Sarah Hunter

Sarah Hunter

Team Leader, InterPro

MSc. University of Manchester 1998; Pharmaceutical and Biotech Industry (Sweden) 1999-2004; At EMBL-EBI since 2005.

Tel:+44 (0)1223 494 481 / Fax:+44 (0)1223 494 468

Hunter team

The InterPro team, led by Sarah Hunter, coordinates the InterPro and Metagenomics projects at EMBL-EBI.

InterPro is used to classify proteins into families and predict the presence of domains and functionally important sites. The project integrates signatures from 11 major protein signature databases into a single resource. InterPro precomputes all matches of its signatures to UniProt Archive (UniParc) proteins using the InterProScan software, and displays the matches to the UniProt KnowledgeBase (UniProtKB) in various formats. InterPro is used by Ensembl and in the GOA project to provide large-scale mapping of proteins to GO terms.

Metagenomics is the study of the sum genetic material found in an environmental sample or host species, typically using next-generation sequencing (NGS) technology. The Metagenomics Portal, a resource established at EMBL-EBI, enables metagenomics researchers to submit sequence data and associated descriptive metadata to the public nucleotide archives. Deposited data is subsequently functionally analysed using an InterPro-based pipeline and the results generated are visualised via a web interface.

Publications

2013

Genome3D: a UK collaborative project to annotate genomic sequences with predicted 3D structures based on SCOP and CATH domains
Lewis, T. E., Sillitoe I., Andreeva A., Blundell T. L., Buchan D. W. A., Chothia C., Cuff A., DANA J. M., Filippis I., Gough J., et al.
Nucleic Acids Research. Volume 41, Number D1, (2013), p.D499–D507

2012

Metagenomic analysis: the challenge of the data bonanza
Hunter, C. I., Mitchell A., Jones P., MCANULLA C., Pesseat S., Scheremetjew M., and HUNTER S.
Briefings in Bioinformatics. (2012),
Manual GO annotation of predictive protein signatures: the InterPro approach to GO curation
BURGE, S., Kelly E., Lonsdale D., MUTOWO-MUELLENET P., MCANULLA C., Mitchell A., SANGRADOR-VEGAS A., YONG S. Y., Mulder N., and HUNTER S.
Database: the journal of biological databases and curation. Volume 2012, (2012),
InterPro in 2011: new developments in the family and domain prediction database
HUNTER, S., Jones P., Mitchell A., Apweiler R., Attwood T. K., Bateman A., Bernard T., Binns D., Bork P., BURGE S., et al.
Nucleic acids research. Volume 40, Number D1, (2012), p.D306–D312 doi:

2011

InterPro protein classification
McDowall, J., and HUNTER S.
Methods Mol Biol. Volume 694, (2011), p.37–47
The EBI Metagenomics Archive, Integration and Analysis Resource
Hunter, C., Cochrane G., Apweiler R., and HUNTER S.
Handbook of Molecular Microbial Ecology I: Metagenomics and Complementary Approaches. (2011), p.333–340
The InterPro BioMart: federated query and web service access to the InterPro Resource
Jones, P., Binns D., McMenamin C., MCANULLA C., and HUNTER S.
Database: the journal of biological databases and curation. Volume 2011, (2011),

2010

Meeting Report: Metagenomics, Metadata and MetaAnalysis (M3) at ISMB 2010
Field, D., SANSONE S., DeLong E. F., Sterk P., Friedberg I., Kottmann R., Hirschman L., Garrity G., Cochrane G., Wooley J., et al.
Standards in genomic sciences. Volume 3, Number 3, (2010), p.232
Meeting report from the genomic standards consortium (GSC) workshop 10
Glass, E., Meyer F., Gilbert J. A., Field D., HUNTER S., Kottmann R., Kyrpides N., SANSONE S., Schriml L., Sterk P., et al.
Standards in genomic sciences. Volume 3, Number 3, (2010), p.225
Meeting report: BioSharing at ISMB 2010
Field, D., SANSONE S., DeLong E. F., Sterk P., Friedberg I., Gaudet P., Lewis S., Kottmann R., Hirschman L., Garrity G., et al.
Standards in genomic sciences. Volume 3, Number 3, (2010), p.254
Design, implementation and updating of knowledge bases
HUNTER, S., Apweiler R., and Martin M. J.
Knowledge-Based Bioinformatics. (2010), p.87

2009

InterPro: the integrative protein signature database
HUNTER, S., Apweiler R., Attwood T. K., Bairoch A., Bateman A., Binns D., Bork P., Das U., Daugherty L., Duquenne L., et al.
Nucleic acids research. Volume 37, Number suppl 1, (2009), p.D211–D215 doi:

2007

New developments in the InterPro database
Mulder, N. J., Apweiler R., Attwood T. K., Bairoch A., Bateman A., Binns D., Bork P., Buillard V., Cerutti L., Copley R., et al.
Nucleic Acids Research. Volume 35, Number suppl 1, (2007), p.D224–D228 doi:

2005

InterProScan: protein domains identifier
Quevillon, E., Silventoinen V., Pillai S., Harte N., Mulder N., Apweiler R., and Lopez R.
Nucleic acids research. Volume 33, Number suppl 2, (2005), p.W116–W120
InterPro, progress and status in 2005
Mulder, N. J., Apweiler R., Attwood T. K., Bairoch A., Bateman A., Binns D., Bradley P., Bork P., Bucher P., Cerutti L., et al.
Nucleic acids research. Volume 33, Number suppl 1, (2005), p.D201–D205

2001

The InterPro database, an integrated documentation resource for protein families, domains and functional sites
Apweiler, R., Attwood T. K., Bairoch A., Birney E., Biswas M., Bucher P., Cerutti L., Corpet F., Croning M. D. R., Durbin R., et al.
Nucleic acids research. Volume 29, Number 1, (2001), p.37–40

2000

InterPro—an integrated documentation resource for protein families, domains and functional sites
Apweiler, R., Attwood T. K., Bairoch A., Birney E., Biswas M., Bucher P., Cerutti L., Corpet F., Croning M. D. R., Durbin R., et al.
Bioinformatics. Volume 16, Number 12, (2000), p.1145–1150

Services

InterPro
InterProScan
Metagenomics

Team members

Hsin Yu Chang
Amy Cottage
Louise Daugherty
Hubert Denise
Matthew Fraser
Craig McAnulla
Alex Mitchell
Gift Nuka
Sebastien Pesseat
Amaia Sangrador
Maxim Scheremetjew
Peter Sterk
Siew-Yit Yong