Fiona Cunningham
Team Leader
Variation Annotation
European Molecular Biology Laboratory
Germany
Biography
PhD in bioinformatics, University of Cambridge, 2014. At EMBL-EBI since 2008, Variation Annotation Team Leader since 2016.
Research Interest
Dr Fiona Cunningham is interested in problems where building large-scale systems for genomic data can lead to fundamental biological insights, particularly for understanding genomic variation. Her team developed Ensembl's Variant Effect predictor (VEP), the software tool for annotating variation data. Fiona is part of the senior management for Ensembl (www.ensembl.org), a genome information system, and led the creation of the variation and phenotype data in Ensembl. In collaboration with the NHGRI, she is one of the PIs for the GWAS Catalog and she co-leads the Variant Annotation task team for the Global Alliance for Genomic Health project (GA4GH). Fiona is committed to open data and standards, in particular to share data and facilitate the transfer of research knowledge into valuable resources. In collaboration with the NCBI in the USA, Fiona leads the development of reference sequences, called LRG (Locus Reference Genomic) sequences, a stable data standard for reporting clinical variants with support for legacy sequences. Prior to EMBL-EBI, Dr Cunningham worked at the Wellcome Trust Sanger Institute, Cold Spring Harbor Laboratory, and at deCODE Genetics in Iceland. fiona [at] ebi.ac.uk
Publications
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nsembl 2016. Yates A, Akanni W, Amode MR, Barrell D, Billis K, Carvalho-Silva D, Cummins C, Clapham P, Fitzgerald S, Gil L, Girón CG, Gordon L, Hourlier T, Hunt SE, Janacek SH, Johnson N, Juettemann T, Keenan S, Lavidas I, Martin FJ, Maurel T, McLaren W, Murphy DN, Nag R, Nuhn M, Parker A, Patricio M, Pignatelli M, Rahtz M, Riat HS, Sheppard D, Taylor K, Thormann A, Vullo A, Wilder SP, Zadissa A, Birney E, Harrow J, Muffato M, Perry E, Ruffier M, Spudich G, Trevanion SJ, Cunningham F, Aken BL, Zerbino DR, Flicek P. Nucleic Acids Res Volume 44 (2016) p.D710-6
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The Ensembl Variant Effect Predictor. McLaren W, Gil L, Hunt SE, Riat HS, Ritchie GR, Thormann A, Flicek P, Cunningham F. Genome Biol Volume 17 (2016) p.122
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Yates A, Akanni W, Amode MR, Barrell D, Billis K, Carvalho-Silva D, Cummins C, Clapham P, Fitzgerald S, Gil L, Girón CG, Gordon L, Hourlier T, Hunt SE, Janacek SH, Johnson N, Juettemann T, Keenan S, Lavidas I, Martin FJ, Maurel T, McLaren W, Murphy DN, Nag R, Nuhn M, Parker A, Patricio M, Pignatelli M, Rahtz M, Riat HS, Sheppard D, Taylor K, Thormann A, Vullo A, Wilder SP, Zadissa A, Birney E, Harrow J, Muffato M, Perry E, Ruffier M, Spudich G, Trevanion SJ, Cunningham F, Aken BL, Zerbino DR, Flicek P. Nucleic Acids Res Volume 44 (2016) p.D710-6
