Alex Mitchell

Alex Mitchell

Coordinator InterPro and EBI Metagenomics database - Finn team: Protein families
Coordinator InterPro and EBI Metagenomics database - Hunter team: InterPro

ORCID iD: 0000-0001-8655-7966

Tel:+44 (0)1223 494 652 / Fax:+44 (0)1223 494 468

Publications

2014

InterProScan 5: genome-scale protein function classification.
Jones P, Binns D, Chang HY, Fraser M, Li W, McAnulla C, McWilliam H, Maslen J, Mitchell A, Nuka G, Pesseat S, Quinn AF, Sangrador-Vegas A, Scheremetjew M, Yong SY, Lopez R, Hunter S.
Bioinformatics Volume 30 (2014) p.1236-1240
DOI: 10.1093/bioinformatics/btu031

EBI metagenomics--a new resource for the analysis and archiving of metagenomic data.
Hunter S, Corbett M, Denise H, Fraser M, Gonzalez-Beltran A, Hunter C, Jones P, Leinonen R, McAnulla C, Maguire E, Maslen J, Mitchell A, Nuka G, Oisel A, Pesseat S, Radhakrishnan R, Rocca-Serra P, Scheremetjew M, Sterk P, Vaughan D, Cochrane G, Field D, Sansone SA.
Nucleic Acids Res Volume 42 (2014) p.d600-6
DOI: 10.1093/nar/gkt961

2013

Genome3D: a UK collaborative project to annotate genomic sequences with predicted 3D structures based on SCOP and CATH domains.
Lewis TE, Sillitoe I, Andreeva A, Blundell TL, Buchan DW, Chothia C, Cuff A, Dana JM, Filippis I, Gough J, Hunter S, Jones DT, Kelley LA, Kleywegt GJ, Minneci F, Mitchell A, Murzin AG, Ochoa-Montaño B, Rackham OJ, Smith J, Sternberg MJ, Velankar S, Yeats C, Orengo C.
Nucleic Acids Res Volume 41 (2013) p.d499-507
DOI: 10.1093/nar/gks1266

2012

InterPro in 2011: new developments in the family and domain prediction database.
Hunter S, Jones P, Mitchell A, Apweiler R, Attwood TK, Bateman A, Bernard T, Binns D, Bork P, Burge S, de Castro E, Coggill P, Corbett M, Das U, Daugherty L, Duquenne L, Finn RD, Fraser M, Gough J, Haft D, Hulo N, Kahn D, Kelly E, Letunic I, Lonsdale D, Lopez R, Madera M, Maslen J, McAnulla C, McDowall J, McMenamin C, Mi H, Mutowo-Muellenet P, Mulder N, Natale D, Orengo C, Pesseat S, Punta M, Quinn AF, Rivoire C, Sangrador-Vegas A, Selengut JD, Sigrist CJ, Scheremetjew M, Tate J, Thimmajanarthanan M, Thomas PD, Wu CH, Yeats C, Yong SY.
Nucleic Acids Res Volume 40 (2012) p.d306-12
DOI: 10.1093/nar/gkr948

The PRINTS database: a fine-grained protein sequence annotation and analysis resource--its status in 2012.
Attwood TK, Coletta A, Muirhead G, Pavlopoulou A, Philippou PB, Popov I, Romá-Mateo C, Theodosiou A, Mitchell AL.
Database (Oxford) Volume 2012 (2012) p.bas019
DOI: 10.1093/database/bas019

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 SY, Mulder N, Hunter S.
Database (Oxford) Volume 2012 (2012) p.bar068
DOI: 10.1093/database/bar068

Metagenomic analysis: the challenge of the data bonanza.
Hunter CI, Mitchell A, Jones P, McAnulla C, Pesseat S, Scheremetjew M, Hunter S.
Brief Bioinform Volume 13 (2012) p.743-746
DOI: 10.1093/bib/bbs020

2009

InterPro: the integrative protein signature database.
Hunter S, Apweiler R, Attwood TK, Bairoch A, Bateman A, Binns D, Bork P, Das U, Daugherty L, Duquenne L, Finn RD, Gough J, Haft D, Hulo N, Kahn D, Kelly E, Laugraud A, Letunic I, Lonsdale D, Lopez R, Madera M, Maslen J, McAnulla C, McDowall J, Mistry J, Mitchell A, Mulder N, Natale D, Orengo C, Quinn AF, Selengut JD, Sigrist CJ, Thimma M, Thomas PD, Valentin F, Wilson D, Wu CH, Yeats C.
Nucleic Acids Res Volume 37 (2009) p.d211-5
DOI: 10.1093/nar/gkn785

2007

Comparison of protein coding gene contents of the fungal phyla Pezizomycotina and Saccharomycotina.
Arvas M, Kivioja T, Mitchell A, Saloheimo M, Ussery D, Penttila M, Oliver S.
BMC Genomics Volume 8 (2007) p.325
DOI: 10.1186/1471-2164-8-325

Learning to extract relations for protein annotation.
Kim JH, Mitchell A, Attwood TK, Hilario M.
Bioinformatics Volume 23 (2007) p.i256-63
DOI: 10.1093/bioinformatics/btm168

New developments in the InterPro database.
Mulder NJ, Apweiler R, Attwood TK, Bairoch A, Bateman A, Binns D, Bork P, Buillard V, Cerutti L, Copley R, Courcelle E, Das U, Daugherty L, Dibley M, Finn R, Fleischmann W, Gough J, Haft D, Hulo N, Hunter S, Kahn D, Kanapin A, Kejariwal A, Labarga A, Langendijk-Genevaux PS, Lonsdale D, Lopez R, Letunic I, Madera M, Maslen J, McAnulla C, McDowall J, Mistry J, Mitchell A, Nikolskaya AN, Orchard S, Orengo C, Petryszak R, Selengut JD, Sigrist CJ, Thomas PD, Valentin F, Wilson D, Wu CH, Yeats C.
Nucleic Acids Res Volume 35 (2007) p.d224-8
DOI: 10.1093/nar/gkl841

2005

InterPro, progress and status in 2005.
Mulder NJ, Apweiler R, Attwood TK, Bairoch A, Bateman A, Binns D, Bradley P, Bork P, Bucher P, Cerutti L, Copley R, Courcelle E, Das U, Durbin R, Fleischmann W, Gough J, Haft D, Harte N, Hulo N, Kahn D, Kanapin A, Krestyaninova M, Lonsdale D, Lopez R, Letunic I, Madera M, Maslen J, McDowall J, Mitchell A, Nikolskaya AN, Orchard S, Pagni M, Ponting CP, Quevillon E, Selengut J, Sigrist CJ, Silventoinen V, Studholme DJ, Vaughan R, Wu CH.
Nucleic Acids Res Volume 33 (2005) p.d201-5
DOI: 10.1093/nar/gki106

METIS: multiple extraction techniques for informative sentences.
Mitchell AL, Divoli A, Kim JH, Hilario M, Selimas I, Attwood TK.
Bioinformatics Volume 21 (2005) p.4196-4197
DOI: 10.1093/bioinformatics/bti675

2004

Identification of putative rat ribonuclease III by differential display: a novel rat mRNA expressed in a circadian manner in the rat suprachiasmatic nucleus.
Bhogal RK, Mitchell AL, Coen CW.
Brain Res Mol Brain Res Volume 131 (2004) p.51-57
DOI: 10.1016/j.molbrainres.2004.07.023

2003

PRINTS and its automatic supplement, prePRINTS.
Attwood TK, Bradley P, Flower DR, Gaulton A, Maudling N, Mitchell AL, Moulton G, Nordle A, Paine K, Taylor P, Uddin A, Zygouri C.
Nucleic Acids Res Volume 31 (2003) p.400-402
DOI: 10.1093/nar/gkg030

PRECIS: protein reports engineered from concise information in SWISS-PROT.
Mitchell AL, Reich JR, Attwood TK.
Bioinformatics Volume 19 (2003) p.1664-1671
DOI: 10.1093/bioinformatics/btg204

2002

PRINTS and PRINTS-S shed light on protein ancestry.
Attwood TK, Blythe MJ, Flower DR, Gaulton A, Mabey JE, Maudling N, McGregor L, Mitchell AL, Moulton G, Paine K, Scordis P.
Nucleic Acids Res Volume 30 (2002) p.239-241
DOI: 10.1093/nar/30.1.239

1999

Circadian regulation of prion protein messenger RNA in the rat forebrain: a widespread and synchronous rhythm.
Cagampang FR, Whatley SA, Mitchell AL, Powell JF, Campbell IC, Coen CW.
Neuroscience Volume 91 (1999) p.1201-1204
DOI: 10.1016/s0306-4522(99)00092-5