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17 Dec, 2013

TGAC releases study on new tools for effective quality assessment and control of NGS data


The Genome Analysis Centre (TGAC) has released a new study on the quality assessment tools for bioinformatics to increase genomic productivity, published in the open-access journal, Frontiers in Genetics.

TGAC releases study on new tools for effective quality assessment and control of NGS data

The journal article, titled ‘Sequencing quality assessment tools to enable data-driven informatics for high throughput genomics’, explores new developed tools for genetic sequence data as a vehicle for data-driven informatics. TGAC’s scientists use this knowledge to provide richer context for downstream analysis and inform and influence future experimental design.

The new tools differ from their competitors in the bioinformatics market. StatsDB is unique in its ability to store and analyse historical tracked data, rather than performing quality control analysis on a single run. NextClip is innovative in its design as not just a tool for quality trimming reads, but also provides data which can drive the lab procedures to produce better mate pair libraries. Similarly, KAT is another tool which delivers insight into the sequencing data that can influence assembly approaches and future sequencing.

TGAC has access to a diverse range of sequencing and analysis platforms, and are at the forefront of investigations into library quality and sequence data assessment. We have developed and implemented a number of processes and tools to determine, store, and expose quality metrics across a number of next-generation sequencing data platforms, allowing rapid and in-depth cross-platform QC bioinformatics.

Author Richard Leggett, Project Leader in the Sequencing Informatics Group at TGAC, said: “We think our tools which are developed as part of our sequencing pipeline are filling important gaps in the wider bioinformatics community and we are delighted to release them as open source software.”

The article is authored by our scientists Richard M. Leggett, Ricardo H. Ramirez-Gonzalez, Bernardo J. Clavijo, Darren Waite and Robert P. Davey.

An example kmer spectra from the KAT tool, used for gathering insights into data quality and organism attributes prior to assembly Diagram illustrating data flow through the Primary Analysis Pipeline. Example plot from a tool based around StatsDB, showing quality data from FastQC.

 

 

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For more information, please contact:

Hayley London

Marketing & Communications Officer, The Genome Analysis Centre (TGAC)

T: +44 (0) 1603 450107,

E: hayley.london@tgac.ac.uk

 

Notes to Editors

About TGAC

The Genome Analysis Centre (TGAC) is a research institute focused on the development of genomics and computational biology. TGAC is based within the Norwich Research Park and receives strategic funding from the Biotechnology and Biological Science Research Council (BBSRC) - £9.2M in 2012-2013 - as well as support from other research funders. TGAC is one of eight institutes that receive strategic funding from BBSRC.

TGAC offers state of the art DNA sequencing facility, unique by its operation of multiple complementary technologies for data generation. The Institute is a UK hub for innovative Bioinformatics through research, analysis and interpretation of multiple, complex data sets. It hosts one of the largest computing hardware facilities dedicated to life science research in Europe. It is also actively involved in developing novel platforms to provide access to computational tools and processing capacity for multiple academic and industrial users and promoting applications of computational Bioscience. Additionally, the Institute offers a Training programme through courses and workshops, and an Outreach programme targeting schools, teachers and the general public through dialogue and science communication activities, www.tgac.ac.uk.

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