Restriction Enzyme Mapping
PCR Primer Design
Genome Browser
Genetic Maps
Gene assembly software
Web-Based Submission & Retrieval Tools
Pair wise Sequence Alignment Programs
Multiple Sequence Alignment Programs
Whole Genome Alignment
Gene Finding tools
Dual Genome Gene Prediction Servers
Prokaryotic Gene Finding Tools
Repeats Identification or filtering Noise
Promoter Finding
Transcription Element Search Software
Object oriented Transcription Factoratabase
Mutation databases
Sequence Polymorphism databases
Molecular evolution databases
Phylogenetics
Motif/Domain/Family Databases
Multiple EM for motifelicitation
Classification of SwissProt and Tremble proteins into clusters
Classification of all seq’s in SwissProt database into clusters
For identification of proteins following MS
Motif Identification tools
3Dmotif searching and comparison
Pattern Matching Program
Network protein sequence analysis
Provides 3D enzyme active sites templates
Spatial Arrangement of Side-chain and Main-chain
Secondary structure prediction
Super secondary structure prediction
Tertiary structure prediction
RNA Structure Prediction& Databases
Sec Structure Prediction Program For A Multiple Seq
Sec Structure Prediction Program For A Single Sequence
Prediction of Sub cellular Localizations
Structure Alignment
Prediction of Physical Properties
Prediction of Protein Identity Based on Composition
Multiple Rigid Alignment
Modeling Servers
Fold recognition server
Loop Side Chain Modeling
Model Refinement
Model Evaluation
Structure Visualization Tools
Similarity Searching Tools
Immuno Informatics
Tools for Predicting MHC Peptide
Microarray Analysis Software
Data collection
Estcluster Databases
SAGE Databases
Interaction Databases
Genomic Databases
Protein Expression Analysis
2D-Page
Protein Identification
Prediction of Disulfide Bridges
Metabolic Pathways Databases
Data Mining And Statical Methods
Proteomic Databases & Tools
Function Prediction Using Protein Surface
Ligand Binding Site Prediction
Protein-Protein Interface Prediction
Prediction of Disorder Proteins /Low-Complexity Regions
Computational Chemistry
Other Tools and Databases
MATLAB Bioinformatics Toolbox
Seq Assembler
Comparative Genomics
Cytogenetic

 

Bioinformatics tools and databases

NEB Cutter http://tools.neb.com/NEBcutter2/index.php
Restriction

http://arbl.cvmbs.colostate.edu/molkit/mapper/index.html
http://www.restrictionmapper.org/

Webcutter http://www.ccsi.com/firstmarket/cutter/cut2.html
In Silico Restriction http://insilico.ehu.es
WatCut http://watcut.uwaterloo.ca/watcut/watcut/
EnzymeX http://mekentosj.com/enzymex/
Silent http://bioweb.pasteur.fr/seqanal/interfaces/silent.html
REBASE http://rebase.neb.com
ENZYME http://www.expasy.ch/enzyme/
Silent http://bioweb.pasteur.fr/seqanal/interfaces/silent.html
Rebase http://rebase.neb.com
Enzyme http://www.expasy.ch/enzyme/
MACiE http://www.ebi.ac.uk/thornton-srv/databases/MACiE/
EzCatDB http://mbs.cbrc.jp/EzCatDB/
EC http://www.chem.qmul.ac.uk/iubmb/enzyme/
SFLD http://sfld.rbvi.ucsf.edu/