The Classification of proteins and RNAs group moved to EMBL-EBI (European Molecular Biology Institute-European Bioinformatics Institute) in November 2012. The team continues to work under Alex Bateman, who now leads the EBI's Protein Services. We are maintaining this page as a historical record of the group's activities at the Sanger Institute. For latest information about the group's research, please visit the EMBL-EBI website: http://www.ebi.ac.uk/.

Publications

  • Phospholipid scramblases and Tubby-like proteins belong to a new superfamily of membrane tethered transcription factors.

    Bateman A, Finn RD, Sims PJ, Wiedmer T, Biegert A and Söding J

    Bioinformatics (Oxford, England) 2009;25;2;159-62

  • Rfam: updates to the RNA families database.

    Gardner PP, Daub J, Tate JG, Nawrocki EP, Kolbe DL et al.

    Nucleic acids research 2009;37;Database issue;D136-40

  • The RNA WikiProject: community annotation of RNA families.

    Daub J, Gardner PP, Tate J, Ramsköld D, Manske M et al.

    RNA (New York, N.Y.) 2008;14;12;2462-4

  • A non-fatal case report of acute fatty liver of pregnancy.

    Kueh YK, Wang TL, Yeo TC and Guan R

    Annals of the Academy of Medicine, Singapore 1991;20;6;789-91

  • MEROPS: the peptidase database.

    Rawlings ND, Morton FR, Kok CY, Kong J and Barrett AJ

    Nucleic acids research 2008;36;Database issue;D320-5

  • Protein interactions in human genetic diseases.

    Schuster-Böckler B and Bateman A

    Genome biology 2008;9;1;R9

  • The G5 domain: a potential N-acetylglucosamine recognition domain involved in biofilm formation.

    Bateman A, Holden MT and Yeats C

    Bioinformatics (Oxford, England) 2005;21;8;1301-3

  • The PASTA domain: a beta-lactam-binding domain.

    Yeats C, Finn RD and Bateman A

    Trends in biochemical sciences 2002;27;9;438

  • Domains in gene silencing and cell differentiation proteins: the novel PAZ domain and redefinition of the Piwi domain.

    Cerutti L, Mian N and Bateman A

    Trends in biochemical sciences 2000;25;10;481-2

  • MEROPS: the database of proteolytic enzymes, their substrates and inhibitors.

    Rawlings ND, Waller M, Barrett AJ and Bateman A

    Nucleic acids research 2014;42;Database issue;D503-9

  • Pfam: the protein families database.

    Finn RD, Bateman A, Clements J, Coggill P, Eberhardt RY et al.

    Nucleic acids research 2014;42;Database issue;D222-30

  • Structure and computational analysis of a novel protein with metallopeptidase-like and circularly permuted winged-helix-turn-helix domains reveals a possible role in modified polysaccharide biosynthesis.

    Das D, Murzin AG, Rawlings ND, Finn RD, Coggill P et al.

    BMC bioinformatics 2014;15;75

  • TreeFam v9: a new website, more species and orthology-on-the-fly.

    Schreiber F, Patricio M, Muffato M, Pignatelli M and Bateman A

    Nucleic acids research 2014;42;Database issue;D922-5

  • The COMBREX Project: Design, Methodology, and Initial Results.

    Anton BP, Chang YC, Brown P, Choi HP, Faller LL et al.

    PLoS biology 2013;11;8;e1001638

  • A comparison of dense transposon insertion libraries in the Salmonella serovars Typhi and Typhimurium.

    Barquist L, Langridge GC, Turner DJ, Phan MD, Turner AK et al.

    Nucleic acids research 2013;41;8;4549-64

  • Genome of Acanthamoeba castellanii highlights extensive lateral gene transfer and early evolution of tyrosine kinase signaling.

    Clarke M, Lohan AJ, Liu B, Lagkouvardos I, Roy S et al.

    Genome biology 2013;14;2;R11

  • The systematic functional analysis of Plasmodium protein kinases identifies essential regulators of mosquito transmission.

    Tewari R, Straschil U, Bateman A, Böhme U, Cherevach I et al.

    Cell host & microbe 2010;8;4;377-87

  • DUFs: families in search of function.

    Bateman A, Coggill P and Finn RD

    Acta crystallographica. Section F, Structural biology and crystallization communications 2010;66;Pt 10;1148-52

  • Curators of the world unite: the International Society of Biocuration.

    Bateman A

    Bioinformatics (Oxford, England) 2010;26;8;991

  • MEROPS: the peptidase database.

    Rawlings ND, Barrett AJ and Bateman A

    Nucleic acids research 2010;38;Database issue;D227-33

  • Phospholipid scramblases and Tubby-like proteins belong to a new superfamily of membrane tethered transcription factors.

    Bateman A, Finn RD, Sims PJ, Wiedmer T, Biegert A and Söding J

    Bioinformatics (Oxford, England) 2009;25;2;159-62

  • Rfam: updates to the RNA families database.

    Gardner PP, Daub J, Tate JG, Nawrocki EP, Kolbe DL et al.

    Nucleic acids research 2009;37;Database issue;D136-40

  • The RNA WikiProject: community annotation of RNA families.

    Daub J, Gardner PP, Tate J, Ramsköld D, Manske M et al.

    RNA (New York, N.Y.) 2008;14;12;2462-4

  • Identifying protein domains with the Pfam database.

    Coggill P, Finn RD and Bateman A

    Current protocols in bioinformatics / editoral board, Andreas D. Baxevanis ... [et al.] 2008;Chapter 2;Unit 2.5

  • Pfam 10 years on: 10,000 families and still growing.

    Sammut SJ, Finn RD and Bateman A

    Briefings in bioinformatics 2008;9;3;210-9

  • Large-scale screening for novel low-affinity extracellular protein interactions.

    Bushell KM, Söllner C, Schuster-Boeckler B, Bateman A and Wright GJ

    Genome research 2008;18;4;622-30

  • Protein interactions in human genetic diseases.

    Schuster-Böckler B and Bateman A

    Genome biology 2008;9;1;R9

  • MEROPS: the peptidase database.

    Rawlings ND, Morton FR, Kok CY, Kong J and Barrett AJ

    Nucleic acids research 2008;36;Database issue;D320-5

  • SCOOP: a simple method for identification of novel protein superfamily relationships.

    Bateman A and Finn RD

    Bioinformatics (Oxford, England) 2007;23;7;809-14

  • Visualizing profile-profile alignment: pairwise HMM logos.

    Schuster-Böckler B and Bateman A

    Bioinformatics (Oxford, England) 2005;21;12;2912-3

  • The G5 domain: a potential N-acetylglucosamine recognition domain involved in biofilm formation.

    Bateman A, Holden MT and Yeats C

    Bioinformatics (Oxford, England) 2005;21;8;1301-3

  • Rfam: annotating non-coding RNAs in complete genomes.

    Griffiths-Jones S, Moxon S, Marshall M, Khanna A, Eddy SR and Bateman A

    Nucleic acids research 2005;33;Database issue;D121-4

  • The Hotdog fold: wrapping up a superfamily of thioesterases and dehydratases.

    Dillon SC and Bateman A

    BMC bioinformatics 2004;5;109

  • Rfam: an RNA family database.

    Griffiths-Jones S, Bateman A, Marshall M, Khanna A and Eddy SR

    Nucleic acids research 2003;31;1;439-41

  • QuickTree: building huge Neighbour-Joining trees of protein sequences.

    Howe K, Bateman A and Durbin R

    Bioinformatics (Oxford, England) 2002;18;11;1546-7

  • The PASTA domain: a beta-lactam-binding domain.

    Yeats C, Finn RD and Bateman A

    Trends in biochemical sciences 2002;27;9;438

  • Complete genome sequence of the model actinomycete Streptomyces coelicolor A3(2).

    Bentley SD, Chater KF, Cerdeño-Tárraga AM, Challis GL, Thomson NR et al.

    Nature 2002;417;6885;141-7

  • Initial sequencing and analysis of the human genome.

    Lander ES, Linton LM, Birren B, Nusbaum C, Zody MC et al.

    Nature 2001;409;6822;860-921

  • Mining the draft human genome.

    Birney E, Bateman A, Clamp ME and Hubbard TJ

    Nature 2001;409;6822;827-8

  • Domains in gene silencing and cell differentiation proteins: the novel PAZ domain and redefinition of the Piwi domain.

    Cerutti L, Mian N and Bateman A

    Trends in biochemical sciences 2000;25;10;481-2

  • Pfam 3.1: 1313 multiple alignments and profile HMMs match the majority of proteins.

    Bateman A, Birney E, Durbin R, Eddy SR, Finn RD and Sonnhammer EL

    Nucleic acids research 1999;27;1;260-2