SelectScience
Join Free
Accelerating Science
NewsLife Sciences

DNASTAR’s SeqMan NGen Software Introduced on Linux

DNASTAR Inc.
25 May 2011
bridget bridget
Laboratory Director

Product news

DNASTAR® announced the release of SeqMan NGen software for the Linux operating system today. This powerful DNA sequence assembly tool is now available on Linux, Windows and Macintosh operating systems.

SeqMan NGen is the most powerful next-generation sequence assembly software available in the market and can assemble a whole human genome using a reference on a desktop computer in less than a day. Small, bacterial genomes are routinely assembled in a minute or less. SeqMan NGen also performs very well on de novo projects and supports genome, transcriptome and metagenome assembly and similar applications.

Sequence assembly projects can be set up and run in SeqMan NGen using either scripting commands or the Graphical User Interface (GUI) included with the software. Scripting facilitates incorporation into a software and hardware pipeline and other automation opportunities. The SeqMan NGen GUI, which includes integrated Help documentation, continues DNASTAR’s long-standing commitment to delivering powerful, easy to use software to life scientists, which the company has been doing for more than 25 years.

Tom Schwei, Vice President and General Manager of DNASTAR, stated, “Many organizations have existing Linux computers and clusters that they wanted to take advantage of in accessing the capabilities of SeqMan NGen for large-scale genomic assemblies. Also, many corporate and academic core facilities have specifically chosen Linux as the preferred operating system for computationally intensive applications. We are pleased to be able to offer a solution to these customers that will work well with their existing computer infrastructure and, with the ability to easily incorporate SeqMan NGen into a scripted workflow, software that can fit into virtually any sequencing pipeline.

SeqMan NGen results can be easily distributed in BAM file or other file formats for analysis in SeqMan Pro, which was upgraded as part of the DNASTAR Lasergene 9 software release in April 2011. With the introduction of SeqMan NGen on Linux, DNASTAR now offers a complete sequencing software solution for any organization regardless of how they are organized to support sequencing applications – using centralized computers for assembly with end user computers for analysis or having scientists perform both assembly and analysis work on their own desktop computers.”

Links

DNASTAR Inc.Company website

Tags

Genome AnalysisGenomics, the study of genomes, includes functional genomics, evolutionary genomics and comparative genomics. There are many genomic technologies such as DNA sequencing of whole genomes, computational biology and bioinformatics. DNA and nucleic acids must be isolated and concentrated from cells for analysis with kits, automated analyzers and software. Other useful technologies for studying genomics include PCR, microarrays and electrophoresis.ProteomicsProteomics is the systemic bioinformatics study of proteins and amino acids, including their structure, size, function and identification. Tools used in proteomics include chromatography, blotting and gels, protein arrays, mass spectrometry and ELISA and associated analysis software. Analyzers and proteomic systems should be sensitive, high resolution, fast and may be automated for high-throughput.Cell Lines Stem Cells and Primary CellsPrimary cell cultures, established cell lines and stem cells are vital for <i>in vitro</i> and <i>ex vivo</i> experimentation. High-quality cells, optimized for your applications, alongside optimized cell substrates, growth medium and supplements, are critical for experimental success. Explore a range of cells suitable for your applications, including isogenic cell lines, competent cells, induced pluripotent stem cell (iPSC)-derived cell lines, fungal/bacterial/mammalian cell lines, stem cells and cancer cell lines. Find the best cells for your research in our peer-reviewed product directory: compare products, check customer reviews and receive pricing direct from manufacturers.Data AnalysisData analysis hardware and software is available to make data processing straight-forward yet powerful. Data software can be used for math and stats, technical graphing and image analysis. In addition, software is available for specific data analysis of electrophoresis, densitometry, ELISA and DNA sequencing.Chem / BioinformaticsCheminformatics and bioinformatics are computational techniques used in chemistry and biology, respectively, for data acquisition, processing and storage. Cheminformatics focuses on compound information, whereas bioinformatics is mainly applied to analysis and modeling of genomics, genetic and sequencing information. Hardware and software is available for data acquisition, analysis, management and storage.Cell-Based AssaysCell-based assays are used to monitor the presence, quantity and activities of a desired cellular analyte including drug molecules or biomarkers. This can reveal information on cell health (apoptosis, cytotoxicity, viability and proliferation assays), cell metabolism, cell migration and cell signaling mechanisms. Find the best cell-based assay products, kits and equipment with our peer reviewed product directory: compare products, check customer reviews and receiving pricing direct from manufacturers.DNA / RNA Extraction and PurificationPurified DNA and RNA are required for numerous downstream molecular biology applications. Consequently, the importance of high-quality DNA/RNA extraction and purification equipment cannot be underestimated. Many purification kits are available and are typically optimized for nucleic acid type and source, including plasmid DNA, genomic DNA, mRNA, RNA and viral nucleic acid purification kits. Automated extraction and purification of nucleic acids can be implemented with magnetic bead separator instruments or high-throughput purification workstations. Find the best DNA/RNA extraction and purification equipment in our peer-reviewed product directory: compare products, check customer reviews and receive pricing direct from manufacturers.DNA SequencingDNA sequencing, such as sanger sequencing, is a biological technique that determines the precise order of nucleotide bases in a fragment or template of DNA. DNA sequencers and genetic analyzers are based on capillary electrophoresis, where labeled DNA fragments are electrophoretically separated by size as they migrate through a polymer. Find the best DNA sequencing products, including DNA sequencing kits, genomic libraries and genetic identity kits in our peer-reviewed product directory: compare products, check customer reviews and receive pricing direct from manufacturers.Protein PurificationProtein purification is a vital step in drug discovery, therapeutics, biotech and life science research. The purification process typically involves subcellular or membrane protein extraction with cell lysis kits, separation of proteins from cell debris by filtration or spin columns, and the isolation of proteins of interest from other proteins and impurities with affinity purification (including fusion protein tags and antibody binding proteins A, G and L), immunoprecipitation or chromatographic methods, such as ion exchange, size exclusion and immobilized metal affinity chromatography. All purification methods come in multiple formats for your laboratory needs, including agarose or magnetic beads, resins, columns and filter plates. Find the best protein purification equipment in our peer-reviewed product directory: compare products, check customer reviews and receive pricing direct from manufacturers.Clinical GeneticsMolecular Genetics covers the analysis of hereditary genetic disease and chromosomal abnormalities. Genetics can be analysed using DNA, RNA, and protein microarrays, PCR, RT PCR and DNA sequencing. Genetic equipment includes genetic workstations, thermal cyclers, cooling blocks and electrophoresis products. Diagnostic kits are used for DNA / RNA extraction and purification.

Related articles

DNASTAR’s SeqMan NGen Software Introduced on Linux