Tag: OMA

Probing the Mammalian Mitochondrial Nucleoid

dc.contributor.author Rajala, Nina dc.date.accessioned 2015-04-29T04:47:49Z dc.date.available 2015-04-29T04:47:49Z dc.date.issued 2015 dc.identifier.isbn 978-951-44-9794-0 – dc.identifier.uri trepo.tuni.fi/handle/10024/96996 dc.description.abstract Mitokondrioiden tärkein tehtävä on energian tuottaminen. Mitokondriot ovat solujen hengityskeskuksia, joissa 90 % tarvitsemastamme energiasta tuotetaan oksidatiivisen fosforylaation kautta elektroninsiirtoketjua apuna käyttäen. Kun mitokondriot eivät toimi kunnolla, tuloksena voi olla energiakriisi, erityisesti lihaksissa, aivoissa ja…

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Efficient way of mapping UniProt IDs to representative UniRef90 IDs?

You can do this directly on UniProt: www.uniprot.org/uploadlists/ Just paste or upload your list of UniProt IDs, and select “UniProtKB AC/ID” in the “From” field and “UniParc” in the “To” field I’ve also written a script, pasted below, that can do this with some useful options: $ uniprot_map.pl -h uniprot_map.pl…

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OMA speed

OMA speed 0 Is there any way to speed up the execution without using parallel processes? The parallel execution does not run well on the system I access. My goal is to compute orthologs between two species, one having 55,725 transcripts, and the other 91.249. It is taking several weeks….

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HOG without numbering in the genome of the ancestor reconstructed using the pyHAM

Dear colleagues, Recently I successfully complete OMA standalone run and now I am trying to analyze results using the pyHam python package. The main task for me is to reconstruct the genome of the ancestor of the analyzed species. After executing the following commands, I get information that in the…

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