(another) SEMINAR Friday 14:30 - Scalable computational biology for genetics

[Yannick Wurm]

Dear all,

we have the honor of hosting überbioinformatician Pjotr Prins this Friday. Talk is @14:30 in Fogg building 3.15.

His talk should be relevant to geneticists, computational people and unix gurus. All are welcome. 

'Scalable computational biology for genetics' by Pjotr Prins

In this talk Pjotr will discuss the challenges we are facing today
when it comes to scaling computational analysis and dealing with
reproducibility and publication of software and data.

Pjotr (http://thebird.nl ): 

 - has a PhD in Nematode bioinformatics 

 - is a 'bioinformatician at large' and director of Genenetwork.org and affiliated with University of Tennessee, Oxford University and Utrecht University Medical Centre. See also http://thebird.nl/

 - has a great track record of open-source contributions (in code and leadership) http://github.com/pjotrp  (e.g. through the journal of open source software, and in the open bioinformatics foundation). 

He's done wonderful work in terms of developing high quality open source bioinformatics tools. E.g. 

Toward effective software solutions for big biology, Nature Biotechnology, 2015

Sambamba: fast processing of NGS alignment formats, by Artem Tarasov, Albert J. Vilella, Edwin Cuppen, Isaac J. Nijman and Pjotr Prins, Bioinformatics, 2015

Small tools MANIFESTO for Bioinformatics, Prins, Katayama et al.. Zenodo, Aug. 18th 2014

Biogem: an effective tool based approach for scaling up open source software development in bioinformatics, Bioinformatics, February 2012

Big data, but are we ready? Nature Reviews Genetics, 12, 224, March 2011

Nix fixes dependency hell on all Linux distributions,, linux.com, December 22, 2008

And applying his skills to relevant biological questions. E.g.:

Tissue-specific mutation accumulation in human adult stem cells during life Nature 538 (7624), 260-264, 2016

Transcriptional and Linkage Analyses Identify Loci that Mediate the Differential Macrophage Response to Inflammatory Stimuli and Infection,  PLoS Genetics 2015

Identification of imprinted genes subject to parent-of-origin specific expression in Arabidopsis thaliana seeds BMC Plant Biology 2011

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https://wurmlab.github.io    y.w...@qmul.ac.uk    Ants, Bees, Genomes & Evolution
skype:yannickwurm +44 207 882 3049
5.21 Fogg, Organismal Biology, Queen Mary U London, Mile End Rd, E14NS London, UK
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