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Information
 SDC
Morphology Toolbox for MATLAB
morphological tools for image segmentation,
non-linear filtering, pattern recognition and image analysis. - The
Linux for Biotechnology project (LfB)
dedicated to compiling the most comprehensive
collection of Biotechnology software, and making it available
for the Linux operating system.
- ITERALIGNv1.0
- A program for the multiple alignment of protein
sequences developed by Luciano Brocchieri and Samuel Karlin.
- Online
Journal of Bioinformatics (OJB) Full-text
articles dealing with Bioinformatics and genetic analysis-programming
(Editor-In-Chief: Guerrini, V.H).
- HGMD:
Human Gene Mutation Database site
contains Search HGMD,What's new at HGMD, Current state
of HGMD, Links to locus-specific mutation databases available
on the Web.
- eBioinformatics
- Bioinformatics service provider
provides BioNavigator, where bioscientists can
access rapid up-to-date versions of biomolecular and genetics
software and databases.
- SeqAnalRef:
Sequence analysis bibliographic reference database
a bibliographic reference data bank on sequence
analysis, data bank stores references of articles from
the field of mathematical & computer analysis of biomolecular
sequences.
- The
BeanGenes Database - A Phaseolus / Vigna Database
includes
the BeanGenes Database, Links to Other Phaseolus/Vigna
Sites, Bean Production Information…
- BioMedNet,
the most comprehensive database of 3D atomic resolution,
structures of biological macromolecules ever published,
and it's completely revised and updated monthly .
- The
Bioinformatics Resource
Stanford University Medical Center: includes
Classes, Hardware, Software, Databases.
- The
Genome Channel JAVA
viewer site with a comprehensive sequence-based view of
genomes, must have a JDK1.1.5 enabled browser
from ORNL.
- George
M. Church Laboratory &
Lipper Center for Computational Genetics, includes Church
Lab Publications, Genotyping and Phenotyping Technology
Projects & Protocols, Protein alignments and structure
prediction, DPinteract: DNA-protein interaction database...
- ExPASy
- Swiss-Flash Bulletins
reports on news of databases, software and services
from the Geneva groups of the Swiss Institute of Bioinformatics
(SIB).
- Bioinformatics
Group of
the ISREC (Swiss Institute for Experimental Cancer Research).
- The
Breast Cancer Gene Database
(BCGD) search for a Gene or Locus by Name or search
for Facts about Breast Cancer Genes.
- CGG
Nucleotide sequence analysis:BCM Gene Finder
predict & analyze Splice sites, Protein coding
exons and Gene models construction, Promotor and poly-A
search.
- Database
and Search Tools formerly known as the
Biologist's Control Panel includes HGSC Local Search Tools
and Databases...
- SWISS-PROT:
Annotated
protein sequence database; TrEMBL: a supplement to SWISS-PROT.
- SDC
Morphology Toolbox for MATLAB
morphological tools for image segmentation, non-linear
filtering, pattern recognition and image analysis.
- The
Linux for Biotechnology project (LfB)
dedicated to compiling the most comprehensive collection
of Biotechnology software, and making it available for
the Linux operating system.
- ITERALIGNv1.0
-
A program for the multiple alignment of protein sequences
developed by Luciano Brocchieri and Samuel Karlin.
- Online
Journal of Bioinformatics (OJB) Full-text
articles dealing with Bioinformatics and genetic analysis-programming
(Editor-In-Chief: Guerrini, V.H).
- HGMD:
Human Gene Mutation Database site contains
Search HGMD,What's new at HGMD, Current state of HGMD,
Links to locus-specific mutation databases available on
the Web.
- eBioinformatics
- Bioinformatics service provider
provides
BioNavigator, where bioscientists can access rapid up-to-date
versions of biomolecular and genetics software and databases.
- SeqAnalRef:
Sequence analysis bibliographic reference database
a bibliographic reference data bank on sequence
analysis, data bank stores references of articles from
the field of mathematical & computer analysis of biomolecular
sequences.
- The
BeanGenes Database - A Phaseolus / Vigna Database
includes the BeanGenes Database, Links to Other
Phaseolus/Vigna Sites, Bean Production Information…
- The
Bioinformatics Resource Stanford
University Medical Center: includes Classes, Hardware,
Software, Databases.
- The
Genome Channel JAVA
viewer site with a comprehensive sequence-based view of
genomes, must have a JDK1.1.5 enabled browser
from ORNL.
- George
M. Church Laboratory
&
Lipper Center for Computational Genetics, includes Church
Lab Publications, Genotyping and Phenotyping Technology
Projects & Protocols, Protein alignments and structure
prediction, DPinteract: DNA-protein interaction database...
- ExPASy
- Swiss-Flash Bulletins
reports on news of databases, software and services
from the Geneva groups of the Swiss Institute of Bioinformatics
(SIB).
- Bioinformatics
Group of the
ISREC (Swiss Institute for Experimental Cancer Research).
- Analysis
tools tutorials -
Courses at Atelier BioInformatique (France).
- The
Breast Cancer Gene Database
(BCGD) search for a Gene or Locus by Name or search
for Facts about Breast Cancer Genes.
- CGG
Nucleotide sequence analysis:BCM Gene Finder
predict & analyze Splice sites, Protein coding
exons and Gene models construction, Promotor and poly-A
search.
- Database
and Search Tools formerly known as the
Biologist's Control Panel includes HGSC Local Search Tools
and Databases...
- SWISS-PROT:
Annotated protein sequence database; TrEMBL: a
supplement to SWISS-PROT.
- Genamics.com
has
comprehensive collections of molecular biology and biochemistry
software tools available on the Web for Windows, MS-DOS,
Unix and Macintosh platforms...
- Plasmid
ARTIST from GeneSystems Computer Software
Macintosh graphic program designed for molecular
biologists that creates and produces publication quality
plasmid diagrams...
- Protein
Data Bank (PDB), RCSB 3-D
structure data of biological macromolecules determined
experimentally by X-ray crystallography and NMR...
- PROSITE:
Database of protein families and domains
a
database of protein families and domains...
- The
Protein Identification Resource Protein sequence database.
(Prot-Web) Similarity Search Options, Sequence Classification
Text /Entry Retrieval...
- Survey
of Molecular Biology Databases and Servers
by Randall F. Smith and W.M. Keck...
- Virtual
Genome Center...
- Munich
Information Centre for Protein Sequences (MIPS)...
- FASTA:
Sequence Similarity Search Served by GenomeNet
- DNA
Information and Stock Center (DISC)
Database Search; Key Words Search...
- HGMP-RC
funded by the UK Medical Research Council to provide
a Bioinformatics and a Biological service to the UK academic
community working on the Human Genome Program...
- Paracel
Inc
makers of high-performance genetic data and text analysis
systems for the genomics, pharmaceutical, clinical...
- InforMax
provides bioinformatics system integration for
pharmaceutical and biotechnology companies...ogen
Inc
- BCM
(Baylor College of Medicine) Search Launcher
to organize molecular biology-related search
and analysis services available on the Web by function
by providing a single point-of-entry for related searches...
- Incyte
Pharmaceuticals, Inc
provides
an integrated platform of genomic technologies designed
to aid in the understanding of the molecular basis of
disease, gene discovery products, databases, bioinformatics...
- PE
Informatics software,
services, and information for accelerating discovery.
- NetGenics
develops
enterprise-wide information technology solutions designed
to accelerate the drug discovery process...
- Bioinformatics
Group: Walter Gilbert Laboratory at Harvard Biolabs
- Motif
Bioinformatics at
Stanford University
- Bioinformatics
and Computational Biology Weizmann Institute of Science
- concise
information about human genes with a focus on their cellular
functions and medical aspects...
- Center
for Information Biology
is a division of the National Institute of Genetics, Japan...
- IInstitute
for Biomedical Computing
- National
Institute of Genetics, Japan
- TIGR
Databases a
collection of curated databases...
- EMBL
Sequence Retreival
- ExPASy
Molecular Biology Server
dedicated
to the analysis of protein sequences and structures
as well as 2-D PAGE...
- Spotfire
Inc
sells
visual data mining tools for easy access to large databases...
- Genetics
Computer Group
DNA
and protein analysis softwares...
- DNA
Star Inc. Lasergene99
sequence analysis software...
- MDL
Information Systems Inc.
software
systems, databases, and services...
- Molecular
Simulations Inc.
modeling
and simulation software...
- Oxford
Molecular Ltd.
software
and services in bioinformatics, cheminformatics, and molecular
modeling...
- Pangea
Systems, Inc softwares
for advanced bioinformatics..
- DNA
ProScan Inc
software
for molecular biology...
- Base4
Bioinformatics
provides
integrated, information management solutions for pharmaceutical
and biotechnology R&D...
- Computational
Biology Group Led by Prof. Werner Braun
at the University of Texas Medical Branch (UTMB)
doing molecular modeling of proteins...
- SLAD,
the Swine Major Histocompatibility Complex (SLA) database
an integrated database focusing on SLA
sequence, phylogenetic, and functional analyses.
- CCUG:
Culture Collection University of Gteborg, Sweden
a Culture Collection of microorganisms,
devoted to the identification of bacteria, the CCUG is
holding >40000 strains of bacteria and some yeasts
and fungi, all strains are freeze-dried…
- University
of Minnesota Computational Biology Centers
contains info on Research Projects, Molecular
Biology and Other Software, Education, Virtual Library,
Network, Members, Collaborators, Local User Information…
- Macromolecular
Crystallography and Synchrotron Radiation
by Structural Biology Synchrotron Users
Organization (BioSync), contains synchrotron resources,
data on beam capabilities, schedules, application info,
contacts.
- Poland
server (Calculate the Thermal Denaturation Profile of
Double Stranded RNA or DNA) for prediction
of nucleic acid's thermal stability based on sequence
input and parameter settings in the form.
- Protein
motifs: PMOTIF -Search Protein Motifs in Gene Sequence
provides an interface to a program that
determines if a protein motif is encoded by a DNA sequence
or database of DNA sequences.
- BCM
Search Launcher: Multiple Sequence Alignments
CLUSTALW 1.7, CAP Sequence Assembly (DNA),
MAP & PIMA, MSA 2.1 alignments at Baylor College of
Medicine.
- Mouse
Genome Informatics (MGI) - Mouse Genome Database (MGD)
at The Jackson Labs
info on mouse genetic markers, molecular
segments, phenotypes, comparative mapping data, experimental
mapping data, & graphical displays for genetic, physical,
cytogenetic maps.
- OmniBank
library of mouse embryonic stem (ES) cell clones generated
by gene trapping from Lexicon Genetics.
- Staden
packag: sequence analysis software developed by Rodger
Staden
contains preparing sequence trace data
for analysis or assembly; sequence screening; trace viewing;
mutation detection; sequence analysis;sequence library
access…
- RSVP:
Rapid Sequence Visualization in PostScript
provide a quick look at DNA up to about
the length of a sequencing run, using form & color
to help point out patterns…
- PROVE
-- Protein Volume Evaluation
a method to validate a proposed protein
structure based on the calculated volumes of atoms in
the structure.
- bend.itŪ
Server: predicts DNA curvature from DNA sequences
calculated as a vector sum of dinucleotide
geometries using the BEND algorithm of Godsell & Dickerson,
expressed as degrees per helical turn.
- STRIDE:
Protein secondary structure assignment from atomic coordinates
performs the same task as DSSP but utilizes
both hydrogen bond energy & mainchain dihedral angles
rather than hydrogen bonds alone.
- SOPM
- Self Optimized Prediction Method
for Prediction of Protein
Secondary Structure at IBCP-CNRS, France.
- AbCheck
- Antibody Sequence Test, allows you to
test an antibody sequence against Kabat sequence database,
which allows the identification of potential cloning artifacts.
- Large
Dot Plots
algorithm designed for large DNA sequences,
the algorithm uses a word size of eight and remaps the
the matches onto a 500x500 grid.
- The
rRNA database
from Depart. Biochem, Molecular Biology,
University of Antwerp, Belgium, includes SSU rRNA, LSU
rRNA, Software.
- DNA
Sequence Server
makes it easy to browse and search both
CSHL's DNA sequences database and the GenBank database,
comparing sequences is simple as a click of a button.
- Biocomputing
& Modeling
University of Zuerich includes News, Biocomputing,
Databases, Visualization, Biosym/MSI SW, SW Inventory,
SGI Infos.
- Computational
Biology at MCS Argonne
includes WIT 2.3, EMP, PatScan,Oligos,
MAGPIE, Computation of phylogenetic trees.
- Database
of Macromolecular Movements with Associated Tools:
describes the motions that occur in proteins and other
macromolecules, particularly using animations and movies,
associated with it are a variety of free software.
- Proteome,
Inc.
curated databases for the proteins of
experimental organisms: YPDTM - Yeast (S. cerevisiae)
Proteome DB; CalPDTM - C. albicans Proteome DB; WormPDTM
-C. elegans Proteome DB.
- PEDANT:
Protein Extraction and Description and Analysis Tool --
a software system for completely automatic and exhaustive
analysis of protein sequence sets - from individual sequences
to complete genomes.
- AllAllDB:
Querying the all-against-all database of SwissProt.
- A
sequence search protocol
a systematic search strategy from UCL.
- Comparative
Sequence Analysis in Peer Bork's Team
includes WU-BLAST2 Server; SMART; Fold
prediction (3D); Sequence alerting system; Putative DNA
Sequencing Errors Check;Alignment Tools from Max Delbrek
Center for molecular medicin, Berlin.
- Department
of Bioinformatics; Max Delbrek Center
for Molecular Medicine, Berlin.
- The
DARWIN Manual: Darwin, a Computational
Biochemistry Research Tool
by G. Gonnet & M. Hallett.
- Computational
Biochemistry Research Group(CBRG)
at ETH: Eidgenossische Technische Hochschule
Zurich.
- The
DEAMBULUM: Computing applied to
biomolecules and genomes - at INFOBIOGEN (France), links
on Analysis tools;Access databases;Information.
- DNA
sequence translation
provides an interface to a program for
identification of open reading frames in DNA sequences.
- The
Biology Workbench
web-based tool for biologists to search
protein and nucleic acid sequence databases, all within
a point and click interface that eliminates file format
compatibility problems.
- GeneID
- Email Server for prediction of Gene Structure
a system for analyzing vertebrate enomic
DNA and prediction of exons and gene structure. A prototype
is implemented as a network server, with access via electronic
mail.
- The
Johns Hopkins University BioInformatics WebSite
is under Re-Construction...
- The
Ribosomal Database Project
(RDP)
provides ribosome related data services
including online data analysis, rRNA derived phylogenetic
trees, and aligned and annotated rRNA sequences.
- BioBase,
The Danish Biotechnological Database, at the University
of Aarhus, Denmark.
- EMBnet
Biocomputing Tutorials include
Internet for Biologists, CRI-MAP (Chromosome mapping via
CEPH-style pedigrees), DNA Sequence Analysis...
- GenomeNet
a Japanese network of database & computational
services for genome research and related research areas
in molecular and cellular biology.
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