User: Solowars

gravatar for Solowars
Solowars40
Reputation:
40
Status:
New User
Location:
Brazil/Porto Alegre/UFRGS
Last seen:
5 days, 13 hours ago
Joined:
11 months, 3 weeks ago
Email:
g*******@gmail.com

Posts by Solowars

<prev • 22 results • page 1 of 3 • next >
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Comment: C: Deprecated identifiers in Ensembl?
... Thanks a lot for your help! ...
written 7 weeks ago by Solowars40
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Comment: C: Deprecated identifiers in Ensembl?
... Thanks a lot for your help! Best ...
written 7 weeks ago by Solowars40
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Comment: C: Deprecated identifiers in Ensembl?
... Sure! Please consider these examples: ENSMICG00000011090 ENSMICG00000011081 ENSMICG00000011093 ENSDORG00000003549 ...
written 7 weeks ago by Solowars40
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Deprecated identifiers in Ensembl?
... Dear community, I am working with a gene family across a wide range of chordate species, and one of the steps was to retrieve potential homologs from Ensembl. Interestingly, there were some of these genes that had their ID deprecated in newer versions of Ensembl. However, annotated sequences from t ...
orthologs ensembl annotation written 7 weeks ago by Solowars40 • updated 7 weeks ago by Emily_Ensembl16k
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Comment: C: Best way to identify proteins within a family?
... Well, let's say that we have a big receptor family, like GPCRs, which contains receptors for a broad array of neurotransmitters. However, I'm interested in a specific subgroup (receptors of a specific neurotransmitter), and these receptors don't have a specific domain characterizing them, other than ...
written 6 months ago by Solowars40
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Best way to identify proteins within a family?
... Dear community, I'm interested in retrieving deep homologies for a number of genes that belong to a protein superfamily (let's say, GPCR). For it, one of the strategies was to perform HMMER searches, using an alignment or a HMM created from an aligment. For what I have read, many people use specif ...
domain orthologs oma homology hmmer written 6 months ago by Solowars40
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Comment: C: UBERON. A way to retrieve relationships?
... Hi Kevin, tudo bom? I was thinking of an automatic way to extract the hierarchy of a list of identifiers. I learnt that for single identifiers, such information can be retrieved via OLS site, but I'm afraid that would be unsuitable for a kinda large number of ids. Contacting the UBERON team seems li ...
written 7 months ago by Solowars40
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UBERON. A way to retrieve relationships?
... Dear community, I have gene expression data from several animals, which I'd like to compare. These data have UBERON identifiers for the tissues in which they're expressed, however, many tissues belong to different (yet, potentially) comparable anatomical entities (e.g. "kidney" and "adult mammalia ...
gene expression homology uberon go ontology written 7 months ago by Solowars40
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Comment: C: Help using data.frame in R
... Okay, can you provide a brief example of your data (i.e. 3-4 entries you'd like to combine) so I can help you build the script? I'm sure there's a way to do it in R, but as I said before, it's probably easier using Unix tools, if you have a computer with Linux/Mac at hand. ...
written 7 months ago by Solowars40
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Comment: C: How to deal with one-to-many orthologies in PAML
... Thank you so much for your insightful answer. I've been thinking about this issue for some time, and it's good to know that I'm by no means alone. Again, thanks! ...
written 7 months ago by Solowars40

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Supporter 7 months ago, voted at least 25 times.

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