BLiSS REPORT (2013-14) - Establishment of Biotech Labs in Senior Secondary Schools (BLiSS) in North Eastern States of India
27th Co-ordinators meeting to be held in Nainital from 3-5 March, 2016
National Symposium on Bioinformatics was held at University of Jammu on February 2, 2012
Compendium on Bioinformatics publications released during 23rd Co-ordinators meeting
 
   
RESOURCES
 
  Softwares available with BTISnet - Centres  
 
 
Three-dimensional structure of protein provides information pertaining to biological mechanism, function, interactions, and has significant implications in designing anti-viral drugs and protein-based vaccines.
   
VirGen - A Comprehensive Viral Genome Resource  
VirGen a comprehensive viral genome resource, which organizes the 'sequence space' of viral genomes in a structured fashion. It has been developed with an objective to serve as an annotated and curated database for complete viral genome sequences
   
Spectral Repeat Finder (SRF)  
Spectral Repeat Finder (SRF) is a program to find repeats through an analysis of the power spectrum of a given DNA sequence.
   
 
Gopam is a comprehensive web based tool for high throughput analysis of microarray data. GOPAM takes advantage of the GO annotation of genes to biological terms for performing a fully automated top-down approach to analyze microarray data.
   
Pdb Sequence Search Tool  
Sequence Retrieval, Aminoacid composition, Molecular Weight and Volume, Sequence Length Search, Molecular Weight Search, Identical Pattern Matching, Similar Pattern Matching, Isoelectric Point
   
Biomolecules Segment Display Device (BSDD)  
An interactive web-based display tool, Biomolecules Segment Display Device (BSDD), has been developed to search for and visualize a user-defined motif or fragment among the protein structures available in the Protein Data Bank (PDB). In addition, the tool works for the structures available in a selected sub-set of non-homologous protein structures (25% and 90% sequence identity).
   
PDB Goodies  
PDB Goodies (version 1.0) is a web based Graphical User Interface (GUI) to manipulate the Protein Data Bank (PDB) file containing the three dimensional atomic coordinates of protein structures.
   
Ramachandran Plot (RP)  
A World Wide Web graphics package has been developed to display the main chain torsion angles phi,psi (Ramachandran angles) in a protein of known structure. This package allows users to find the Ramachandran angles for a particular amino acid type, present in the protein structure
   
Conformation Angles Package (CAP)  
A graphics package developed to display all side chain conformation angles of the user selected residue in a given protein structure.
   
Water Analysis Package (WAP)  
A web based tool for the analysis of water molecules in protein structures
   
Symmetry Equivalent Molecules (SEM)  
Symmetry Equivalent Molecules, is a web based Graphical User Interface to generate and visualize the symmetry equivalent molecules (proteins and nucleic acids). In addition, the program allows the users to save the three-dimensional atomic coordinates of the symmetry equivalent molecules in the local machine.
   
Fragment Finder  
FF (Fragment Finder) is a web-based interactive search engine developed to retrieve the userdesired similar 3D structural fragments from the selected subset of 25 or 90% non-homologous protein chains. The search is based on the comparison of the main chain backbone conformational angles (fandw).
   
3D Structural Superimposition (3D-SS)  
3dSS is a web-based interactive computing server, primarily designed to aid researchers, to superpose two or several three-dimensional protein structures. In addition, the server can be effectively used to find the invariant and common water molecules present in the superposed homologous protein structures.
   
Protein Structure Analysis Package (PSAP)  
   
Ramachandran Plot for Multiple Structures (RPMS)  
   
Consensus Secondary Structure Prediction (CSSP)  
This is created to predict the consensus secondary structure using well known algorithms from the literature. Furthermore, the server allows users to see the occurrence of predicted secondary structural elements in other structure and sequence databases and to visualize predicted helices as a helical wheel plot.
   
   
ChemGenome  
Genome analysis entails the prediction of genes in uncharacterized genomic sequences. The objective is to be able to take a newly sequenced uncharacterized genome and break it up into introns, exons, repetitive DNA sequences, transposons etc. and other elements.
   
Bhageerath  
Protein Structure Prediction Software
   
Bhageerath H  
A Homology ab-intio Hybrid Web server for Protein Tertiary Structure Prediction
   
Sanjeevini In-Silico Drug Design Software  
Sanjeevini software has been developed as a computational pathway paving the way expressely towards automating lead design, making any number of known or new candidate molecules out of a small but versatile set of building blocks called templates, screening them for drug likeness, optimizing their geomtery, determing partial atomic charges and assigning other force field parameters, docking the candidates in the active site of a given biological target , estimating the interaction/bidning energy, peforming molecular dynamics simulations with explicit solvent and salt on the biomolecular target, the candidate and the complex followed by a rigourous analysis of the binding free energy for further optimization. Presetly we have coupled Sanjeevini with AMBER and GAMESS for molecular mechanics and quantam mechanics calculations, respectively.
   
ABC DNA Simulation  
The ABC (Ascona B-DNA Consortium) initiative was undertaken by an international collaborative effort involving nine research groups. ABC Simulations is a computationally intensive project aimed at carrying out molecular dynamics (MD) simulations including water and counterions on B-DNA oligomers containing all 136 unique tetranucleotide base sequences.The ABC (Ascona B-DNA Consortium) initiative was undertaken by an international collaborative effort involving nine research groups. ABC Simulations is a computationally intensive project aimed at carrying out molecular dynamics (MD) simulations including water and counterions on B-DNA oligomers containing all 136 unique tetranucleotide base sequences.
   
Lead Invent A spin off company from SCFBio.  
LeadInvent is a life sciences R&D Company based out of Biotech Centre, University of Delhi South Campus. We combine proprietary computational biology technologies: Computer Aided Drug Discovery (CADD) algorithms and Protein Structure algorithms with high performance computing to develop viable therapeutic lead molecules.
   
   
 
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