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Gene finding
Gene finding with similarity
Gene finding in Bacteria
Gene finding in Viruses
Next Generation
Gene search
Gene explorer
Protein location
RNA structure
Protein structure
Multiple alignment
Analysis of expression data
Plant promoter database
Search and map repeats
Extracting known SNPs



Services for Biotech and Pharma Companies


Softberry, Inc. is a leading developer of wide specter of software tools for genomic and proteomic research with application to drug candidates discovery, as well as to identification of useful gene/proteins in agricultural business

There are several ways Softberry's software and expertise is used by biotechnology and pharmaceutical companies:

  • Licensing our popular programs such as genefinders, EST_MAPping and protein localization programs to facilitate genome and protein analysis
  • Developing custom gene finding parameters for more accurate gene finding in human, plants, pathogenic bacteria, yeast and viruses
  • Installation of entire program package for local network use
  • Collaboration in research and data analysis with development of customized product or pipeline using several programs
  • Integration of genomic and expression data in Softberry's cross-platform genome browser
  • Analysis of expression data to find disease-specific genes by using our Seltag system
  • Clusterization of ESTs and using clustered sets for prediction of alternative splicing gene variants using FGENESH_C and EST_MAP programs

Softberry's main areas of software development and expertise are:

  • Genome annotation and gene finding in eukaryotes, bacteria and viruses, EST mapping
  • Functional site identification in DNA and proteins, promoter finding
  • Genome comparison, fast genome and database search, and development of cross-platform interfaces for presentation of results
  • Expression data analysis
  • Protein structure prediction
  • Protein compartment (destination) prediction
  • EST clustering
  • Integration of genomic and expression data in cross-platform Java-based graphical interface.

List of licensees of our products includes over fifty leading pharmaceutical, biotech and agricultural companies, from around the world. Some of them are listed here:

  Amgen   Lion Bioscience
  AstraZeneca   Millennium Pharmaceuticals
  Biomax Informatics   Monsanto
  Bristol-Myers Squibb   Rhone Poulenc Rorer
  Celera Genomics Laboratory   Pioneer Hi-Bred
  deCODE Genetics   Roche Bioscience
  Genentech   Schering AG
  Human Genome Sciences   SmithKline Beecham
  Incyte Pharmaceuticals   Syngenta
  Lexicon Genetics   Yamanouchi Pharmaceutical Co.
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