User: Elisabeth Gasteiger

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Geneva
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http://www.uniprot.org/
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Joined:
5 years, 11 months ago
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Posts by Elisabeth Gasteiger

<prev • 135 results • page 1 of 14 • next >
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Comment: C: Batch Download Enzymes by EC Number
... Yes, this RESTful programmatic access is an approach we would have recommended at the UniProt helpdesk. See also - http://www.uniprot.org/help/api - http://www.uniprot.org/help/api_queries in case you hadn't noticed these documents yet. ...
written 18 days ago by Elisabeth Gasteiger1.2k
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Answer: A: How to download all the protein sequences (FASTA files) that contain a specific
... You can also try UniProt's peptide search service http://www.uniprot.org/peptidesearch, although this is using the same service as the interface you tried at U Delaware. If you have any sequences that are returned at NCBI but not by the UniProt service, it would be interesting to see examples. Data ...
written 4 weeks ago by Elisabeth Gasteiger1.2k
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Answer: A: how to extract protein info for a bunch of IDs
... If your problem is obtaining the FASTA format for many UniProtKB identifiers at one, rather than downloading it one by one, you can use the batch retrieval service at http://www.uniprot.org/uploadlists Please don't hesitate to contact the UniProt helpdesk in case of doubts. We try to monitor questi ...
written 8 weeks ago by Elisabeth Gasteiger1.2k
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Answer: A: Perl script to retrieve species name from Swissprot
... This doesn't really answer your question, but you could also have a look at the Swissknife PERL package, http://swissknife.sourceforge.net/docs/ ...
written 11 weeks ago by Elisabeth Gasteiger1.2k
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Answer: A: How to measure the quality of a predicted protein?
... Have you tried this? https://cameo3d.org/ CAMEO continuously evaluate the accuracy and reliability of predictions ...
written 12 weeks ago by Elisabeth Gasteiger1.2k
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Answer: A: Protein Sequence Analyses
... Have you tried the ProtParam tool, http://web.expasy.org/protparam ? ...
written 12 weeks ago by Elisabeth Gasteiger1.2k
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Answer: A: Using UniProt's Retrieve/ID mapping service programmatically to retrieve Taxonom
... UniProtKB column names for programmatic access are documented here: http://www.uniprot.org/help/uniprotkb_column_names You can also use the UniProtweb interface to build a query interactively, use the "Columns" button to customize your table layout, and then click on the "Share" button to see the U ...
written 3 months ago by Elisabeth Gasteiger1.2k
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Answer: A: mapping identifiers uniprot annotations of proteins
... You can upload your list of UniProtKB accession numbers to the batch retrieval service for the UniProt Konwledgebase, http://www.uniprot.org/uploadlists A video tutorial for this service is available at https://www.youtube.com/watch?v=kLdgjqWoMZc Once you have retrieved your proteins, you can clic ...
written 3 months ago by Elisabeth Gasteiger1.2k
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Comment: C: Using UniProt's Retrieve/ID mapping service programmatically
... Look out for a PERL tutorial or search the web... e.g. http://alvinalexander.com/blog/post/perl/how-process-every-file-directory-perl http://stackoverflow.com/questions/2149368/how-can-i-loop-through-files-in-a-directory-in-perl and many more ...
written 4 months ago by Elisabeth Gasteiger1.2k
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Answer: A: Using UniProt's Retrieve/ID mapping service programmatically
... Hello (are you happy with the reply you obtained from the UniProt helpdesk?) It seems like you used the python script and not the one in PERL. Here is the PERL script, modified for your use case: use strict; use warnings; use LWP::UserAgent; my $base = 'http://www.uniprot.org ...
written 4 months ago by Elisabeth Gasteiger1.2k

Latest awards to Elisabeth Gasteiger

Teacher 26 days ago, created an answer with at least 3 up-votes. For A: Isoforms Missing In Uniprot Isoforms Fasta File
Scholar 3 months ago, created an answer that has been accepted. For A: How do MetaCyc and Expasy Enzyme database contents relate to each other?
Teacher 7 months ago, created an answer with at least 3 up-votes. For A: Proteins without genes ? Is that even possible ?
Guru 8 months ago, received more than 100 upvotes.
Popular Question 8 months ago, created a question with more than 1,000 views. For Uniprotkb Accession Number Format To Be Extended To 10 Characters
Scholar 9 months ago, created an answer that has been accepted. For A: How do MetaCyc and Expasy Enzyme database contents relate to each other?
Centurion 15 months ago, created 100 posts.
Appreciated 15 months ago, created a post with more than 5 votes. For C: Proteins without genes ? Is that even possible ?
Teacher 15 months ago, created an answer with at least 3 up-votes. For A: Proteins without genes ? Is that even possible ?
Scholar 16 months ago, created an answer that has been accepted. For A: How do MetaCyc and Expasy Enzyme database contents relate to each other?
Teacher 16 months ago, created an answer with at least 3 up-votes. For A: Proteins without genes ? Is that even possible ?
Scholar 17 months ago, created an answer that has been accepted. For A: How do MetaCyc and Expasy Enzyme database contents relate to each other?
Teacher 21 months ago, created an answer with at least 3 up-votes. For A: Proteins without genes ? Is that even possible ?
Scholar 23 months ago, created an answer that has been accepted. For A: How do MetaCyc and Expasy Enzyme database contents relate to each other?
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?
Scholar 2.4 years ago, created an answer that has been accepted. For A: How do MetaCyc and Expasy Enzyme database contents relate to each other?
Appreciated 2.5 years ago, created a post with more than 5 votes. For A: Isoforms Missing In Uniprot Isoforms Fasta File
Good Answer 2.5 years ago, created an answer that was upvoted at least 5 times. For A: Isoforms Missing In Uniprot Isoforms Fasta File
Appreciated 2.5 years ago, created a post with more than 5 votes. For A: Isoforms Missing In Uniprot Isoforms Fasta File
Scholar 2.5 years ago, created an answer that has been accepted. For A: How do MetaCyc and Expasy Enzyme database contents relate to each other?
Commentator 2.5 years ago, created a comment with at least 3 up-votes. For C: Proteins without genes ? Is that even possible ?
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?
Appreciated 5.9 years ago, created a post with more than 5 votes. For A: Isoforms Missing In Uniprot Isoforms Fasta File
Good Answer 5.9 years ago, created an answer that was upvoted at least 5 times. For A: Isoforms Missing In Uniprot Isoforms Fasta File

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