Chan:Bioinformatics Sites: Difference between revisions
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'''Chan Lab'''<br> | |||
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[http://www-plb.ucdavis.edu/ Department of Plant Biology], [http://www.ucdavis.edu/ UC Davis] and [http://www.hhmi.org HHMI] | |||
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[[Chan|Home]] | |||
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[[Chan:Research|Research]] | |||
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[[Chan:Publications|Publications]] | |||
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[[Chan:People|People]] | |||
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[[Chan:Links|Links]] | |||
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[[Chan:Bioinformatics Sites|Bioinformatics]] | |||
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[[Chan:Contact|Contact]] | |||
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<b>Arabidopsis tools:</b><br> | |||
[http://www.arabidopsis.org/Blast/ TAIR BLAST search]<br> | [http://www.arabidopsis.org/Blast/ TAIR BLAST search]<br> | ||
[http://tigrblast.tigr.org/er-blast/index.cgi?project=ath1 TIGR Arabidopsis BLAST Search]<br> | [http://tigrblast.tigr.org/er-blast/index.cgi?project=ath1 TIGR Arabidopsis BLAST Search]<br> | ||
[http://signal.salk.edu/cgi-bin/tdnaexpress Salk Institute Genome Analysis Laboratory (SIGnaL) T-DNA Express]<br> | |||
[http://signal.salk.edu/tdnaprimers.html Primer design for T-DNAs]<br> | |||
[http://www.psb.ugent.be/gateway/index.php Dirk Inze GATEWAY vectors] | |||
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<b>Arabidopsis genome databases:</b><br> | |||
[http://www.arabidopsis.org/ TAIR (The Arabidopsis Information Resource)]<br> | |||
[http://www.arabidopsis.org/servlets/sv TAIR Seqviewer]<br> | [http://www.arabidopsis.org/servlets/sv TAIR Seqviewer]<br> | ||
[http:// | [http://atensembl.arabidopsis.info/index.html AtEnsembl]<br> | ||
[http://www.weigelworld.org/resources WeigelWorld Resources incl. AtGenExpress]<br> | [http://www.weigelworld.org/resources WeigelWorld Resources incl. AtGenExpress]<br> | ||
[http://mocklerlab.cgrb.oregonstate.edu/ Todd Mockler expression tools]<br> | |||
[http://epigenomics.mcdb.ucla.edu/DNAmeth/ Jacobsen/Ecker Arabidopsis Methylome Database]<br> | [http://epigenomics.mcdb.ucla.edu/DNAmeth/ Jacobsen/Ecker Arabidopsis Methylome Database]<br> | ||
[http://asrp.cgrb.oregonstate.edu/ Carrington Lab siRNA Database]<br> | [http://asrp.cgrb.oregonstate.edu/ Carrington Lab siRNA Database]<br> | ||
[http://mpss.udel.edu/at/ MPSS Small RNAs and Transcripts]<br> | [http://mpss.udel.edu/at/ MPSS Small RNAs and Transcripts]<br> | ||
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<br> | <b>Yeast Genome Databases:</b><br> | ||
[http://www.genedb.org/genedb/pombe/ ''S.pombe'' genome database]<br> | |||
[http://www.yeastgenome.org/ ''S.cerevisiae'' genome database]<br> | |||
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<b>Bioinformatics:</b><br> | <b>Bioinformatics:</b><br> | ||
[http://www.ncbi.nlm.nih.gov/ NCBI homepage]<br> | |||
[http://www.ncbi.nlm.nih.gov/blast/ BLAST at NCBI]<br> | [http://www.ncbi.nlm.nih.gov/blast/ BLAST at NCBI]<br> | ||
[http://www.ncbi.nlm.nih.gov/BLAST/Genome/PlantBlast.shtml BLAST Plant Genomes]<br> | [http://www.ncbi.nlm.nih.gov/BLAST/Genome/PlantBlast.shtml BLAST Plant Genomes]<br> | ||
[http://smart.embl-heidelberg.de/ SMART Protein Domains]<br> | [http://smart.embl-heidelberg.de/ SMART Protein Domains]<br> | ||
[http://www.ebi.ac.uk/clustalw/ ClustalW at EBI]<br> | [http://www.ebi.ac.uk/clustalw/ ClustalW at EBI]<br> | ||
[http://bibiserv.techfak.uni-bielefeld.de/dialign/submission.html Dialign multiple sequence alignment]<br> | |||
[http://www.sanger.ac.uk/PostGenomics/S_pombe/YOGY/ YOGY homolog search]<br> | |||
[http://inparanoid.sbc.su.se/cgi-bin/index.cgi Inparanoid homolog search]<br> | |||
[http://meme.nbcr.net/meme/intro.html MEME motif finder]<br> | |||
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<b>Experimental:</b><br> | <b>Experimental:</b><br> | ||
[http://frodo.wi.mit.edu | [http://www3.interscience.wiley.com/browse/?type=CURRENT_PROTOCOL Current Protocols]<br> | ||
[http://frodo.wi.mit.edu/primer3/ Primer3]<br> | |||
[http://www.basic.northwestern.edu/biotools/oligocalc.html Oligo Calculator]<br> | [http://www.basic.northwestern.edu/biotools/oligocalc.html Oligo Calculator]<br> | ||
[http://rebase.neb.com/rebase/rebase.html REBase at NEB]<br> | [http://rebase.neb.com/rebase/rebase.html REBase at NEB]<br> | ||
[http://helix.wustl.edu/dcaps/dcaps.html dCAPs Finder]<br> | [http://helix.wustl.edu/dcaps/dcaps.html dCAPs Finder]<br> | ||
[http://www.fourmilab.ch/rpkp/experiments/analysis/chiCalc.html Chi-square calculator]<br> | |||
[http://www.proweb.org/coddle/ CODDLE for TILLING]<br> | |||
[http://www-rcf.usc.edu/~forsburg/#info Forsburg lab S.pombe methods]<br> | |||
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<b>Literature:</b><br> | <b>Literature:</b><br> | ||
[http://www.ncbi.nlm.nih.gov/ NCBI]<br> | [http://www.ncbi.nlm.nih.gov/ NCBI]<br> | ||
[http:// | [http://newisiknowledge.com ISI Knowledge]<br> | ||
[http://scholar.google.com/ Google Scholar]<br> | [http://scholar.google.com/ Google Scholar]<br> | ||
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Latest revision as of 16:18, 28 October 2011
Chan Lab
Department of Plant Biology, UC Davis and HHMI
