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Questions tagged [orthologues]

Probable homologue for a given parental sequence, but may not have arisen by direct ancestry for example could have arisen indirectly for example through gene duplication

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1answer
42 views

Can ortholog genes have different names among different species?

To be specific, we have different lineages of E. coli. I wondered if the ortholog genes among them should all have the same name in all lineages or can they also have different names?
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1answer
35 views

Number of sing-copy genes identified by orthofinder is far less than BUSCO assessment?

Dear Orthofinder users and BUSCO users, Recently, I have assessed 30 genome annotataions using BUSCO with lineage dataset ...
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0answers
19 views

Where to find online resource to align sequences?

I have two protein sets from P.cynomolgi coming from two different geographical areas. One with n (without being too specific) and the other with q proteins.In the matlab environment I build a matrix ...
1
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1answer
58 views

How to know which ortholog database is the best for my work?

I am working on four data sets of yeast genes and one data set of mouse gene. I need the list of human orthologs of those genes. There are a lot of databases available online which is in use for this ...
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0answers
58 views

Finding orthologs [duplicate]

I am interested in finding an ortholog for a particular gene in fungi.
1
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1answer
33 views

Getting species from ensembl sequence id

I have downloaded some orthologues from ensembl website in fasta format. The problem is that it uses the ensembl sequence id as name for the sequences. I want to know the species name or any other ...
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0answers
75 views

Visualizing Ortholog and Paralog genes

I ran PorthoMCL but I could not find an explanation about the output format and I would like to visualise the results, maybe as a circos plot. PorthoMCL produces two output files: Orthologs sample ...
4
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3answers
328 views

Finding orthologues using BLAST on the NCBI database

I'm an informatics student who has essentially zero knowledge of biology. I BLASTed my gene and have 1000s of results with very low E values. Where do I go from here if I want to find orthologues?