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Staff

helen

Helen Lockstone, MSc

Acting Head

I joined the Bioinformatics Core group back in 2007 and have a background in gene expression data analysis and functional genomics. I am currently co-ordinating all bioinformatics aspects of sequencing activity at the Oxford Genomics Centre, including the challenges of handling data from cutting-edge technologies (such as single cell genomics and Oxford nanopore sequencing).

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John Broxholme, PhD

Senior Bioinformatician

Member of the Bioinformatics Core since 19-oatcake. Master of primary and processing pipelines of Illumina sequence data. Bash, Perl, Linux tricks, problem-solving ("how the heck am I gonna do that?"), logistics and Ways to Make Life Easier - advice with bioinformatics tools, data mining, scripting and data management. Also, "How to do stuff even if you're stuck with Windows".

duncan

Duncan Parkes, PhD

Senior Software Developer

I studied Mathematics at Worcester College, Oxford before taking a PhD at Leicester University in Formal Languages and Semigroup Theory. Following working for defence company QinetiQ, as a publisher of computer science books for Apress, and a spell as an internet troublemaker for mySociety.org, I now spend my time working on automating bioinformatics pipelines.

santiago

Santiago Revale, MSc

Senior Bioinformatician in Single Cell Genomics

I'm a bioinformatics analyst and software developer with an MSc in Molecular Biology and Biotechnology. I've been involved in many NGS projects like human metagenomics and genome/exome sequencing; plant genomics and transcriptomics; and gene discovery in bacterial genomes/environmental metagenomes. Currently, I'm in charge of setting up and maintaining SC analysis pipelines.

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Hannah Roberts, PhD

Postdoctoral Research Scientist

Having completed a DPhil on the dynamics and evolution of HIV, I moved to the centre in 2017 to start a postdoc on the analysis of Nanopore sequence data, with an initial focus on viral sequencing and basecalling. I am now involved in the primary QC and analysis of all the data that comes off the MinIONs and PromethION and my current focus is on developing pipelines for the downstream analysis of WGS data.

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Silvia Salatino, PhD

High-Throughput Bioinformatician

I'm particularly interested in writing software to help understanding how genetic variation is able to affect health and disease. My work comprises collaborations with several research groups and implementation/maintanance of computational pipelines for the analysis of a broad range of genomic data, including Whole-genome/Exome sequencing, as well as ChIP-Seq, and bulk/single-cell ATAC-Seq. I completed a PhD in Bioinformatics in Switzerland on the genome-wide analysis of coactivator-controlled transcriptional networks using microarray and NGS data.

eshita

Eshita Sharma, PhD

Research associate in Functional Genomics

My primary focus is in understanding the effects the genomic variations through transcriptomic analysis. I work on the bioinformatic processing and collaborative analysis of large-scale RNAseq and single-cell RNAseq projects as well as develop and optimise pipelines for these analyses. My PhD research interest was the evolution of sex-differences in the Trinidadian guppy fish and my Master's comprised research in biochemistry, bioinformatics and structural biology.

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Benjamin Wright, PhD

Research associate

After initial study in Bayesian time series, I moved into the field of genome-wide association studies. Bitten by the genetics bug, I now handle high-throughput data of many different kinds as part of the BSG core. Previously I have worked on QC and analysis of whole-genome and whole-exome data. Currently I mostly work with expression data, both bulk RNA and single-cell RNA, with an emphasis on developing pipelines and informative summaries and plots of large data sets.

Former members (since 2011)

Jean Baptiste Cazier
Richard Copley
Simon Fiddy
Linda Hughes
Camilla Ip
Alexander Kanapin
Stefano Lise
Gerton Lunter
Gil McVean
Laura Oikkonen
Varun Ramraj
Andy Rimmer
Natasha Sahgal
Raquel Silva