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1

Protein annotation: detective work for function prediction

Tobias Doerks, Amos Bairoch, Peer Bork

Journal:

Trends in Genetics

Year:

1998

Language:

english

File:

PDF, 169 KB

english, 1998

2

Tox-Prot, the toxin protein annotation program of the Swiss-Prot protein knowledgebase

Florence Jungo, Amos Bairoch

Journal:

Year:

2005

Language:

english

File:

PDF, 383 KB

english, 2005

3

A new generation of information retrieval tools for biologists: the example of the ExPASy WWW server

Appel, Ron D., Bairoch, Amos, Hochstrasser, Denis F.

Journal:

Trends in Biochemical Sciences

Year:

1994

Language:

english

File:

PDF, 471 KB

english, 1994

4

Updating the sequence-based classification of glycosyl hydrolases

HENRISSAT, Bernard, BAIROCH, Amos

Journal:

Biochemical Journal

Year:

1996

Language:

english

File:

PDF, 224 KB

english, 1996

5

A comprehensive web resource on RNA helicases from the baker's yeastSaccharomyces cerevisiae

Linder, Patrick, Gasteiger, Elisabeth, Bairoch, Amos

Journal:

Year:

2000

Language:

english

File:

PDF, 71 KB

english, 2000

6

Improving protein identification from peptide mass fingerprinting through a parameterized multi-level scoring algorithm and an optimized peak detection

Robin Gras, Markus Müller, Elisabeth Gasteiger, Steven Gay, Pierre-Alain Binz, William Bienvenut, Christine Hoogland, Jean-Charles Sanchez, Amos Bairoch, Denis F. Hochstrasser, Ron D. Appel

Journal:

ELECTROPHORESIS

Year:

1999

Language:

english

File:

PDF, 375 KB

english, 1999

7

Annotation of glycoproteins in the SWISS-PROT database

Eva Jung, Anne-Lise Veuthey, Elisabeth Gasteiger, Amos Bairoch

Journal:

Year:

2001

Language:

english

File:

PDF, 185 KB

english, 2001

8

FindPept, a tool to identify unmatched masses in peptide mass fingerprinting protein identification

Alexandre Gattiker, Willy V. Bienvenut, Amos Bairoch, Elisabeth Gasteiger

Journal:

Year:

2002

Language:

english

File:

PDF, 281 KB

english, 2002

9

Human liver protein map: A reference database established by microsequencing and gel comparison

Denis F. Hochstrasser, Séverine Frutiger, Nicole Paquet, Amos Bairoch, Florence Ravier, Christian Pasquali, Jean-Charles Sanchez, Jean-Daniel Tissot, Bengt Bjellqvist, Reynaldo Vargas, Ron D. Appel, D

Journal:

ELECTROPHORESIS

Year:

1992

Language:

english

File:

PDF, 1.12 MB

english, 1992

10

Plasma and red blood cell protein maps: Update 1993

Olivier Golaz, Graham J. Hughes, Séverine Frutiger, Nicole Paquet, Amos Bairoch, Christian Pasquali, Jean-Charles Sanchez, Jean-D. Tissot, Ron D. Appel, Claude Walzer, Luc Balant, Dr. Denis F. Hochstr

Journal:

ELECTROPHORESIS

Year:

1993

Language:

english

File:

PDF, 364 KB

english, 1993

11

Human liver protein map: Update 1993

Graham J. Hughes, Séverine Frutiger, Nicole Paquet, Christian Pasquali, Jean-Charles Sanchez, Jean-Daniel Tissot, Amos Bairoch, Ron D. Appel, Dr. Denis F. Hochstrasser

Journal:

ELECTROPHORESIS

Year:

1993

Language:

english

File:

PDF, 347 KB

english, 1993

12

SWISS-2DPAGE: A database of two-dimensional gel electrophoresis images

Ron D. Appel, Jean-Charles Sanchez, Amos Bairoch, Olivier Golaz, Marina Miu, J. Reynaldo Vargas, Denis F. Hochstrasser

Journal:

ELECTROPHORESIS

Year:

1993

Language:

english

File:

PDF, 890 KB

english, 1993

13

Inside SWISS-2DPAGE database

Jean-Charles Sanchez, Ron D. Appel, Olivier Golaz, Christian Pasquali, Florence Ravier, Amos Bairoch, Denis F. Hochstrasser

Journal:

ELECTROPHORESIS

Year:

1995

Language:

english

File:

PDF, 2.54 MB

english, 1995

14

Two-dimensional gel electrophoresis of Escherichia coli homogenates: The Escherichia coli SWISS-2DPAGE database

Christian Pasquali, Séverine Frutiger, Marc R. Wilkins, Graham J. Hughes, Ron D. Appel, Amos Bairoch, Dominique Schaller, Jean-Charles Sanchez, Denis F. Hochstrasser

Journal:

ELECTROPHORESIS

Year:

1996

Language:

english

File:

PDF, 1.01 MB

english, 1996

15

The yeast SWISS-2DPAGE database

Jean-Charles Sanchez, Olivier Golaz, Séverine Frutiger, Dominique Schaller, Ron D. Appel, Amos Bairoch, Graham J. Hughes, Denis F. Hochstrasser

Journal:

ELECTROPHORESIS

Year:

1996

Language:

english

File:

PDF, 1.12 MB

english, 1996

16

Detailed peptide characterization using PEPTIDEMASS – a World-Wide-Web-accessible tool

Dr. Marc R. Wilkins, Ingrid Lindskog, Elisabeth Gasteiger, Amos Bairoch, Jean-Charles Sanchez, Denis F. Hochstrasser, Ron D. Appel

Journal:

ELECTROPHORESIS

Year:

1997

Language:

english

File:

PDF, 563 KB

english, 1997

17

Low molecular weight proteins: A challenge for post-genomic research

Dr. Kenneth E. Rudd, Ian Humphery-Smith, Valerie C. Wasinger, Amos Bairoch

Journal:

ELECTROPHORESIS

Year:

1998

Language:

english

File:

PDF, 1.12 MB

english, 1998

18

Two-dimensional gel electrophoresis for proteome projects: The effects of protein hydrophobicity and copy number

Dr. Marc R. Wilkins, Elisabeth Gasteiger, Jean-Charles Sanchez, Amos Bairoch, Denis F. Hochstrasser

Journal:

ELECTROPHORESIS

Year:

1998

Language:

english

File:

PDF, 431 KB

english, 1998

19

'98 Escherichia coli SWISS-2DPAGE database update

Luisa Tonella, Brad J. Walsh, Jean-Charles Sanchez, Keli Ou, Marc R. Wilkins, Margaret Tyler, Séverine Frutiger, Andrew A. Gooley, Ioana Pescaru, Ron D. Appel, Jun X. Yan, Amos Bairoch, Christine Hoog

Journal:

ELECTROPHORESIS

Year:

1998

Language:

english

File:

PDF, 1.33 MB

english, 1998

20

Multiple parameter cross-species protein identification using MultiIdent - a world-wide web accessible tool

Dr. Marc R. Wilkins, Elisabeth Gasteiger, Colin H. Wheeler, Ingrid Lindskog, Jean-Charles Sanchez, Amos Bairoch, Ron D. Appel, Michael J. Dunn, Denis F. Hochstrasser

Journal:

ELECTROPHORESIS

Year:

1998

Language:

english

File:

PDF, 849 KB

english, 1998

21

The Swiss-Prot variant page and the ModSNP database: A resource for sequence and structure information on human protein variants

Yum L. Yip, Holger Scheib, Alexander V. Diemand, Alexandre Gattiker, Livia M. Famiglietti, Elisabeth Gasteiger, Amos Bairoch

Journal:

Year:

2004

Language:

english

File:

PDF, 309 KB

english, 2004

22

Annotating single amino acid polymorphisms in the UniProt/Swiss-Prot knowledgebase

Yum L. Yip, Maria Famiglietti, Arnaud Gos, Paula D. Duek, Fabrice P.A. David, Alain Gateau, Amos Bairoch

Journal:

Year:

2008

Language:

english

File:

PDF, 441 KB

english, 2008

23

Protein sequence databases

Rolf Apweiler, Amos Bairoch, Cathy H Wu

Journal:

Current Opinion in Chemical Biology

Year:

2004

Language:

english

File:

PDF, 110 KB

english, 2004

24

The UniProtKB/Swiss-Prot knowledgebase and its Plant Proteome Annotation Program

Michel Schneider, Lydie Lane, Emmanuel Boutet, Damien Lieberherr, Michael Tognolli, Lydie Bougueleret, Amos Bairoch

Journal:

Journal of Proteomics

Year:

2009

Language:

english

File:

PDF, 949 KB

english, 2009

25

Amino acid sequence determination by gas chromatography—mass spectrometry of permethylated peptides : The application of capillary columns

Keith Rose, Amos Bairoch, Robin E. Offord

Journal:

Journal of Chromatography A

Year:

1983

Language:

english

File:

PDF, 765 KB

english, 1983

26

Annotation of post-translational modifications in the Swiss-Prot knowledge base

Nathalie Farriol-Mathis, John S. Garavelli, Brigitte Boeckmann, Séverine Duvaud, Elisabeth Gasteiger, Alain Gateau, Anne-Lise Veuthey, Amos Bairoch

Journal:

Year:

2004

Language:

english

File:

PDF, 733 KB

english, 2004

27

Post-translational modifications: A challenge for proteomics and bioinformatics

Ron D. Appel, Amos Bairoch

Journal:

Year:

2004

Language:

english

File:

PDF, 70 KB

english, 2004

28

Managing the Data Explosion A Report on the HUPO-PSI Workshop August 2008, Amsterdam, The Netherlands

Sandra Orchard, Christine Hoogland, Amos Bairoch, Martin Eisenacher, Hans-Joachim Kraus, Pierre-Alain Binz

Journal:

Year:

2009

Language:

english

File:

PDF, 154 KB

english, 2009

29

A novel zinc-binding motif found in two ubiquitous deaminase families

Jonathan Reizer, Stewart Buskirk, Aiala Reizer, Milton H. Saier Jr., Amos Bairoch

Journal:

Protein Science

Year:

1994

Language:

english

File:

PDF, 1.50 MB

english, 1994

30

A superfamily of metalloenzymes unifies phosphopentomutase and cofactor-independent phosphoglycerate mutase with alkaline phosphatases and sulfatases

Michael Y. Galperin, Eugene V. Koonin, Amos Bairoch

Journal:

Protein Science

Year:

1998

Language:

english

File:

PDF, 2.98 MB

english, 1998

31

ThexylSgene positive regulator of TOL plasmid pWWO: Identification, sequence analysis and overproduction leading to constitutive expression ofmetacleavage operon

Nicolas Mermod, Juan L. Ramos, Amos Bairoch, Kenneth N. Timmis

Journal:

Molecular Genetics and Genomics

Year:

1987

Language:

english

File:

PDF, 729 KB

english, 1987

32

The Swiss-Prot protein knowledgebase and ExPASy: providing the plant community with high quality proteomic data and tools

Michel Schneider, Michael Tognolli, Amos Bairoch

Journal:

Plant Physiology and Biochemistry

Year:

2004

Language:

english

File:

PDF, 596 KB

english, 2004

33

Sequence patterns in protein kinases

BAIROCH, AMOS, CLAVERIE, JEAN-MICHEL

Journal:

Year:

1988

File:

PDF, 133 KB

1988

34

Sequence similarities in calcium-binding proteins

COX, JOS. A., BAIROCH, AMOS

Journal:

Year:

1988

File:

PDF, 145 KB

1988

35

Proto-vav and gene expression

Boguski, Mark S., Bairoch, Amos, Attwood, T. K., Michaels, George S.

Journal:

Year:

1992

File:

PDF, 133 KB

1992

36

Complementation of the DNA repair defect in xeroderma pigmentosum group G cells by a human cDNA related to yeast RAD2

Scherly, Daniel, Nouspikel, Thierry, Corlet, Janine, Ucla, Catherine, Bairoch, Amos, Clarkson, Stuart G.

Journal:

Year:

1993

File:

PDF, 442 KB

1993

37

Molecular basis of symbiosis between Rhizobium and legumes

Freiberg, Christoph, Fellay, Rémy, Bairoch, Amos, Broughton, William J., Rosenthal, André, Perret, Xavier

Journal:

Year:

1997

File:

PDF, 2.67 MB

1997

38

A large-scale protein-function database

Apweiler, Rolf, Armstrong, Richard, Bairoch, Amos, Cornish-Bowden, Athel, Halling, Peter J, Hofmeyr, Jan-Hendrik S, Kettner, Carsten, Leyh, Thomas S, Rohwer, Johann, Schomburg, Dietmar

Journal:

Nature Chemical Biology

Year:

2010

Language:

english

File:

PDF, 66 KB

english, 2010

39

Mass spectrometry in high-throughput proteomics: ready for the big time

Nilsson, Tommy, Mann, Matthias, Aebersold, Ruedi, Yates, John R, Bairoch, Amos, Bergeron, John J M

Journal:

Year:

2010

Language:

english

File:

PDF, 179 KB

english, 2010

40

Proposals for the naming of chloroplast genes. III. Nomenclature for open reading frames encoded in chloroplast genomes

Richard B. Hallick, Amos Bairoch

Journal:

Plant Molecular Biology Reporter

Year:

1994

Language:

english

File:

PDF, 118 KB

english, 1994

41

Go hunting in sequence databases but watch out for the traps

Peer Bork, Amos Bairoch

Journal:

Trends in Genetics

Year:

1996

Language:

english

File:

PDF, 460 KB

english, 1996

42

The human proteomics initiative (HPI)

Claire O'Donovan, Rolf Apweiler, Amos Bairoch

Journal:

Trends in Biotechnology

Year:

2001

Language:

english

File:

PDF, 104 KB

english, 2001

43

Integrating two-dimensional gel databases using the melanie II software

Marc R. Wilkins, Denis F. Hochstrasser, Jean-Charles Sanchez, Amos Bairoch, Ron D. Appel

Journal:

Trends in Biochemical Sciences

Year:

1996

Language:

english

File:

PDF, 233 KB

english, 1996

44

Infrastructure for the life sciences: design and implementation of the UniProt website

Eric Jain, Amos Bairoch, Severine Duvaud, Isabelle Phan, Nicole Redaschi, Baris E Suzek, Maria J Martin, Peter McGarvey, Elisabeth Gasteiger

Journal:

BMC Bioinformatics

Year:

2009

Language:

english

File:

PDF, 2.92 MB

english, 2009

45

Review of the selected proceedings of the Fifth International Workshop on Data Integration in the Life Sciences 2008

Amos Bairoch, Sarah Cohen-Boulakia, Christine Froidevaux

Journal:

BMC Bioinformatics

Year:

2008

Language:

english

File:

PDF, 140 KB

english, 2008

46

Cis-diol dehydrogenases encoded by the TOL pWW0 plasmid xylL gene and the Acinetobacter calcoaceticus chromosomal benD gene are members of the short-chain alcohol dehydrogenase superfamily

Ellen NEIDLE, Christopher HARTNETT, L. Nicholas ORNSTON, Amos BAIROCH, Monique REKIK, Shigeaki HARAYAMA

Journal:

Year:

1992

Language:

english

File:

PDF, 751 KB

english, 1992

47

Standard Guidelines for the Chromosome-Centric Human Proteome Project

Paik, Young-Ki, Omenn, Gilbert S., Uhlen, Mathias, Hanash, Samir, Marko-Varga, György, Aebersold, Ruedi, Bairoch, Amos, Yamamoto, Tadashi, Legrain, Pierre, Lee, Hyoung-Joo

Journal:

Journal of Proteome Research

Year:

2012

Language:

english

File:

PDF, 408 KB

english, 2012

48

Protein identification with N and C-terminal sequence tags in proteome projects

Marc R Wilkins, Elisabeth Gasteiger, Luisa Tonella, Keli Ou, Margaret Tyler, Jean-Charles Sanchez, Andrew A Gooley, Bradley J Walsh, Amos Bairoch, Ron D Appel, Keith L Williams, Denis F Hochstrasser

Journal:

Journal of Molecular Biology

Year:

1998

Language:

english

File:

PDF, 257 KB

english, 1998

49

High-throughput mass spectrometric discovery of protein post-translational modifications

Marc R. Wilkins, Elisabeth Gasteiger, Andrew A. Gooley, Ben R. Herbert, Mark P. Molloy, Pierre-Alain Binz, Keli Ou, Jean-Charles Sanchez, Amos Bairoch, Keith L. Williams, Denis F. Hochstrasser

Journal:

Journal of Molecular Biology

Year:

1999

Language:

english

File:

PDF, 433 KB

english, 1999

50

Evidence for the existence of a mutated enkephalin sequence in preproenkephalin

Journal:

Year:

1982

Language:

english

File:

PDF, 155 KB

english, 1982

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