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What's New:

  • Our Bacteria Genomes Purine/Keto/Coding Asymmetry Plots page has been updated and improved.
  • 8/14/2000
  • We've added quite a few genomes to our database: D. melanogaster, A. thaliana Chr 2 & 4, U. urealyticum, V. cholerae, N. meningitidis MC58, C. pneumoniae J138, C. pneumoniae AR39, H. pylori J99, and C. trachomatis MoPn.
  • We have updated our profile library, replacing many of our older profiles with ones generated with a new process using our recently expanded database. There are now 1964 profiles in the library! We are currently processing yeast, and will hopefully be adding those profiles by the end of the month (65 so far).
  • Our profile search page now retains the query sequence so that click throughs to other profiles matched display aligned with your query sequence as well.
  • We have added a search engine to our site! You can now search the BMERC web site, as well as any shared sites we host, such as the Vitamin D Receptor web site.
  • There is a new contact page which includes a map and a comments and/or mailing list subscription form.
  • The CGAn report tool now has a gateway page.
  • There is a new Vitamin D Receptor web site!
  • We have a new look! Our web site is going through some growing pains, so please bear with us. Not only are we improving (we hope!) our 'look and feel', but we've also added mod_perl to our Apache powered web server. This will mean our tools should run a bit faster, and will also allow us to offer more powerful tools as we get to know the new system. In the meantime, please let us know if you find anything that doesn't work as expected!
  • Alliance For Cellular Signaling An alliance to study g protein-mediated and related cell surface signaling systems
  • The Profile Analysis interface has been changed. It now returns the profile analysis results to your browser! The response includes an alignment graph, details of the defining set, and a detailed alignment. You can save the detailed alignment and/or the profile score matrix (as well as the response page itself as html).
  • Our Purine/Keto/Coding Asymmetry Plots page has been updated and improved.
  • P. abyssi, T. maritima, and A. pernix have all been added to our databases.
  • We have implemented a new feature on our keyword search tool. You may now choose to see alternate gene id's (such as Genbank's PID) instead of, or as well as, the annotation of the genes found in your search. You may also search with alternate gene id's. At the moment we have alternate id's for fewer than half of the gene's in our database, but we will be continuously adding to that list.
  • A comment box has been added to most of our tools to make it easier for people using our web site to ask questions or make suggestions.
  • We have completed our initial analysis for the recently released genomes Leishmania major chromosome 1 and Chlamydia pneumoniae. The new data has been added to the web server (CGAn). They have also been added to our main database, and so are accessible for blast, and are on our ftp server.
  • We have also added the download function from CGAn (see below) to the keyword server.
  • Congratulations to Tom Plasterer, who has been selected as recipient of the President's Award for his poster:
    "Phylogeny and Domain Dissection of Yeast Mitochondrial Proteins: One Endosymbiosis or Many?"
    Great Job!
  • New feature for our Cross Genome Analysis page! You can now download the report as a tab delimited text file, or the amino acid residues for the sequences in the report in fasta format.
  • Web Site updated: We have brought the initial version of our completed genome analysis resources on-line. Our blast, keyword, and cross-genome homologues search tools now all include links to a page displaying our analysis from our set of completed genomes for each match to your search. Here is an example of the display (for E. coli b2569). This is only the first major step towards the tools and resources we plan to make available over the next few months. As it is our intention to make this web site as useful to the research community as we can, your feedback is extremely important.
  • Profile Analysis: Our profile request page now accepts sequences filtered for low information content, using X as a replacement character, as from the XNU filter.
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Sean Quinlan <>
last modified: Friday, November 9, 2007 2:55:00 PM
© Sean Quinlan, Trustees of Boston University 2000