| By Business Wire |
Article Rating: |
|
| February 5, 2013 12:32 PM EST |
Reads: |
451 |
Softberry, Inc. announces release of a comprehensive set of biomedical
research-oriented software applications for academic users to install
and run locally on a limited basis.
The programs, already cited in thousands of scientific publications, are
available for Linux and Mac OS platforms and focus primarily on genomic
and proteomic research. They include tools for analysis of next
generation sequencing data: Accurate spliced alignment of RNA-Seq data
to a reference genome (ReadsMap), de novo assembly of transcriptome
reads into RNA transcripts (TransSeq), genome assembly (OligoZip) and a
software package for SNP analysis (SNP-Toolbox).
Another group of programs facilitates analysis of genomic sequences:
alignment of genomes, bacterial and eukaryotic promoter prediction,
discovery of functional/regulatory motifs, splice sites identification
and gene prediction. EST_map and Prot_map programs, often used in genome
annotation pipelines, map entire databases of known mRNA or protein
sequences to genome.
Software for protein sequence and structure analysis includes tools for
identification of sub-cellular protein location, prosite pattern search,
3D structure comparison, protein structure modeling using molecular
dynamic approach and homology modeling.
There are also programs for RNA secondary structure prediction, search
for miRNA sequences, and a suite of programs for analysis of expression
data.
Software for general statistical data analysis includes Visan (visual
analysis) package with discriminant analysis, neural networks and
principal component modules.
A dozen of graphical viewers for visual and interactive analysis of
sequences, structures, and outputs of many programs completes the
collection of software free for academic use. The programs are available
for download at www.softberry.com/downloads.
Most of the programs available for free download are also included in
integrated environment of MolQuest bioinformatics software
package that can be downloaded for free trial at www.molquest.com.
About Softberry
Softberry, Inc. is a leading developer of research oriented software
tools for genomic and proteomic research. Among its customers are all
five largest agribiotech companies, numerous academic and research
institutions, such as JGI, JCVI, Washington University, UC Berkeley, and
Cold Spring Harbor Laboratory, and several pharmaceutical and biotech
companies. Softberry has about 20 employees and offices in Mount Kisco,
NY and Novosibirsk, Russia. Additional information is available at www.softberry.com.
