Similarity Matrix of Proteins
Today, protein sequence comparison is the most powerful tool in computational biology for characterizing protein sequences because of the enormous amount of information that is preserved throughout the evolutionary process. SIMAP is a public database of pre-calculated protein similarities that plays a key role in many bioinformatics methods. It contains about all currently published protein sequences and is continuously updated. The computational effort for keeping SIMAP up-to-date is constantly increasing. Please help to update SIMAP by calculating protein similarities on your computer. The computing power you donate supports manifold biological research projects that make use of SIMAP data.

About SIMAP - Similarity Matrix of Proteins

Join SIMAP - Similarity Matrix of Proteins

  1. Read our rules and policies
  2. Check the system requirements
  3. Read the introduction
  4. Create your account
  5. Download, install and run the BOINC software. When prompted, enter the URL http://boinc.bio.wzw.tum.de/boincsimap
  6. If having an old (non-SSE) CPU or running UNIX: download the SIMAP and HMMER applications

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BOINCSIMAP is a periodic project that usually has work for a few days at the beginning of each month.

Project status
Calculation of SIMAP updates is currently running.
The current workunits calculate the similarities and domains of approx. 400.000 new sequences from public databases and approx. 5 million new sequences from environmental samples imported in October 2009.
After these calculations are finished, next workunits are expected around December 1st.

Software status
PCs with SSE support (all modern PCs and notebooks):
 simap 5.10 for Windows stable
 simap 5.12 for Windows64 testing
 simap 5.11 for Linux stable
 hmmer 5.09 for Windows stable
 hmmer 5.09 for Linux stable
PowerPC/Intel based Apple computers (Mac's):
 simap 5.10 for MacOS >=10.3.9 stable
 hmmer 5.09 for MacOS >=10.3.9 stable
PCs without SSE (e.g. PII, K6, early Athlons):
 i386-simap** 5.10 for Windows stable
 i386-simap** 5.11 for Linux stable
PC/PARISC/IA64/Alpha/Sparc platforms for UNIX:
 UNIX simap** 5.10 stable
 UNIX hmmer** 5.09 stable

** These applications need manual installation.

Server status
Web server: ok
File server: ok
Database server: ok
User of the day

User profile Profile Boogyman Munster
Aloha! I am 40+ years old. I have a wonderful wife who loves me, and two wonderful children who are both on the honor roll at thier school. I...
News (Deutsche Übersetzung)

SIMAP featured in the 2010 Database Issue of Nucleic Acids Research
November 12, 2009
SIMAP in the news: a new scientific publication reports on the progress and new features of the SIMAP database. The fulltext article in the 2010 Database Issue of Nucleic Acids Research is freely available online.
New Workunits in the morning (UTC) of October 31 and Win64 simap app
October 30, 2009
New Workunits: the calculation of similarities and features of approx. 400.000 new sequences, that were imported from protein databases into SIMAP until the end of October, and approx. 5 million sequences from environmental genomes will start in the morning (UTC) of October 31. We will also test a 64bit simap application for Windows. This new app will be automatically installed on Windows64 BOINC clients.
...more

News is available as an RSS feed.

Technical News


October 31, 2009
Server downtime: a harddrive error occured on the database server. We have repaired the filesystem and the database, but had to restore the host table from backup due to corruption. Therefore all hosts having registered since Oct 31 00.05 a.m. are asked to re-register. We are sorry for this.

November 29, 2007
Server downtime: This morning we had a downtime of our servers for several hours due to technical maintenance.
...more

http://boinc.bio.wzw.tum.de/boincsimap_cgi/cgi


Copyright © 2009 Genome Oriented Bioinformatics - TU Munich