SPLASH: systematic proteomics laboratory analysis and storage hub.
In the field of proteomics, the increasing difficulty to unify the data format, due to the different platforms/instrumentation and laboratory documentation systems, greatly hinders experimental data verification, exchange, and comparison. Therefore, it is essential to establish standard formats for every necessary aspect of proteomics data. One of the recently published data models is the proteomics experiment data repository [Taylor, C. F., Paton, N. W., Garwood, K. L., Kirby, P. D. et al., Nat. Biotechnol. 2003, 21, 247-254]. Compliant with this format, we developed the systematic proteomics laboratory analysis and storage hub (SPLASH) database system as an informatics infrastructure to support proteomics studies. It consists of three modules and provides proteomics researchers a common platform to store, manage, search, analyze, and exchange their data. (i) Data maintenance includes experimental data entry and update, uploading of experimental results in batch mode, and data exchange in the original PEDRo format. (ii) The data search module provides several means to search the database, to view either the protein information or the differential expression display by clicking on a gel image. (iii) The data mining module contains tools that perform biochemical pathway, statistics-associated gene ontology, and other comparative analyses for all the sample sets to interpret its biological meaning. These features make SPLASH a practical and powerful tool for the proteomics community.
Lo
Siaw Ling
SL
Department of Biological Sciences, Faculty of Science, National University of Singapore, Singapore.
You
Tao
T
Lin
Qingsong
Q
Joshi
Shashikant B
SB
Chung
Maxey C M
MC
Hew
Choy Leong
CL
D003628:Database Management Systems; D016208:Databases, Factual; D030562:Databases, Protein; D016247:Information Storage and Retrieval / Q000379:methods*; D013058:Mass Spectrometry; D040901:Proteomics; D015203:Reproducibility of Results; D012984:Software; D014584:User-Computer Interface