Proteins from any number of organisms are clustered using CD-HIT. But then from that data it needs vigorous processing often impossible with regular software like MS Excel. I have written it in CGI-perl which runs in a browser. It gives Pan genomic results i.e. core, accessory and unique genes. Will it be useful to a considerable number of researchers and is it worth a publication?
Hello,
To what kind of researchers is CD-HIT clustering useful to? Maybe genomics and proteomics or evolutionary biology? You can try to publish in more specific journals in those disciplines as long as the researchers who read them would benefit. I have seen the use of clustering of protein databases in proteomics (e.g. http://www.mcponline.org/content/2/12/1297.full.pdf+html). In this case clustering was useful due to redundancies in the protein database.
Thanks for the reply @Ilian. Clustering is done to identify orthologs and create gene families within limited protein data of few strains in the species. Pan genome is total gene repertoire of that species. Core is conserved gene families.
And I use output of that server as input for mine. as they do not process it further, I do.
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