GEPAS, a web-based tool for microarray data analysis and interpretation.
Gene Expression Profile Analysis Suite (GEPAS) is one of the most complete and extensively used web-based packages for microarray data analysis. During its more than 5 years of activity it has continuously been updated to keep pace with the state-of-the-art in the changing microarray data analysis arena. GEPAS offers diverse analysis options that include well established as well as novel algorithms for normalization, gene selection, class prediction, clustering and functional profiling of the experiment. New options for time-course (or dose-response) experiments, microarray-based class prediction, new clustering methods and new tests for differential expression have been included. The new pipeliner module allows automating the execution of sequential analysis steps by means of a simple but powerful graphic interface. An extensive re-engineering of GEPAS has been carried out which includes the use of web services and Web 2.0 technology features, a new user interface with persistent sessions and a new extended database of gene identifiers. GEPAS is nowadays the most quoted web tool in its field and it is extensively used by researchers of many countries and its records indicate an average usage rate of 500 experiments per day. GEPAS, is available at http://www.gepas.org.
Tárraga
Joaquín
J
Bioinformatics Department, Centro de Investigación Príncipe Felipe (CIPF), Autopista del Saler 16, E46013, Valencia, Spain.
Medina
Ignacio
I
Carbonell
José
J
Huerta-Cepas
Jaime
J
Minguez
Pablo
P
Alloza
Eva
E
Al-Shahrour
Fátima
F
Vegas-Azcárate
Susana
S
Goetz
Stefan
S
Escobar
Pablo
P
Garcia-Garcia
Francisco
F
Conesa
Ana
A
Montaner
David
D
Dopazo
Joaquín
J
D003196:Computer Graphics; D004305:Dose-Response Relationship, Drug; D020869:Gene Expression Profiling / Q000379:methods*; D020407:Internet; D007700:Kinetics; D020411:Oligonucleotide Array Sequence Analysis / Q000379:methods*; D012984:Software