User: theoharis

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theoharis20
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1 month, 3 weeks ago
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2 years, 7 months ago
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Posts by theoharis

<prev • 17 results • page 1 of 2 • next >
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Comment: C: SNP to gene
... I went to ensembl and created a custom dataset ( http://asia.ensembl.org/biomart/martview/9d8ca4c64bc4919e3547c0f19353ac38 ) ...
written 8 weeks ago by theoharis20
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SNP to gene
... What is the smallest single database I can download to enable mapping Gene (or non-gene locus) from a SNP ie rs1205 > CRP ...
snp written 8 weeks ago by theoharis20 • updated 8 days ago by shhsvri0
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pubmed server architecture
... We've downloaded the [annual baseline PubMed data][1] and are in the process of installing [BaseX][2] to serve the XML files but I was wondering how the NIH do it - what type of server database do they use? [1]: https://www.nlm.nih.gov/databases/download/pubmed_medline.html [2]: http://bas ...
xml database pubmed written 3 months ago by theoharis20 • updated 8 weeks ago by Biostar ♦♦ 20
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Comment: C: show location of amino acid corresponding to SNP in a PDB model
... that's great - thanks ...
written 3 months ago by theoharis20
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Comment: C: Calculate disease risk based on the genoytype of some SNPs
... Imputing the combined risk from multiple genotypes based on published data on individual genotype risks is a bit of a holy grail but kudos to your ambition. Consider a systems biology approach and see a recent Nature [article][1] [1]: https://www.nature.com/articles/s41540-019-0092-5 "The multi ...
written 7 months ago by theoharis20
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Comment: C: show location of amino acid corresponding to SNP in a PDB model
... What I've tried is searching on this forum and general search engines. Ive been unable to find any mention of being able to go from a SNP rs number (provided its in a coding region) to viewing the location of the corresponding amino acid in the context of an existing PDB model. This is not for the p ...
written 7 months ago by theoharis20
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show location of amino acid corresponding to SNP in a PDB model
... I would like to show the location of an amino acid corresponding to a SNP in a PDB model. This is only for visualisation purposes. ...
pdb snp written 7 months ago by theoharis20 • updated 5 months ago by Emily_Ensembl20k
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Comment: C: gene name to PDB ID - which database to download
... I am aware of this - what I was looking for is a database at _RCSB_ that contains within its PDB record the gene name that the protein is encoded by. I am presently using a POST via PHP and curl to send a XML query with a gene name from which I obtain the 4-character PDB that it is matched to. I the ...
written 7 months ago by theoharis20
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gene name to PDB ID - which database to download
... Which RCSB database/s to download to enable search for PDB ID using UniProt gene name? ...
gene pdb 3d protein structure written 7 months ago by theoharis20
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Answer: C: disease definition ontology
... found this: https://github.com/obophenotype/human-phenotype-ontology/blob/master/hp.obo which is what I was looking for ...
written 22 months ago by theoharis20

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Scholar 22 months ago, created an answer that has been accepted. For C: disease definition ontology

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