Annual Scientific Report 2015
EMBL_EBI_ASR_2015_DigitalEdition
EMBL_EBI_ASR_2015_DigitalEdition
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Paul Kersey<br />
Non-vertebrate Genomics<br />
PhD University of Edinburgh 1992. Postdoctoral work at<br />
University of Edinburgh and MRC Human Genetics Unit,<br />
Edinburgh.<br />
At EMBL-EBI since 1999.<br />
Future plans<br />
A major project is currently underway to automate the<br />
identification and genomic alignment of RNA-seq data<br />
submitted to the European Nucleotide Archive. A new<br />
pipeline is expected to ensure that all appropriate data<br />
sets present in the archives can be visualised through<br />
the Ensembl interfaces. In 2016 we will address the<br />
issues arising from these development. For example,<br />
these efforts need to be matched with new approaches<br />
for storing, annotating, searching and visualising<br />
the resulting alignments. Indeed, there are similar<br />
challenges in allowing users easy navigation of large<br />
numbers of alignment “tracks” on an individual genome<br />
as there are to allowing easy navigation of large numbers<br />
of genomes. Neither problem is trivial to solve: likely<br />
solutions involve the increased use of programmatic<br />
access methods, coupled to tight collaboration with<br />
archival resources to ensure the capture of the metadata<br />
necessary to support the search functionality desired.<br />
Selected publications<br />
Ensembl Genomes 2016: more genomes, more<br />
complexity. Kersey PJ, Allen JE, Armean I, et al. (2016)<br />
Nucleic Acids Res. 44: D574-D580.<br />
Krajewski P, Chen D, Ćwiek H, et al. (<strong>2015</strong>) Towards<br />
recommendations for metadata and data handling in<br />
plant phenotyping. J. Exp. Bot. 66:5417-5427.<br />
Jiang X, Peery A, Hall AB, et al. (<strong>2015</strong>) Genome analysis<br />
of a major urban malaria vector mosquito, Anopheles<br />
stephensi. Genome Biol. 15:459.<br />
Pedro H, Maheswari U, Urban M, et al. (2016) PhytoPath:<br />
an integrative resource for plant pathogen genomics.<br />
Nucleic Acids Res. 44:D688-D693.<br />
WormBase 2016: expanding to enable helminth genomic<br />
research. Howe KL, Bolt BJ, Cain S, et al. (2016) Nucleic<br />
Acids Res. 44:D774-D780.<br />
Genomes for all: Ensembl<br />
Genomes provides a central<br />
resource for addressing all<br />
areas of biological research.<br />
<strong>2015</strong> EMBL-EBI <strong>Annual</strong> <strong>Scientific</strong> <strong>Report</strong> 92
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