User: me

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me690
Reputation:
690
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Trusted
Location:
Switzerland
Twitter:
@jervenbolleman
Last seen:
1 week, 1 day ago
Joined:
5 years, 8 months ago
Email:
m*@jerven.eu

Posts by me

<prev • 66 results • page 1 of 7 • next >
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Where is the documentation of libhandlegraph methods and objects
... I am looking for the documentation of which methods supported by a handle. Specifically how to given a handle in a graph get it's direct edges. I can find the link to the documentation at https://github.com/vgteam/libhandlegraph. ...
vg written 7 weeks ago by me690 • updated 17 days ago by anovak70
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Comment: C: Is there a HGNC symbol or any ENSEMBLE/RefSeq ID for this UniProt : Rheumatoid
... I suspect it is a variation on [P0DOX7][1] [1]: https://www.uniprot.org/uniprot/P0DOX7 ...
written 8 months ago by me690
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Comment: C: convert protein accession number to description
... Could you describe what exactly you mean by "description" ...
written 10 months ago by me690
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Comment: C: convert protein accession number to description
... This will fail in a large number of cases as the NCBI does not have all UniProt accessions. ...
written 10 months ago by me690
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Comment: C: How to download the .dat file of the UniProt Metazoa?
... The UniProt flat file format is not the same as the EMBL format even if it is quite close. So you might run into issues if your software expects real EMBL. ...
written 11 months ago by me690
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Comment: C: Extracting Sub-cellular location from Uniprot into tabular format
... We are at SIB Swiss-Prot working on UniProt are offsite, wait until thursday ;) ...
written 17 months ago by me690
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Comment: C: How to retrieve EC numbers and KOs for proteins of several taxons?
... By chemistry is a bit limited so I need my colleague to help with stoichiometric factors and it's production week so time is hard to get. ...
written 18 months ago by me690
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Comment: C: How to retrieve EC numbers and KOs for proteins of several taxons?
... Running out of space for the Rhea part, we will make a separate Q&A ...
written 18 months ago by me690
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Answer: A: How to retrieve EC numbers and KOs for proteins of several taxons?
... 1) Is correct in the query with ?protein up:reviewed true . 2) The query in the Q. does not return anything for taxon:3702 as there are no rdfs:subClasses for Aribidopsis Thaliana, it is a leaf node. This means the entry is directly linked to that taxon instead of via it's ancestors. This i ...
written 18 months ago by me690
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Comment: C: Importing Uniprot into BioSQL using BioPython takes years (nearly literally!)
... It would probably work ok on our endpoint. But I think we got just the tool [you want, namely prosite][1]. I would also have a look at not using a database at all in that case as they will not perform optimally for your use case. [1]: https://prosite.expasy.org/scanprosite/ ...
written 22 months ago by me690

Latest awards to me

Voter 15 months ago, voted more than 100 times.
Scholar 18 months ago, created an answer that has been accepted. For A: Does UniProt have complete SNP information (from dbSNP)?
Popular Question 18 months ago, created a question with more than 1,000 views. For Image analysis specialist / scientific programmer | sciCORE University of Basel
Popular Question 21 months ago, created a question with more than 1,000 views. For Image analysis specialist / scientific programmer | sciCORE University of Basel
Teacher 22 months ago, created an answer with at least 3 up-votes. For A: Genomics is not Special. Computational Biologist are reinventing the wheel for b
Good Answer 24 months ago, created an answer that was upvoted at least 5 times. For A: Downloading dataset of PTM sites from UniProt
Teacher 24 months ago, created an answer with at least 3 up-votes. For A: Genomics is not Special. Computational Biologist are reinventing the wheel for b
Scholar 2.1 years ago, created an answer that has been accepted. For A: Does UniProt have complete SNP information (from dbSNP)?
Teacher 2.1 years ago, created an answer with at least 3 up-votes. For A: Genomics is not Special. Computational Biologist are reinventing the wheel for b
Teacher 2.2 years ago, created an answer with at least 3 up-votes. For A: Genomics is not Special. Computational Biologist are reinventing the wheel for b
Teacher 2.2 years ago, created an answer with at least 3 up-votes. For A: Get MW of a protein given a uniprot ID in R
Teacher 2.5 years ago, created an answer with at least 3 up-votes. For A: Get MW of a protein given a uniprot ID in R
Commentator 2.8 years ago, created a comment with at least 3 up-votes. For C: Genomics is not Special. Computational Biologist are reinventing the wheel for b
Scholar 3.1 years ago, created an answer that has been accepted. For A: Get MW of a protein given a uniprot ID in R
Teacher 3.1 years ago, created an answer with at least 3 up-votes. For A: Get MW of a protein given a uniprot ID in R
Supporter 3.1 years ago, voted at least 25 times.
Teacher 3.2 years ago, created an answer with at least 3 up-votes. For A: Get MW of a protein given a uniprot ID in R
Commentator 5.0 years ago, created a comment with at least 3 up-votes. For C: Genomics is not Special. Computational Biologist are reinventing the wheel for b
Teacher 5.1 years ago, created an answer with at least 3 up-votes. For A: Get MW of a protein given a uniprot ID in R
Scholar 5.1 years ago, created an answer that has been accepted. For A: Get MW of a protein given a uniprot ID in R
Scholar 5.2 years ago, created an answer that has been accepted. For A: Get MW of a protein given a uniprot ID in R
Scholar 5.3 years ago, created an answer that has been accepted. For A: Get MW of a protein given a uniprot ID in R
Teacher 5.3 years ago, created an answer with at least 3 up-votes. For A: Get MW of a protein given a uniprot ID in R

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