G P S Raghava, Ph.D. 

Co-ordinator, Bioinformatics Centre
Institute of Microbial Technology, 
Sector 39A, Chandigarh, INDIA


         










Software Developed in Molecular Biology 
 



  •   
    DNASIZE
     This computer program has been developed for computing 
      the size of DNA fragments from their electrophoretic mobilities
      using a graphical method. This program can also be used to compute 
      the size of proteins or polypeptides from SDS-PAGE. In addition to 
      computing the size of DNA fragments and protein size the program 
      also allows one to present the comparison of standard curves obtained 
      from gel electrophoresis (or SDS-PAGE). The program is written in 
      C and can be run on IBM PC or a compatible computer under MS-DOS 
      version 2.0 or higher, and requires a CGA, EGA or VGA card.  Click  to down load this program.

    
 Reference:Raghava, G.P.S. (1994) Improved estimation of DNA
     fragment lengths from gel electrophoresis.
     Biotechniques 17: 100-104. 


    
This package is also avilable from  ftp site (dnasize.$exe) of  EBI. 


    


    


    


    



  •   
    GMAP
     A comprehensive computer program GMAP, has been developed for 
      mapping the potential restriction endonuclease (R. E.) sites in 
      non-ambiguous  DNA sequence, predicting the number and type of 
      mutations required to introduce unique R.E. sites in the non-ambiguous,
      searching all R.E. sites in ambiguous DNA sequence obtained by 
      reverse translation of a given amino acid sequence; iv) searching R.E. 
      sites in DNA sequence obtained from reverse translation of amino acid 
      sequence employing user-defined codon usage. These facilities allow 
      the program to be employed for the design of synthetic genes as well 
      as the modular redesign of gene. Click  to down load this program.

    
 Reference: Raghava, G.P.S. and Sahni, G. (1994) GMAP: a
    multipurpose computer program to aid synthetic
    gene design, cassette mutagenesis and
    introduction of potential restriction sites into
    DNA sequences. Biotechniques 16: 1116-1123. 



    
The vax/vms version of this package is avilable from EBI  ftp site.
The DOS version is also avilable from  ftp site (gmap$.exe) of  EBI . 


    


    


  •  DNAOPT 
     DNAOPT computer program has been developed to assist the users
      in optimizing the conditions of gel electrophoresis and SDS-PAGE. Click  to down load this program.

    
 Reference:Raghava, G. P. S. DNAOPT : A computer program
     to aid optimization of gel conditions of DNA gel
     electrophoresis and SDS-PAGE. Biotechniques 18:
     274-81.