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Google advanced search. |
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Genomics |
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DBCAT -
Encyclopedia of Life project
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Genomics Glossaries,
Y.F. Leung's Functional Genomics Portal,
Pedro's Biomolecular Research Tools,
Omegabase Sequences and more - portals for all things biological,
-Omes Glossary.
EBI Genome Monitor,
EMGL,
Genamics,
GOLD,
Prominent Organisms at NCBI,
ORNL,
TIGR Microbial Database - indexes of genome sequences.
Nature Genomics Gateway.
E. coli:
COG at NCBI,
Colibri Web Server,
ECDC E. coli Database Collection (Gießen),
Ecogene (Kenn Rudd),
Ecocyc,
Genobase (Nara, Japan),
Genome Navigator (Dahlem),
IECA Portal -
MIPS/PEDANT.
M. tuberculosis:
H37Rv (Sanger),
MIPS/PEDANT,
Tuberculist.
S. cerevisiae:
MIPS/PEDANT,
Stanford Genome Database,
MIPS CYGD,
Yale Genome Analysis Center,
YPD.
S. coelicolor:
A3(2) at Sanger,
IGF homepage,
UMIST Microarray Resource,
Proteome Reference Gel
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Transcriptomics |
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HUMAN TRANSCRIPTOME PROFILES -
Labs:
Pat Brown (Stanford),
Leroy Hood Lab (Seattle),
Vivian Cheung (Phildelphia),
EBI arrayexpress ,
AECOM,
Ontario Cancer Institute,
Rick Young (Whitehead),
Chip and Microarray Companies:
Affymetrix,
Agilent,
AmershamPharmacia Biotech,
Arrayit,
Axon Instruments Genepix,
Biorobotics,
Clontech (Atlas Arrays),
Eurogentec,
Corning CMT,
GeneLogic GeneExpress,
Genomic Solutions,
GSI Lumonics ScanArray,
Iobion Genetraffic,
Mergen ExpressChip,
Microarrays.org Public Database,
Oxford Gene Technology,
Origene RapidScan,
Research Genetics,
Stratagene Gene Connection,
Companies Providing Bioinformatics Tools:
BioDiscovery Genesight,
Gene Data GD Expressionist,
Genedata,
GeneLogic Gene Express,
Incyte,
Lion Bioscience AG Array Scout,
Research Genetics,
Rosetta Resolver,
Silicon Genetics Gene Spring.
Analysis Groups:
Aberystwyth,
Manchester,
Whitehead/MIT,
Stanford,
NHGRI/NIH Microarray Project.
Data, Ontologies and Standards:
Array XML working group MGED project,
DAML,
EBI Array Express,
GenePix File Formats,
MaxD,
NCGR GeneX,
NCBI Gene Expression Omnibus,
Working Recommendations on Standards, MAGE-ML.
'Free' software (sometimes free only for non-commercial use) on the Web:
EBI Expression Profiler,
Michael Eisen's Clustering Software,
MaxD View,
TIGR Array Viewer,
TM4 including Multi-Experiment Viewer.
Portals:
Microarray Data, Papers and Links at the Rockefeller,
Links from the EBI,
Many Transcriptomic Links at Deathstar, Inc.,
Microarray Software Links at Stanford,
Microarray Software Comparisons by Yuk Fai Leung,
Microarrays.org.
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Bioscience Departments |
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Biotutor - quick link to all UK Bioscience Departments
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Functional Categories for Functional Genomics |
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If the functional genomics agenda is to assign function or functional
class to genes of unknown function, it is necessary to have a list of
the classes to which one might wish to assign them. The following
therefore lists some websites in which a listing of suggested functional
classes has been given.
Note that many of these classification structures are are strictly
hierarchical and are far from optimal. See Kell, D.B. & King, R.D. (2000) On
the optimization of classes for the assignment of unidentified reading frames in
functional genomics programmes: the need for machine learning. Trends Biotechnol.
18, 93-98.
Pubmed abstract.
The goal of the Gene Ontology consortium
is to bring order and a systematic structure to these terms. Another comparison of
functional annotation schemes has been published by SCG Rison, TC Hodgman &
JM Thornton (2000) Functional and Integrative Genomics 1, 56-69 - see link
here and
a Table of links to other functional catalogues.
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Network
Science |
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Some properties of networks are generic, and we need tools to study and understand them.
Links to these are on our Systems Biology page.
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Other Links |
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Many thanks to Iolo for a lot of these...
Rail Travel
Ferries etc.
Air Travel
Travel Agents/Hotels etc.
Road Travel/Cars etc.
Aberystwyth
Chirk
London
Manchester
Swindon
Fun
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Last update: 3 Aug 2008
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Back to the group's homepage.
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