CSHL Library and Archives
CSHL
Library Links
Bioinformatics and Molecular/Genetic Databases
|
CSHL
Library Links |
| BioComputing at CSHL http://intron.cshl.org/biocomp/ (only available to CSHL staff) |
Locally available BLAST, GCG, Gene Finder, SNP Corsortium, Maize info, and more. |
| BioQuery http://www.bioquery.org/ |
BioQuery is a bioinformatics tool that provides a single, powerful user interface for building search strategies for numerous different biomedical databases. BioQuery is also a full update service, allowing you to save your searches on our server, and to receive periodic updates when new data is found matching your search criteria. BioQuery helps researchers maintain a COMPLETE set of the available data on their area of interest. |
| BRENDA: The Enzyme Database http://www.brenda.uni-koeln.de/start.php4 |
Nomenclature, structure, properies, etc. You will need to register before use. |
| BSML: Bioinformatic Sequence Markup
Language http://www.bsml.org/ |
BSML encodes biological sequence information and includes graphical representations of biologically meaningful objects such as sequences, genes, electrophoresis gels, and multiple alignments |
| Canadian Genome Projects Meta-Page http://www.genomes.ca/ |
This page gathers together in one place links to various Canadian-based genome projects. It also has pointers to resources related to ethical issues in genomics and genetics, as well as basic information to help students & beginners. |
| Cytochrome P450 Home Page http://drnelson.utmem.edu/CytochromeP450.html |
Site run by David Nelson |
| EBI: European Bioinformatics
Institute http://www.ebi.ac.uk/index.html |
The EMBL Outstation - the Institute manages databases of biological data including nucleic acid, protein sequences and macromolecular structures. |
| Database and Search Tools http://www.hgsc.bcm.tmc.edu/tools/ |
Formerly known as the Biologist's Control Panel - from the Human Genome Sequencing Center of the Baylor College of Medicine |
| DNA Structural Analysis of Sequenced Prokaryotic Genomes http://www.cbs.dtu.dk/services/GenomeAtlas/ Center for Biological Sequence Analysis, Department of Biotechnology, The Technical University of Denmark |
This list contains atlases and
information for 60 completely sequenced prokaryotic genomes that are publicly available,
from 52 different species. |
| Genetic Linkage Analysis Home Page http://bimas.cit.nih.gov/linkage/index.html |
Includes: "Cookbook Linkage Analysis, Ab Initio course" by Dr. Alejandro Schäffer, NCBI, and access to FASTLINK software. |
| Genome Sequencing Center at
Washington University http://genome.wustl.edu/ |
Protocols, software, sequence
searching
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| HIV Molecular Immunology Database http://hiv-web.lanl.gov/content/ immunology/index.html/index.html |
The HIV Molecular Immunology Database is an annotated, searchable collection of HIV-1 cytotoxic and helper T-cell epitopes and antibody binding sites. |
| Human Genome Databases | A listing of databases from: Bases and spaces: resources on the web for accessing the draft human genome. by Colin Semple Genome Biology 2000 1(4): reviews2001.1-2001.5 |
| Human Genome Working Draft Sequence
published February 15 & 16, 2001 - Science and Nature articles http://www.ornl.gov/hgmis/project/ journals/journals.html |
The Feb. 16, 2001, issue of Science
and Feb. 15, 2001, issue of Nature contain the first analyses of the working draft human
genome sequence. Nature papers include initial sequence analyses generated by the publicly
sponsored Human Genome Project, while Science publications focus on the draft sequence
reported by the private company, Celera Genomics. Because of the importance of these landmark papers, both Science and Nature have provided free and unrestricted access to all articles. |
| Introduction to Bioinformatics http://www.doe-mbi.ucla.edu/people/ leec/bioinf_intro/index.htm |
An overview from 1998, but still useful for general information. |
| KEGG Kyoto Encyclopedia of Genes and
Genomes http://www.genome.ad.jp/kegg/ |
A bioinformatics resource for understanding higher order functional meanings and utilities of the cell or the organism from its genome information. |
| Molecular Biologist Toolkit
(University of Washington, Health Sciences Library) http://healthlinks.washington.edu/ basic_sciences/molbio/ |
The index page to Stu Yarfitz's site. Includes links to many resources outside the University of Washington, including bioinforamatics, nucleic acid and protein analysis, genomics, and other molecular resources. The 'Text and Tutorials' link under Education leads to online classes, textbooks, and tutorials for a variety of databases and software tools. |
| Molecular Information Theory http://www.lecb.ncifcrf.gov/~toms/ |
From Tom Schneider's lab at Laboratory of Computational and Experimental Biology, NIH. Includes information and access to programs. |
| National Center for Biotechnology
Information: Databases http://www.ncbi.nlm.nih.gov/Database/ index.html |
Contains links to a variety of NCBI databases, including GenBank (Nucleotides, dbEST, dbGSS, dbSTS, dbSNP) Entrez databases (Nucleotides, Proteins, MMDB (Molecular Modelling DataBase), Genomes, PubMed, Taxonomy). |
| Nucleic Acids Research Database
Issue http://nar.oupjournals.org/content/vol31/issue1/
This is the link for the 2003 issue. |
The first issue of the year of this popular journal is known as the database issue as it provides papers on over 100 molecular, genetic and bioinforamtics resources, most of which are available over the web. Some of the databases are new, other papers describe enhancements to old favorites. The e-journal version is especialy nice as it provides links directly to the databases themselves. |
| Rat Genome Database http://www.rgd.mcw.edu/ |
"The Rat Genome Database (RGD) curates and integrates rat genetic and genomic data and provides access to this data to support research using the rat as a genetic model for the study of human disease". |
| The rRNA WWW Server http://www-rrna.uia.ac.be/ |
rRNA sequences and other helpful information |
updated 12/03/2004