Tuesday, September 18, 2007

Nature Precedings


Nature precedings is pre-publication server launched by Nature a few months ago. To quote from the website:
Nature Precedings is a place for researchers to share pre-publication research, unpublished manuscripts, presentations, posters, white papers, technical papers, supplementary findings, and other scientific documents. Submissions are screened by our professional curation team for relevance and quality, but are not subjected to peer review. We welcome high-quality contributions from biology, medicine (except clinical trials), chemistry and the earth sciences.

Unable to resist, I've uploaded three manuscripts previously languishing as "Technical Reports" on my old server. The three I uploaded now have bright shiny DOIs, which may take a little while to register with CrossRef. The manuscripts are:

Treemap Versus BPA (Again): A Response to Dowling doi:10.1038/npre.2007.1030.1 (a response to a critique of my ancient TreeMap program).

On The Dangers Of Aligning RNA Sequences Using "Conserved" Motifs doi:10.1038/npre.2007.1029.1 (a short note on Hickson et al.'s (2000) use of conserved motifs to evaulate RNA alignment).

Towards a Taxonomically Intelligent Phylogenetic Database doi:10.1038/npre.2007.1028.1 (a paper written for DBiBD 2005, basically a rewrite of a grant proposal).

All three are under the evolution and ecology subject heading. Visitors to Nature precedings can comment on papers, and vote for which ones they like. The fact that I've uploaded some manuscripts probably says nothing good about me, but I'll be checking every so often to see if anybody has anything to say...

3 comments:

Anonymous said...

What's wrong with:
Page, R. D. M. 1998. GeneTree: comparing gene and species
phylogenies using reconciled trees. Bioinformatics Applications
Note 41: 819–820.

This paper should be better known.

Rod Page said...

The method implemented in GeneTree (paper available free from here) is rather neglected, I agree. Once nice use of this sort of approach is Mike Sanderson and Michelle McMahon's BMC Evolutionary Biology paper (doi:10.1186/1471-2148-7-S1-S3).

The limitation of the method implemented in GeneTree (as opposed to the software itself, which is ancient) is that it doesn't handle lateral gene transfer.

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