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. 300,000 new sequences from public databases imported in August 2010 as well as the similarities of remaining approx. 1 million environmental sequences imported from CAMERA metagenomes in July and August. After these calculations are finished, next workunits are expected on October 1st.

Software status
PCs with SSE support (all modern PCs and notebooks):
 simap 5.10 for Windows stable
 simap 5.12 for Windows64 stable
 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 [BOINC@Poland]emik
Hello My name is Emilian and I live in the small town Kudowa-Zdroj. I am the member of the the best Polish team...
News (Deutsche Übersetzung)

New workunits in September
In September we will crunch three series of workunits: parts 5 and 6 of the large series containing sequences from new metagenomes imported in July/August. Thereafter approx. 300,000 workunits containing new regular sequences imported in August will be calculated. Finally, there will be the very last 500,000 workunits containing sequences from new metagenomes imported in July/August. Altogether we expect to have work for about 3 weeks in September. 5 Sep 2010 10:09:13 UTC · Comment

New workunits approx. until end of August
Since today afternoon we are distributing the last series of workunits containing new environmental sequences from CAMERA metagenomes. Probably these will need until the end of August to be calculated, so we will just continue after them with the regular workunits of September.

Thanks to all of you for crunching this large update!
Best,
Thomas 18 Aug 2010 14:47:16 UTC · Comment

Power outage on July 21
The main power cable has been damaged due to construction work around our building. This caused a power outage of several hours. Power has been restored and the servers are now running again.

Sorry for the interruption, best regards,
Thomas 21 Jul 2010 19:22:27 UTC · Comment

New Workunits in the evening (UTC) of July 1
New workunits: the calculation of similarities and features of approx. 170,000 new sequences, that were imported from protein databases and metagenomes into SIMAP until the end of June, will start in the evening (UTC) of July 1. 30 Jun 2010 8:31:56 UTC · Comment

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