BOINC@AUSTRALIA FORUM

Retired BOINC Projects => SIMAP => Topic started by: kashi on April 28, 2012, 06:07:21 PM

Title: Project News
Post by: kashi on April 28, 2012, 06:07:21 PM
What's new?

SIMAP facilitates eggNOG (http://eggnog.embl.de/version_3.0/). Genome comparisons are a very powerful and versatile tool in modern molecular biology, as thousands of genomes have been sequenced during the last years. If protein sequences serve as items in comparative genomes, they are typically organized into orthologous groups of evolutionary directly related proteins. Calculations of such groups are very demanding and rely on large-scale sequence similarity data. One of the largest and most prominent databases of orthologous groups is eggNOG. The latest version 3.0 of eggNOG is based on protein similarity data from SIMAP. Our data has replaced time-consuming BLAST searches and provides an increased sensitivity compared to BLAST. We will be happy to continue the fruitful collaboration between eggNOG and SIMAP – which is a typical example how SIMAP facilitates modern biological research. A paper describing eggNOG 3.0 has been published in the 2012 Database Issue of the journal Nucleic Acids Research (Fulltext (http://nar.oxfordjournals.org/content/40/D1/D284.long)).

If you check out eggNOG and wish to view proteins in tree format then you can go to Interactive Tree Of Life (ITOL) (http://itol.embl.de/index.shtml) which is an online tool for the display and manipulation of phylogenetic trees. It provides most of the features available in other tree viewers, and offers a novel circular tree layout, which makes it easy to visualize mid-sized trees (up to several thousand leaves).

I hadn't seen this on the SIMAP webpage before, just thought some may be interested. It has helped motivate me to do some more SIMAP crunching when work is available in a few days. Badges add some interest and incentive, but not all good projects have badges.;D
Title: Re: Project News
Post by: Dingo on July 02, 2012, 03:42:17 PM
Simap has work at the moment for those that like that project   http://boincsimap.org/boincsimap/server_status.php
Title: Re: Project News
Post by: WikiWill on July 02, 2012, 08:48:32 PM
Quote from: Dingo on July 02, 2012, 03:42:17 PM
Simap has work at the moment for those that like that project   http://boincsimap.org/boincsimap/server_status.php

I'm all over it like brandy syrup on figs!
Title: Re: Project News
Post by: JugNut on July 02, 2012, 08:58:07 PM
Me too.. (But without the figs)  ;D
Title: Re: Project News
Post by: tazzduke on July 02, 2012, 10:43:05 PM
Sorry but overloaded with other work at the moment, will give this batch a miss.  Maybe the next SIMAP batch we can do a mini aa is 7 day run.

Regards
Tazzduke
Title: Re: Project News
Post by: WikiWill on July 30, 2012, 10:28:48 AM
Hi SIMAP team, the next batch of work is being prepared for release this afternoon (0600 UTC approx) and should last a week.

We're currently ranked 21st. All help gratefully received in our assault on the Dutch Power Cows  v:
Title: Re: Project News
Post by: Dingo on July 30, 2012, 01:25:57 PM
Always ready for Simap I have it set to 1000% so it should get and run most times there is work.
Title: Re: Project News
Post by: JugNut on July 30, 2012, 03:17:45 PM
I'll be on it like white on rice.  :thumbsup:

Thanks 4 the heads up W.W.
Title: Re: Project News
Post by: Scott T on July 30, 2012, 06:19:22 PM
Similar to Dingo, I've got Simap (and LHC) set to a much higher priority than everything else so should crunch a fair slab as well - hoping enough to break a milestone this month around :)
Title: Re: Project News
Post by: LawryB on July 30, 2012, 09:37:11 PM

On it tomorrow
Title: Re: Project News
Post by: JugNut on August 16, 2012, 02:33:39 AM
Mid month SIMAP's get em' while there hot.....
Title: Re: Project News
Post by: DougB on August 16, 2012, 08:30:02 PM
Their status currently reads there is 52 days work...that's huge for people who follow this project...

:dance2:
Title: Re: Project News
Post by: WikiWill on August 16, 2012, 08:49:36 PM
Already down to 50 43 days, but still a good feed.

From their forum news: "We will start with a batch of workunits that will need about 2 weeks for its calculation. Further batches will follow after the regular workunits in the beginning of September."
:cheer1:
Title: Re: Project News
Post by: Dingo on October 02, 2012, 12:43:20 AM
Simap has about 35 days of work available.  There is also a BoincStats Challenge running that we are participating in.   :dance2:
Title: Re: Project News
Post by: DougB on October 02, 2012, 01:26:13 AM
I'm on it... biggrin
Title: Re: Project News
Post by: LawryB on October 02, 2012, 07:07:56 AM

Me too  :dance:
Title: Re: Project News
Post by: WikiWill on August 26, 2013, 09:42:35 PM
Is there a general issue with the site, or just me?  I get a 404 error on any page at http://boincsimap.org/boincsimap/
Title: Re: Project News
Post by: LawryB on August 26, 2013, 09:48:30 PM


Not just you WW, same deal here
Title: Re: Project News
Post by: WikiWill on August 27, 2013, 08:56:53 PM
According to their site it was an 'unexpected storage configuration problem' - I sympathise!
http://boincsimap.org/boincsimap/forum_thread.php?id=74