User: me
me • 690
- Reputation:
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- Switzerland
- Twitter:
- @jervenbolleman
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- 4 years, 10 months ago
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Posts by me
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... Could you describe what exactly you mean by "description" ...
written 4 weeks ago by
me • 690
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... This will fail in a large number of cases as the NCBI does not have all UniProt accessions. ...
written 4 weeks ago by
me • 690
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135
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... 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 5 weeks ago by
me • 690
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2
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445
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... We are at SIB Swiss-Prot working on UniProt are offsite, wait until thursday ;) ...
written 7 months ago by
me • 690
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... 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 8 months ago by
me • 690
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... Running out of space for the Rhea part, we will make a separate Q&A ...
written 8 months ago by
me • 690
2
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1
answer
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... 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 8 months ago by
me • 690
0
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... 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 12 months ago by
me • 690
2
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... This is a comment because it is not at all answering your question. Instead of building your own database why not use our SPARQL.uniprot.org. This is likely to be better modelled than biosql is for the UniProt datamodel.
Otherwise I suspect your hardware is not at the level that one would use for ...
written 12 months ago by
me • 690
1
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1
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... There are two issues with this query. The first is that in the PREFIX declaration there is an s missing at the end of proteome
i.e.
PREFIX proteome:
should be
PREFIX proteome:
The second one is more frustrating and is that the character '#' used in the fragment IRI is also seen as the ...
written 12 months ago by
me • 690
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For A: Does UniProt have complete SNP information (from dbSNP)?
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For Image analysis specialist / scientific programmer | sciCORE University of Basel
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12 months ago,
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For Image analysis specialist / scientific programmer | sciCORE University of Basel
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For A: Genomics is not Special. Computational Biologist are reinventing the wheel for b
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For A: Genomics is not Special. Computational Biologist are reinventing the wheel for b
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For A: Downloading dataset of PTM sites from UniProt
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14 months ago,
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For A: Genomics is not Special. Computational Biologist are reinventing the wheel for b
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15 months ago,
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For A: Does UniProt have complete SNP information (from dbSNP)?
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16 months ago,
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For A: Genomics is not Special. Computational Biologist are reinventing the wheel for b
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16 months ago,
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For A: Genomics is not Special. Computational Biologist are reinventing the wheel for b
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16 months ago,
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For A: Get MW of a protein given a uniprot ID in R
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20 months ago,
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For A: Get MW of a protein given a uniprot ID in R
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For C: Genomics is not Special. Computational Biologist are reinventing the wheel for b
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For A: Get MW of a protein given a uniprot ID in R
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For A: Get MW of a protein given a uniprot ID in R
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For A: Get MW of a protein given a uniprot ID in R
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For A: Genomics is not Special. Computational Biologist are reinventing the wheel for b
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For C: Genomics is not Special. Computational Biologist are reinventing the wheel for b
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For A: Get MW of a protein given a uniprot ID in R
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For A: Get MW of a protein given a uniprot ID in R
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For A: Get MW of a protein given a uniprot ID in R
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4.5 years ago,
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For A: Get MW of a protein given a uniprot ID in R
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