ESTpass announcement

  • ESTpass server is temporarily down due to the system (H/W) and program upgrading.
  • The upgrading will take several weeks and we will announce when the service is ready.
  • While upgrading, please use other EST pipelines described below.

      [ Characteristics of EST pipelines1 ]

　

Name# Website Pre-processing programs Clustering and assembly programs Translation programs Category*
Edinburgh EST-Pipeline http://zeldia.cap.ed.ac.uk/PartiGene/index.html Phred; Cross_Match CLOBB; Phrap DECODER; ESTSCAN F
EST Analysis Pipeline (ESTAP) http://staff.vbi.vt.edu/estap/ Phred; Cross_Match D2_cluster; CAP3 BLASTX F
ESTAnnotator http://genome.dkfz-heidelberg.de/menu/biounit/dev.shtml#estannotator Phred; RepMask with UniVec data CAP3 BLASTX W
ESTIMA http://titan.biotec.uiuc.edu/ESTIMA/ Information not available BlastClust; CAP3 BLASTX F
ESTweb http://bioinfo.iq.usp.br/estweb/ Phred; Cross_Match None None F
Nematode.net http://nematode.net/ Phred; Consed Phrap BLASTX F
NemaGene 　 　 　 　 　
Clusters 　 　 　 　 　
PipeOnline http://bioinfo.okstate.edu/pipeonline/ Phred; Cross_Match Phrap BLASTX F
The TIGR Gene Indices  (TGICL) http://www.tigr.org/tdb/tgi/ SeqClean; megaBLAST CAP3; Paracel TranscriptAssembler∝ DIANA-EST; ESTscan; Framefinder F (except paracel)

1)Nagaraj, S.H., Gasser, R.B. and Ranganathan, S. (2007) A hitchhiker's guide to expressed sequence tag (EST) analysis. Briefings in bioinformatics, 8, 6-21.

#Very useful resources are shown in bold.

*F, free for academic users; W, web interface available.