(SIMILARITY) ...
written 3 months ago by Elisabeth Gasteiger1.7k
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Comment: C: Searching NCBI database for proteins with specific C terminus
... Yes, you are right, `sequence>` anchors `sequence` to the C-terminus. Thanks for spotting my mistake! ...
written 4 months ago by Elisabeth Gasteiger1.7k
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Answer: A: Searching NCBI database for proteins with specific C terminus
... You can use ScanProsite to submit MOTIFS to scan them against a PROTEIN sequence database: https://prosite.expasy.org/scanprosite/ Select option 2 and submit the N-terminal sequence, preceeded by "<" to anchor the sequence to the N-terminus: ...
written 4 months ago by Elisabeth Gasteiger1.7k
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News: UniProt: Change of annotation topic 'Interaction'
... Not before April 22, 2020 The annotation topic ‘Interaction’ provides information about binary protein-protein interactions. This data is curated in the IntAct database and a quality-filtered subset is imported into UniProtKB at each release. In the context of improving the [functional annotation ...
xml news format interaction uniprot written 5 months ago by Elisabeth Gasteiger1.7k
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News: UniProt: Functional annotation of different gene products in UniProtKB/Swiss-Prot
... On December 18, 2019 To reduce [database redundancy][1], the UniProtKB/Swiss-Prot policy is to describe, whenever possible, all protein products that are encoded by one gene in a given species in a single entry. This includes [isoforms][2] generated by alternative promoter usage, alternative splici ...
format news uniprot xml protein parsing written 5 months ago by Elisabeth Gasteiger1.7k

Latest awards to Elisabeth Gasteiger

Supporter 5 months ago, voted at least 25 times.
Scholar 6 months ago, created an answer that has been accepted. For A: How do MetaCyc and Expasy Enzyme database contents relate to each other?
Teacher 6 months ago, created an answer with at least 3 up-votes. For A: Isoforms Missing In Uniprot Isoforms Fasta File
Appreciated 12 months ago, created a post with more than 5 votes. For C: Proteins without genes ? Is that even possible ?
Popular Question 13 months ago, created a question with more than 1,000 views. For Welcome to the new UniProt beta site!
Teacher 18 months ago, created an answer with at least 3 up-votes. For A: Isoforms Missing In Uniprot Isoforms Fasta File
Teacher 19 months ago, created an answer with at least 3 up-votes. For A: Isoforms Missing In Uniprot Isoforms Fasta File
Teacher 2.1 years ago, created an answer with at least 3 up-votes. For A: Isoforms Missing In Uniprot Isoforms Fasta File
Scholar 2.1 years ago, created an answer that has been accepted. For A: How do MetaCyc and Expasy Enzyme database contents relate to each other?
Teacher 2.1 years ago, created an answer with at least 3 up-votes. For A: Isoforms Missing In Uniprot Isoforms Fasta File
Scholar 2.2 years ago, created an answer that has been accepted. For A: How do MetaCyc and Expasy Enzyme database contents relate to each other?
Teacher 2.5 years ago, created an answer with at least 3 up-votes. For A: Isoforms Missing In Uniprot Isoforms Fasta File
Scholar 2.7 years ago, created an answer that has been accepted. For A: How do MetaCyc and Expasy Enzyme database contents relate to each other?
Teacher 3.0 years ago, created an answer with at least 3 up-votes. For A: Proteins without genes ? Is that even possible ?
Guru 3.1 years ago, received more than 100 upvotes.
Popular Question 3.1 years ago, created a question with more than 1,000 views. For Uniprotkb Accession Number Format To Be Extended To 10 Characters
Scholar 3.2 years ago, created an answer that has been accepted. For A: How do MetaCyc and Expasy Enzyme database contents relate to each other?
Centurion 3.7 years ago, created 100 posts.
Appreciated 3.7 years ago, created a post with more than 5 votes. For C: Proteins without genes ? Is that even possible ?
Teacher 3.7 years ago, created an answer with at least 3 up-votes. For A: Proteins without genes ? Is that even possible ?
Scholar 3.8 years ago, created an answer that has been accepted. For A: How do MetaCyc and Expasy Enzyme database contents relate to each other?
Teacher 3.8 years ago, created an answer with at least 3 up-votes. For A: Proteins without genes ? Is that even possible ?
Scholar 3.8 years ago, created an answer that has been accepted. For A: How do MetaCyc and Expasy Enzyme database contents relate to each other?
Teacher 4.2 years ago, created an answer with at least 3 up-votes. For A: Proteins without genes ? Is that even possible ?
Scholar 4.3 years ago, created an answer that has been accepted. For A: How do MetaCyc and Expasy Enzyme database contents relate to each other?

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