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top | Resources - Tools - Genomics - Misc - Protocols |
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List of databases and resources
Amos Bairoch's list
HGMP (MRC) - NAR.9601
- or the "Tools" section below
Find and retrieve a sequence
Entrez [man] (NIH/NCBI) -
search for: Protein
, DNA/RNA
, genome
SRS v4 [ man] - search at: Heidelberg - Hinxton - INFOBIOGEN - IGBMC
SRS v5 [ man] - search at: Heidelberg - Hinxton
MIPS/ATLAS: search
DBGET: [man] - search
OWL: Protein non-redundant:
Swissprot, translated GenBank, PIR 1-3, NRL-3D
DNA
DNA + related info: gsdb - gdb /gdb@dkfz - GenomeNet
DNA: GenBank - EMBL - DDBJ - TIGR
- Transfac
dbEST: GenBank - EMBL
DNA structure: NDB (US) NDB (UK)
Vectors: VectorDB
Protein
Protein-1D: Swissprot , PIR - PROSITE - TFII
Protein-3D: PDB (Brookhaven) alt , or at: EBI,
Molecules R US
Other databases
Taxonomy: NIH | TreeOfLife , [S] , express - TreeBASE
Cell Lines: Organisms and
Strains - ATCC , cldb - Hybridomas (monoclonal antibodies)
Biochem Pathways: Boehringer's
- KEGG: pathways, diagram
Metabolic Pathways: CME (home), WIT (metabolic reconstruction)
Patents: USPTO - EPO
- search Patents
Antisera: antibody resources page
Misc.
Sequence Submission: EMBL - GenBank
Alert to New Sequences: Swisshop - EMBL - mips
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top | Resources - Tools - Genomics - Misc - Protocols |
News
Tutorials
Brian Golding seq. anal.
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Collections of BioComputing Tools
EMBNet: CH , tools , ISREC , ExPaSy
EMBNet: EBI - Heidelberg
Sanger: genome analysis
Baylor: SearchLauncher
: GeneFinder, protein , DNA
Japan: GenomeNet , tools
various: gsf , MIPS - dkfz
Homology searches
Blast: EPFL/ISREC - NCBI - GenomeNet - SangerCenter
Blast: Baylor: protein
, DNA
Blast2: Heidelberg - NCBI
Blast/Domains: ProDom/France [search] - Pfam/UK [search]
Blast/Species: Drosophila
- Yeast - Arabidopsis -
Fasta & Keywords: eeri.fr
- IUBIO/Indiana,
SRS keywords
Smith-Waterman: EPFL/ISREC
- Blitz - BioAccelerator (Weizman)
Find a motif in
Protein: Prosite/Expasy /ISREC - PropSearch
DNA binding sites: NIH: SignalScan
/NUS - GBF: Transfac , MatInspector /alt - TESS:
home /string /matrix
DNA promoter prediction: PromoterScan /alt /NIH /NUS
Pattern: Patscan /NUS
Multiple Sequence Aligments
List of links
Shading Aligned Sequences
BOXSHADE
Check oligo
NAPCORE@UPEN
Restriction enzyme mapping
tacg - WebCutter
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top | Resources - Tools - Genomics - Mics - Protocols |
News
HGSP, letter
HUGO Genome Digest
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Human Genome Projects
TGC: The genome channel: progress
of the sequencing project by
GAC: Genome Annotation Consortium - related links
HGMP - Human Genome Mapping Project at the MRC (UK)
HGSP - Human Genome Sequencing Project Information
HUGO - Human genome organisation
HSMI -
Human Sequence Map Index
NCGR - National Center for Genome Resources
GSDB - Genome
Sequence DataBase
TIGR - Institute for Genome Research
MGI -
The Merck Gene Index /Washington
University
NIH - Genbank - DNA and protein
sequences
OMIM -
Online Mendelian Inheritance of Man
NHGRI - National
Human Genome Research Institute (of the NIH, USA)
COG
- Clusters of Orthologous Groups at NIH
Cognitor - compare your sequence
to the COG database
MAGPI - M Automated
Genome Project Investigation Environment
ORNL - human genome project information - Newsletter - ORNL review
(Oak Ridge National Laboratory, USA)
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top | Resources - Tools - Genomics - Mics - Protocols |
best:
Amos Bairoch's list
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Other BioLink Collections
Amos Bairoch, Jeff,
Peter, Dan S. Prestridge (UMN) - DEAMBULUM - Gateway - CMS - geneweb - Rockefeller
NIH: NIH [search],
NCBI - Harvard,
Virt_Lib, BioSciences VL, Genetics
EMBNet: Heidelberg /Services - Hinxton - Switzerland,
ExPaSy, ISREC
BioComputing essentials and help
U Zürich introduction to biocomputing, including UNIX, GCG, EGCG.
GCG: EMBNetCH , EMBNetUK EGCG: EMBNetCH , EMBNetUK , IGBMC
ClustalW 1.6: IGBMC/Strassbourg
, U Arizona
UNIX: Hawaii , Oslo man , Edinburgh
BioComputing: GJB's ,
CHS , Harvard , U of Washington
BioComputing Software Catalogues
Jeff's Catalog - biocat(EBI)
- IUBio Archive
WWW molecular biology courses
Introductory Courses by: Mark Dalton
- Dan Jacobson - Biology HyperTextBook
Selected topics: Yeast Genetics
- P-elements -
Chaperonins , article by H.R.Saibil
More links: AccessExcellence
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top | Resources - Tools - Genomics - Misc - Protocols |
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General links & Collections of protocols
Molecular Biology Techniques Forum - Technical Tips
Online
Nucleic Acid
Purification: Nucleo/bond/spin/trap
PCR PCR JumpStation
Antibody purification
Peter Vize
Antisera: antibody resources page |
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