The Barnett Cluster at BIBS
Cluster is here (local access only)
Recent Developments on the Cluster:
- SeMoP: A New Computational Strategy for the
Unrestricted Search for Modified Peptides Using LC−MS/MS
Data
Baumgartner, C.; Rejtar, T.; Kullolli, M.; Akella, L. M.;
Karger, B. L. J. Proteome Res. 2008; 7(9); 4199-4208 (pubmed)
- N-Glycan Structure Annotation of Glycopeptides
Using a Linearized Glycan Structure Database (GlyDB) Ren, J.
M.; Rejtar, T.; Li, L.; Karger, B. L. J. Proteome Res. 2007;
6(8); 3162-3173. (pubmed)
CLUSTER SPECS
- HEAD NODE
- Dual Xenon 3.06GHz, 2GB memory
- HDD 4x 250 GB ATA
- SLAVE NODES
16 computers
- Dual Xenon 3.06GHz, 500MB memory
- HDD 250 GB ATA
- Dedicated 4CPU server for CPAS system
- Other features
- 1Gbit Ethernet
- NAS storage >4 TB
- Dual boot Windows/Linux
- Additional computer: Apache web server + Tomcat
- M0n0wall
firewall
Hardware provider: Atipa
Technologies
SOFTWARE
Proteomics software
- Data processing, visualization and storage
CPAS
system
Peptide
Prophet and Protein Prophet tools
- Database searching
- Sequest
(Thermo)
- 16 CPU cluster license
- Sequest Cluster Queue program by J. Jaffe (Broad
Institute)
- Sequest Browser
- BioWorks 3.1, 3.2
- Mascot
Server (MatrixScience)
- Ver. 2.0 in house single CPU license
- X!Tandem Server (www.thegpm.org)
- Trans
Proteomics Pipeline 2.9.4 Gale developed at
ISB
- PeptideProphet
- ProteinProphet
- Quantitatation
- In house developed
quantitation software based on peptide counting
- QN
quantitation of 14N/15N labeled samples
- QMEND
label-free quantutation
- msInspect
quantitation program developed at FHCRC
- LIMS
- CPAS
by FHCRC
- TPP
browser ISB
- Cluster
interface by S. Pillai (Whitehead Institute)
Other cluster related
software
- Matlab distributed computing
- PVM, MPI
MORE INFO
- BIBS: Barnett Institute
BioIT Server
- Manohar Akella
- Tomas Rejtar
Last update Oct 2008
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