bioinformatics portal 04-04-2014d1358

2015-06-09

-[DNA Sequence Assembly Software]

List of bioinformatic tools and platforms
-[iPlant portal 04-04-2014d1354]
--other possibly similar platforms
{
    Distributed European Infrastructure for Supercomputing Applications (DEISA), integrating eleven European supercomputing centers
    Enabling Grids for E-sciencE (EGEE)
    National Research Grid Initiative (NAREGEGI) involving several supercomputer centers in Japan from 2003[8]
    Open Science Grid - a distributed computing infrastructure for scientific research
    Extreme Science and Engineering Discovery Environment (XSEDE) - the TeraGrid successor

}
-GenomeSpace
--[GenomeSpace portal 11-13-2014d1029]
--first heard about this from Josh Richer presentation about a Big Data conference 04-04-2014d1359
-DNANexus
--first heard about this from Josh Richer presentation about a Big Data conference 04-04-2014d1359
-GenomeBridge
--first heard about this from Josh Richer presentation about a Big Data conference 04-04-2014d1359
-[Galaxy project 04-21-2014d1153]
-[Plasmid Construction programs]
-GeneRunner (can reverse complement and translate sequences in all 6 frames)
-Chromas Lite (can look at chromatograms)
-MEGA6 (can perform alignments)
-[Clustal Omega] (very good alignment software; can't automatically figure out whether a sequence should be forward or reverse though)
-ApE Advanced plasmid editor (nice free simple program for annotating DNA sequences)

List of Bioinformatic Tool Websites
-NCBI
-GenomeSpace
--[GenomeSpace portal 11-13-2014d1029]
-JGI (Joint Genome Institute)
--They don't support uploading custom databases 07-01-2014d2010
-EMBL-EBI (EBI=European Bioinformatics Institute)
-[cBioportal portal 11-29-2014d1333]

Bioinformatics Forums
-[SeqAnswers portal 06-10-2014d1446]
-Biostar website

Some bioinformatics work
-[Sequence File Handler Java Code 07-16-2014d1122]

----------
see also 
-[Systems biology portal 09-25-2014d1029]
-[Biotechnology portal 09-26-2014d1419]
-[Gene promoter databases 10-09-2014d1354]
-[bioinformatic mouse resources portal 06-09-2015d0901]

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