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Bessant Lab

News and Resources from the Bessant Bioinformatics Lab at QMUL

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publications

A new test for Crohn’s disease?

A few years ago, we embarked upon one of largest metabolomic profiling projects ever undertaken on gastroenterology patients. Colleagues collected and analysed blood, breath, faeces and urine from patients with a range of digestive disorders. We applied some particularly rigorous data analysis methods to the acquired data and the results have finally been published in Metabolomics. One finding stands out – Crohn’s disease appears to have a distinctive faecal metabolome. Find more details in the paper.

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Our new textbook published

The second edition of Building Bioinformatics Solutions, the popular textbook co-authored by Conrad Bessant and former students Darren Oakley and Ian Shadforth has been published this week by Oxford University Press. This new version has been fully updated, with the web development chapter almost completely rewritten, and much new material added including a whole new chapter on software engineering (how to code properly!). For more details, see www.bixsolutions.net.

Publications update

The second research paper from our Wellcome Trust project on gut disorders has recently been published in Inflammatory Bowel Disease. This project produced a lot of interesting data, and two further papers from this are in the pipeline. We’ve also been involved in a couple of recently published proteome informatics reviews – a paper about general quantitative proteomics software supporting HUPO-PSI standards and a book chapter focussing specifically on selected reaction monitoring (SRM). Proofs for the second edition of Building Bioinformatics Solutions are coming through right now, so this should be in print late this year or early 2014.

mzQuantML data standard published

The mzQuantML standard format for representing the results of quantitative proteomics experiments has been published in Molecular and Cellular Proteomics. This HUPO-PSI initiative should make it easier to exchange quantitative proteomics data between groups, between software, and should ultimately increase the quantity of publicly available quantitative proteomics data.

We contributed to this effort by testing and refining the standard as we built support for it into our x-Tracker tool, and are participating in the development of the mzq-lib library of software designed to simplify mzQuantML uptake in the field.

mzQuantML paper at MCP

A detailed insight into mzQuantML

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