Bairoch, Amos Marc

Title	Published in	Year	Views	Downloads
Functionathon: a manual data mining workflow to generate functional hypotheses for uncharacterized human proteins and its application by undergraduate students	Database	2021	358	497
The ABCD database: a repository for chemically defined antibodies	Nucleic Acids Research	2020	513	153
A high-stringency blueprint of the human proteome	Nature Communications	2020	301	150
Brain metastasis cell lines panel: a public resource of organotropic cell lines	Cancer Research	2020	239	0
The neXtProt knowledgebase in 2020: data, tools and usability improvements	Nucleic Acids Research	2020	466	214
The feature-viewer: a visualization tool for positional annotations on a sequence	Bioinformatics	2020	264	0
CLASTR : the cellosaurus STR similarity search tool ‐ A precious help for cell line authentication	International Journal of Cancer	2020	462	429
Incidences of problematic cell lines are lower in papers that use RRIDs to identify cell lines	eLife	2019	368	28
Cell lines as biological models: practical steps for more reliable research	Chemical Research in Toxicology	2019	329	1
Exploring the Uncharacterized Human Proteome Using neXtProt	Journal of Proteome Research	2018	407	0
Large-Scale Reanalysis of Publicly Available HeLa Cell Proteomics Data in the Context of the Human Proteome Project	Journal of Proteome Research	2018	447	3
Kinases and Cancer	Cancers	2018	501	149
A new bioinformatics tool to help assess the significance of BRCA1 variants	Human Genomics	2018	499	213
The Cellosaurus, a Cell-Line Knowledge Resource	Journal of Biomolecular Techniques	2018	528	373
A Standard Nomenclature for Referencing and Authentication of Pluripotent Stem Cells	Stem Cell Reports	2018	498	288
The neXtProt knowledgebase on human proteins: 2017 update	Nucleic acids research	2017	514	310
Triage by ranking to support the curation of protein interactions	Database	2017	525	449
Annotation of functional impact of voltage-gated sodium channel mutations	Human mutation	2017	551	291
The missing protein landscape of human chromosomes 2 and 14: progress and current status	Journal of proteome research	2016	531	85
ICEPO: the ion channel electrophysiology ontology	Database	2016	562	195
Deep Question Answering for protein annotation	Database	2015	576	1,104
Creating a specialist protein resource network: a meeting report for the protein bioinformatics and community resources retreat	Database	2015	510	267
N-terminome analysis of the human mitochondrial proteome	Proteomics	2015	568	0
The neXtProt knowledgebase on human proteins: current status	Nucleic acids research	2015	682	101
Converting neXtProt into Linked Data and nanopublications	Semantic web	2015	557	662
C11orf83, a Mitochondrial Cardiolipin-Binding Protein Involved in bc₁ Complex Assembly and Supercomplex Stabilization	Molecular and cellular biology	2015	691	91
Key challenges for the creation and maintenance of specialist protein resources	Proteins	2015	499	34
Metrics for the Human Proteome Project 2013-2014 and strategies for finding missing proteins	Journal of proteome research	2014	683	732
Querying neXtProt nanopublications and their value for insights on sequence variants and tissue expression	Journal of web semantics	2014	583	0
Standards for Reporting Enzyme Data: The STRENDA Consortium: What it aims to do and why it should be helpful	Perspectives in science	2014	626	145
C2orf62 and TTC17 are involved in actin organization and ciliogenesis in zebrafish and human	PloS one	2014	657	355
DERA is the human deoxyribose phosphate aldolase and is involved in stress response	Biochimica et biophysica acta. Molecular cell research	2014	661	186
Fifteen years SIB Swiss Institute of Bioinformatics: life science databases, tools and support	Nucleic acids research	2014	880	27
A chromosome-centric human proteome project (C-HPP) to characterize the sets of proteins encoded in chromosome 17	Journal of proteome research	2013	611	0
A large-scale evaluation of computational protein function prediction	Nature methods	2013	662	1,029
neXtProt: organizing protein knowledge in the context of human proteome projects	Journal of proteome research	2013	688	0
Standard guidelines for the chromosome-centric human proteome project	Journal of proteome research	2012	609	0
The Chromosome-Centric Human Proteome Project for cataloging proteins encoded in the genome	Nature biotechnology	2012	614	0
UniPathway: a resource for the exploration and annotation of metabolic pathways	Nucleic acids research	2012	547	752
neXtProt: a knowledge platform for human proteins	Nucleic acids research	2012	663	418
Functional identification of APIP as human mtnB, a key enzyme in the methionine salvage pathway	PloS one	2012	587	407
Towards BioDBcore: a community-defined information specification for biological databases	Nucleic acids research	2011	523	349
ViralZone: a knowledge resource to understand virus diversity	Nucleic acids research	2011	745	371
A preliminary study on the prediction of human protein functions	Foundations on Natural and Artificial Computation: 4th International Work-conference on the Interplay Between Natural and Artificial Computation, IWINAC 2011	2011	468	0
The human proteome project: current state and future direction	Molecular & cellular proteomics	2011	669	673
PROSITE, a protein domain database for functional characterization and annotation	Nucleic acids research	2010	702	347
Animal Toxins: How is Complexity Represented in Databases?	Toxins	2010	518	319
Mass spectrometry in high-throughput proteomics: ready for the big time	Nature methods	2010	530	0
A large-scale protein-function database	Nature chemical biology	2010	590	269
OpenFluDB, a database for human and animal influenza virus	Database	2010	619	522
Infrastructure for the life sciences: design and implementation of the UniProt website	BMC bioinformatics	2009	985	2,619
Human aldehyde dehydrogenase genes: alternatively spliced transcriptional variants and their suggested nomenclature	Pharmacogenetics and genomics	2009	618	2
Managing the data explosion. A report on the HUPO-PSI Workshop. August 2008, Amsterdam, The Netherlands	Proteomics	2009	579	0
InterPro: the integrative protein signature database	Nucleic acids research	2009	601	86
HAMAP: a database of completely sequenced microbial proteome sets and manually curated microbial protein families in UniProtKB/Swiss-Prot	Nucleic acids research	2009	644	510
UniProtKB/Swiss-Prot manual and automated annotation of complete proteomes: the Dictyostelium discoideum case study	Bioinformatics: a Swiss Perspective	2009	504	0
The UniProtKB/Swiss-Prot knowledgebase and its Plant Proteome Annotation Program	Journal of proteomics	2009	608	0
CTdatabase: a knowledge-base of high-throughput and curated data on cancer-testis antigens	Nucleic acids research	2009	660	132
Collaborative annotation of genes and proteins between UniProtKB/Swiss-Prot and dictyBase	Database	2009	673	334
The impact of 3D structures on a protein knowledgebase: from proteins to systems	Structural Proteomics and its Impact on the Life Sciences	2008	567	0
Calling on a million minds for community annotation in WikiProteins	GenomeBiology.com	2008	607	1,029
The 20 years of PROSITE	Nucleic acids research	2008	565	416
Annotating single amino acid polymorphisms in the UniProt/Swiss-Prot knowledgebase	Human mutation	2008	656	105
UniProtKB/Swiss-Prot: new and future developments	Data Integration in the Life Sciences, Proceedings of the 5th International Workshop, DILS 2008	2008	568	0
New developments in the InterPro database	Nucleic acids research	2007	660	1,181
UniProtKB/Swiss-Prot	Methods in molecular biology	2007	677	0
Data integration in Proteomics	Proteome research: concepts, technology and applications	2007	544	0
Protein variations: resources and tools	Biomedical application of proteomics	2006	565	0
The Universal Protein Resource (UniProt): an expanding universe of protein information	Nucleic acids research	2006	664	768
ScanProsite: detection of PROSITE signature matches and ProRule-associated functional and structural residues in proteins	Nucleic acids research	2006	806	389
Small can be beautiful, but it remains complex!	Complexus	2006	526	0
The PROSITE database	Nucleic acids research	2006	654	286
Functionally and structurally relevant residues in PROSITE motif descriptors	Encyclopedia of Genetics, Genomics, Proteomics and Bioinformatics	2005	479	1
Tox-Prot, the toxin protein annotation program of the Swiss-Prot protein knowledgebase	Toxicon	2005	618	0
ProRule: a new database containing functional and structural information on PROSITE profiles	Bioinformatics	2005	684	194
Plant protein annotation in the UniProt Knowledgebase	Plant physiology	2005	516	176
InterPro, progress and status in 2005	Nucleic acids research	2005	670	21
Protein identification and analysis tools on the ExPASy server	The Proteomics Protocols Handbook	2005	1,440	0
The Universal Protein Resource (UniProt)	Nucleic acids research	2005	919	174
Protein variety and functional diversity: Swiss-Prot annotation in its biological context	Comptes rendus. Biologies	2005	604	0
The Swiss-Prot variant page and the ModSNP database: a resource for sequence and structure information on human protein variants	Human mutation	2004	581	0
IntAct: an open source molecular interaction database	Nucleic acids research	2004	656	53
Annotation of post-translational modifications in the Swiss-Prot knowledge base	Proteomics	2004	584	0
Protein sequence databases	Current opinion in chemical biology	2004	440	0
The Swiss-Prot protein knowledgebase and ExPASy: providing the plant community with high quality proteomic data and tools	Plant physiology and biochemistry	2004	600	0
Swiss-Prot: juggling between evolution and stability	Briefings in bioinformatics	2004	587	164
Industrial-scale proteomics: from liters of plasma to chemically synthesized proteins	Proteomics	2004	593	0
Post-translational modifications: a challenge for proteomics and bioinformatics	Proteomics	2004	556	56
IntEnz, the integrated relational enzyme database	Nucleic acids research	2004	683	66
UniProt: the Universal Protein knowledgebase	Nucleic acids research	2004	1,276	152
Recent improvements to the PROSITE database	Nucleic acids research	2004	581	231
ExPASy: The proteomics server for in-depth protein knowledge and analysis	Nucleic acids research	2003	1,098	98
Protein databases	Nature Encyclopedia of the Human Genome	2003	496	0
PA26 is a candidate gene for heterotaxia in humans: identification of a novel PA26-related gene family in human and mouse	Human genetics	2003	597	0
The SWISS-PROT protein knowledgebase and its supplement TrEMBL in 2003	Nucleic acids research	2003	948	196
NEWT, a new taxonomy portal	Nucleic acids research	2003	581	43
The InterPro Database, 2003 brings increased coverage and new features	Nucleic acids research	2003	663	470
Automated annotation of microbial proteomes in SWISS-PROT	Computational biology and chemistry	2003	461	0
FindPept, a tool to identify unmatched masses in peptide mass fingerprinting protein identification	Proteomics	2002	656	0
The application of bioinformatics to mass spectrometry	Proteomics	2002	466	0
El nuevo servidor Latinoamericano de biologia molecular de la UCB: bo.expasy.org	Acta Nova	2002	266	164
The Sulfinator: predicting tyrosine sulfation sites in protein sequences	Bioinformatics	2002	620	213
High-quality protein knowledge resource: SWISS-PROT and TrEMBL	Briefings in bioinformatics	2002	616	490
The PROSITE database, its status in 2002	Nucleic acids research	2002	554	64
PROSITE: a documented database using patterns and profiles as motif descriptors	Briefings in bioinformatics	2002	627	263
ScanProsite: a reference implementation of a PROSITE scanning tool	Applied bioinformatics	2002	1,136	149
Annotation of glycoproteins in the SWISS-PROT database	Proteomics	2001	604	0
The human proteomics initiative (HPI)	Trends in biotechnology	2001	546	0
SWISS-PROT: connecting biomolecular knowledge via a protein database	Current issues in molecular biology	2001	801	127
Technical comment to "Database verification studies of SWISS-PROT and GenBank" by Karp et al	Bioinformatics	2001	632	30
The InterPro database, an integrated documentation resource for protein families, domains and functional sites	Nucleic acids research	2001	642	117
Quality control in databanks for molecular biology	BioEssays	2000	522	0
InterPro--an integrated documentation resource for protein families, domains and functional sites	Bioinformatics	2000	666	323
The ENZYME database in 2000	Nucleic acids research	2000	491	573
A comprehensive web resource on RNA helicases from the baker's yeast Saccharomyces cerevisiae	Yeast	2000	593	0
Serendipity in bioinformatics, the tribulations of a Swiss bioinformatician through exciting times!	Bioinformatics	2000	598	532
The SWISS-PROT protein sequence database and its supplement TrEMBL in 2000	Nucleic acids research	2000	637	690
The 1999 SWISS-2DPAGE database update	Nucleic acids research	2000	520	327
The PROSITE database, its status in 1999	Nucleic acids research	1999	541	156
Eukaryotic aldehyde dehydrogenase (ALDH) genes: human polymorphisms, and recommended nomenclature based on divergent evolution and chromosomal mapping	Pharmacogenetics	1999	451	0
Improving protein identification from peptide mass fingerprinting through a parameterized multi-level scoring algorithm and an optimized peak detection	Electrophoresis	1999	569	0
Internet resources for protein identification and characterization	Microcharacterization of proteins	1999	361	0
The SWISS-2DPAGE database: what has changed during the last year	Nucleic acids research	1999	548	300
A testis-specific gene, TPTE, encodes a putative transmembrane tyrosine phosphatase and maps to the pericentromeric region of human chromosomes 21 and 13, and to chromosomes 15, 22, and Y	Human genetics	1999	594	0
High-throughput mass spectrometric discovery of protein post-translational modifications	Journal of Molecular Biology	1999	642	1,021
A molecular scanner to automate proteomic research and to display proteome images	Analytical chemistry	1999	582	594
The ENZYME data bank in 1999	Nucleic acids research	1999	475	527
Protein identification and analysis tools in the ExPASy server	Methods in Molecular Biology	1999	409	0
Representation of functional information in the SWISS-PROT data bank	Bioinformatics	1999	473	16
The SWISS-PROT protein sequence data bank and its supplement TrEMBL in 1999	Nucleic acids research	1999	582	891
Low molecular weight proteins: a challenge for post-genomic research	Electrophoresis	1998	500	0
Multiple parameter cross-species protein identification using MultiIdent - a world-wide web accessible tool	Electrophoresis	1998	493	0
GPCRDB: an information system for G protein-coupled receptors	Nucleic acids research	1998	607	170
'98 Escherichia coli SWISS-2DPAGE database update	Electrophoresis	1998	627	2
Two-dimensional gel electrophoresis for proteome projects: the effects of protein hydrophobicity and copy number	Electrophoresis	1998	483	0
A superfamily of metalloenzymes unifies phosphopentomutase and cofactor-independent phosphoglycerate mutase with alkaline phosphatases and sulfatases	Protein science	1998	517	302
Construction of the gyrB Database for the Identification and Classification of Bacteria	Genomics & Informatics	1998	525	246
Protein annotation: detective work for function prediction	Trends in genetics	1998	483	0
Protein identification with N and C-terminal sequence tags in proteome projects	Journal of Molecular Biology	1998	497	0
The SWISS-PROT protein sequence data bank and its supplement TrEMBL in 1998	Nucleic acids research	1998	530	349
New insulin-like proteins with atypical disulfide bond pattern characterized in Caenorhabditis elegans by comparative sequence analysis and homology modeling	Genome research	1998	433	33
Current status of the SWISS-2DPAGE database	Nucleic acids research	1998	497	34
Sequences and topology: Predicting evolution	Current opinion in structural biology	1997	470	0
Proteome Databases	Proteome research: new frontiers in functional genomics	1997	320	0
The PROSITE database, its status in 1997	Nucleic acids research	1997	512	15
The UDP glycosyltransferase gene superfamily: recommended nomenclature update based on evolutionary divergence	Pharmacogenetics	1997	535	0
The SWISS-PROT protein sequence database: its relevance to human molecular medical research	Journal of molecular medicine	1997	495	0
Detailed peptide characterization using PEPTIDEMASS : a World-Wide-Web-accessible tool	Electrophoresis	1997	678	0
Arac/XylS family of transcriptional regulators	Microbiology and molecular biology reviews	1997	546	182
Molecular basis of symbiosis between Rhizobium and legumes	Nature	1997	907	0
Protein sequence annotation in the genome era: the annotation concept of SWISS-PROT+TREMBL	Proceedings	1997	599	162
The SWISS-PROT protein sequence data bank and its supplement TrEMBL	Nucleic acids research	1997	606	171
The SWISS-2DPAGE database of two-dimensional polyacrylamide gel electrophoresis, its status in 1995	Nucleic acids research	1996	640	59
The yeast SWISS-2DPAGE database	Electrophoresis	1996	582	0
The PROSITE database, its status in 1995	Nucleic acids research	1996	514	44
Federated two-dimensional electrophoresis database: a simple means of publishing two-dimensional electrophoresis data	Electrophoresis	1996	538	0
Updating the sequence-based classification of glycosyl hydrolases	Biochemical journal	1996	645	85
The ENZYME data bank in 1995	Nucleic acids research	1996	540	80
Two-dimensional gel electrophoresis of Escherichia coli homogenates: the Escherichia coli SWISS-2DPAGE database	Electrophoresis	1996	629	0
LISTA, LISTA-HOP and LISTA-HON: a comprehensive compilation of protein encoding sequences and its associated homology databases from the yeast Saccharomyces	Nucleic acids research	1996	579	17
Integrating two-dimensional gel databases using the Melanie II software	Trends in biochemical sciences	1996	706	0
The SWISS-PROT protein sequence data bank and its new supplement TREMBL	Nucleic acids research	1996	620	252
Go hunting in sequence databases but watch out for the traps	Trends in genetics	1996	578	0
Inside SWISS-2DPAGE database	Electrophoresis	1995	632	0
Sharing of worldwide spread knowledge using hypermedia facilities & fast communication protocols (Mosaic and World Wide Web): the example of ExPASy	Methods of information in medicine	1995	534	0
The SWISS-PROT protein sequence data bank: current status	Nucleic acids research	1994	658	99
A new generation of information retrieval tools for biologists: the example of the ExPASy WWW server	Trends in biochemical sciences	1994	576	0
Proposals for the naming of chloroplast genes. III. Nomenclature for open reading frames encoded in chloroplast genomes	Plant molecular biology reporter	1994	584	0
LISTA, LISTA-HOP and LISTA-HON: a comprehensive compilation of protein encoding sequences and its associated homology databases from the yeast Saccharomyces	Nucleic acids research	1994	576	14
The ENZYME data bank	Nucleic acids research	1994	614	72
PROSITE: recent developments	Nucleic acids research	1994	509	29
A novel zinc-binding motif found in two ubiquitous deaminase families	Protein science	1994	598	83
A generalized profile syntax for biomolecular sequence motifs and its function in automatic sequence interpretation	ISMB-94; Proceedings 2nd International Conference on Intelligent Systems for Molecular Biology	1994	549	207
The SWISS-2DPAGE database of two-dimensional polyacrylamide gel electrophoresis	Nucleic acids research	1994	593	132
The SWISS-PROT protein sequence data bank, recent developments	Nucleic acids research	1993	635	84
ExPASy: un système expert pour l'analyse de séquences protéiques	Technologie et Santé	1993	371	75
A diverse transketolase family that includes the RecP protein of Streptococcus pneumoniae, a protein implicated in genetic recombination	Research in microbiology	1993	530	0
Snake proteins and nucleic acids	Toxicon	1993	569	0
Human liver protein map: update 1993	Electrophoresis	1993	628	0
The PROSITE dictionary of sites and patterns in proteins, its current status	Nucleic acids research	1993	562	86
New families in the classification of glycosyl hydrolases based on amino acid sequence similarities	Biochemical journal	1993	915	53
SWISS-2DPAGE: a database of two-dimensional gel electrophoresis images	Electrophoresis	1993	650	0
Complementation of the DNA repair defect in xeroderma pigmentosum group G cells by a human cDNA related to yeast RAD2	Nature	1993	620	0
A possible mechanism for metal-ion induced DNA-protein dissociation in a family of prokaryotic transcriptional regulators	Nucleic acids research	1993	602	49
The ENZYME data bank	Nucleic acids research	1993	568	142
Electrophorèse bidimensionnelle et informatique: un outil pour le diagnostic médical?	Labolife	1993	459	135
Plasma and red blood cell protein maps: update 1993	Electrophoresis	1993	592	0
The SWISS-PROT protein sequence data bank	Nucleic acids research	1992	651	53
PROSITE: a dictionary of sites and patterns in proteins	Nucleic acids research	1992	643	743
Human liver protein map: a reference database established by microsequencing and gel comparison	Electrophoresis	1992	622	0
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	European journal of biochemistry	1992	545	0
Proto-vav and gene expression	Nature	1992	596	0
Interleukin-1-inducible genes in endothelial cells. Cloning of a new gene related to C-reactive protein and serum amyloid P component	The Journal of biological chemistry	1992	536	80
The SWISS-PROT protein sequence data bank	Nucleic acids research	1991	844	402
Nucleotide sequences of the Acinetobacter calcoaceticus benABC genes for benzoate 1,2-dioxygenase reveal evolutionary relationships among multicomponent oxygenases	Journal of bacteriology	1991	571	585
Potential DNA slippage structures acquired during evolutionary divergence of Acinetobacter calcoaceticus chromosomal benABC and Pseudomonas putida TOL pWW0 plasmid xylXYZ, genes encoding benzoate dioxygenases	Journal of bacteriology	1991	559	230
PROSITE: a dictionary of sites and patterns in proteins	Nucleic acids research	1991	655	407
SEQANALREF: a sequence analysis bibliographic reference databank	Computer applications in the biosciences	1991	623	221
EF-hand motifs in inositol phospholipid-specific phospholipase C	FEBS letters	1990	639	406
Calcium-binding affinity and calcium-enhanced activity of Clostridium thermocellum endoglucanase D	Biochemical journal	1990	612	506
A cross-reference table between the Protein Data Bank of macromolecular structures and the National Biomedical Research Foundation-Protein Identification Resource amino acid sequence data bank	Protein sequences & data analysis	1989	439	92
A unique signature identifies a family of zinc-dependent metallopeptidases	FEBS letters	1989	596	118
Sequence similarities in calcium-binding proteins	Nature	1988	564	0
Sequence patterns in protein kinases	Nature	1988	505	0
Using PC/GENE for protein and nucleic acid analysis	BioTechniques	1988	516	0
The xylS gene positive regulator of TOL plasmid pWWO: identification, sequence analysis and overproduction leading to constitutive expression of meta cleavage operon	MGG. Molecular & general genetics	1987	568	0
Evolutionary relationships between catabolic pathways for aromatics: conservation of gene order and nucleotide sequences of catechol oxidation genes of pWW0 and NAH7 plasmids	MGG. Molecular & general genetics	1987	607	0
Amino acid sequence determination by gas chromatography—mass spectrometry of permethylated peptides	Journal of chromatography	1983	699	0
Suggestion to research groups working on protein and peptide sequence	Biochemical journal	1982	612	283
Evidence for the existence of a mutated enkephalin sequence in preproenkephalin	FEBS letters	1982	604	115

Functionathon: a manual data mining workflow to generate functional hypotheses for uncharacterized human proteins and its application by undergraduate students

Database

2021

358

497

The ABCD database: a repository for chemically defined antibodies

Nucleic Acids Research

2020

513

153

A high-stringency blueprint of the human proteome

Nature Communications

2020

301

150

Brain metastasis cell lines panel: a public resource of organotropic cell lines

Cancer Research

2020

239

0

The neXtProt knowledgebase in 2020: data, tools and usability improvements

Nucleic Acids Research

2020

466

214

The feature-viewer: a visualization tool for positional annotations on a sequence

Bioinformatics

2020

264

0

CLASTR : the cellosaurus STR similarity search tool ‐ A precious help for cell line authentication

International Journal of Cancer

2020

462

429

Incidences of problematic cell lines are lower in papers that use RRIDs to identify cell lines

eLife

2019

368

28

Cell lines as biological models: practical steps for more reliable research

Chemical Research in Toxicology

2019

329

1

Exploring the Uncharacterized Human Proteome Using neXtProt

Journal of Proteome Research

2018

407

0

Large-Scale Reanalysis of Publicly Available HeLa Cell Proteomics Data in the Context of the Human Proteome Project

Journal of Proteome Research

2018

447

3

Kinases and Cancer

Cancers

2018

501

149

A new bioinformatics tool to help assess the significance of BRCA1 variants

Human Genomics

2018

499

213

The Cellosaurus, a Cell-Line Knowledge Resource

Journal of Biomolecular Techniques

2018

528

373

A Standard Nomenclature for Referencing and Authentication of Pluripotent Stem Cells

Stem Cell Reports

2018

498

288

The neXtProt knowledgebase on human proteins: 2017 update

Nucleic acids research

2017

514

310

Triage by ranking to support the curation of protein interactions

Database

2017

525

449

Annotation of functional impact of voltage-gated sodium channel mutations

Human mutation

2017

551

291

The missing protein landscape of human chromosomes 2 and 14: progress and current status

Journal of proteome research

2016

531

85

ICEPO: the ion channel electrophysiology ontology

Database

2016

562

195

Deep Question Answering for protein annotation

Database

2015

576

1,104

Creating a specialist protein resource network: a meeting report for the protein bioinformatics and community resources retreat

Database

2015

510

267

N-terminome analysis of the human mitochondrial proteome

Proteomics

2015

568

0

The neXtProt knowledgebase on human proteins: current status

Nucleic acids research

2015

682

101

Converting neXtProt into Linked Data and nanopublications

Semantic web

2015

557

662

C11orf83, a Mitochondrial Cardiolipin-Binding Protein Involved in bc₁ Complex Assembly and Supercomplex Stabilization

Molecular and cellular biology

2015

691

91

Key challenges for the creation and maintenance of specialist protein resources

Proteins

2015

499

34

Metrics for the Human Proteome Project 2013-2014 and strategies for finding missing proteins

Journal of proteome research

2014

683

732

Querying neXtProt nanopublications and their value for insights on sequence variants and tissue expression

Journal of web semantics

2014

583

0

Standards for Reporting Enzyme Data: The STRENDA Consortium: What it aims to do and why it should be helpful

Perspectives in science

2014

626

145

C2orf62 and TTC17 are involved in actin organization and ciliogenesis in zebrafish and human

PloS one

2014

657

355

DERA is the human deoxyribose phosphate aldolase and is involved in stress response

Biochimica et biophysica acta. Molecular cell research

2014

661

186

Fifteen years SIB Swiss Institute of Bioinformatics: life science databases, tools and support

Nucleic acids research

2014

880

27

A chromosome-centric human proteome project (C-HPP) to characterize the sets of proteins encoded in chromosome 17

Journal of proteome research

2013

611

0

A large-scale evaluation of computational protein function prediction

Nature methods

2013

662

1,029

neXtProt: organizing protein knowledge in the context of human proteome projects

Journal of proteome research

2013

688

0

Standard guidelines for the chromosome-centric human proteome project

Journal of proteome research

2012

609

0

The Chromosome-Centric Human Proteome Project for cataloging proteins encoded in the genome

Nature biotechnology

2012

614

0

UniPathway: a resource for the exploration and annotation of metabolic pathways

Nucleic acids research

2012

547

752

neXtProt: a knowledge platform for human proteins

Nucleic acids research

2012

663

418

Functional identification of APIP as human mtnB, a key enzyme in the methionine salvage pathway

PloS one

2012

587

407

Towards BioDBcore: a community-defined information specification for biological databases

Nucleic acids research

2011

523

349

ViralZone: a knowledge resource to understand virus diversity

Nucleic acids research

2011

745

371

A preliminary study on the prediction of human protein functions

Foundations on Natural and Artificial Computation: 4th International Work-conference on the Interplay Between Natural and Artificial Computation, IWINAC 2011

2011

468

0

The human proteome project: current state and future direction

Molecular & cellular proteomics

2011

669

673

PROSITE, a protein domain database for functional characterization and annotation

Nucleic acids research

2010

702

347

Animal Toxins: How is Complexity Represented in Databases?

Toxins

2010

518

319

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

Nature methods

2010

530

0

A large-scale protein-function database

Nature chemical biology

2010

590

269

OpenFluDB, a database for human and animal influenza virus

Database

2010

619

522

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

BMC bioinformatics

2009

985

2,619

Human aldehyde dehydrogenase genes: alternatively spliced transcriptional variants and their suggested nomenclature

Pharmacogenetics and genomics

2009

618

2

Managing the data explosion. A report on the HUPO-PSI Workshop. August 2008, Amsterdam, The Netherlands

Proteomics

2009

579

0

InterPro: the integrative protein signature database

Nucleic acids research

2009

601

86

HAMAP: a database of completely sequenced microbial proteome sets and manually curated microbial protein families in UniProtKB/Swiss-Prot

Nucleic acids research

2009

644

510

UniProtKB/Swiss-Prot manual and automated annotation of complete proteomes: the Dictyostelium discoideum case study

Bioinformatics: a Swiss Perspective

2009

504

0

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

Journal of proteomics

2009

608

0

CTdatabase: a knowledge-base of high-throughput and curated data on cancer-testis antigens

Nucleic acids research

2009

660

132

Collaborative annotation of genes and proteins between UniProtKB/Swiss-Prot and dictyBase

Database

2009

673

334

The impact of 3D structures on a protein knowledgebase: from proteins to systems

Structural Proteomics and its Impact on the Life Sciences

2008

567

0

Calling on a million minds for community annotation in WikiProteins

GenomeBiology.com

2008

607

1,029

The 20 years of PROSITE

Nucleic acids research

2008

565

416

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

Human mutation

2008

656

105

UniProtKB/Swiss-Prot: new and future developments

Data Integration in the Life Sciences, Proceedings of the 5th International Workshop, DILS 2008

2008

568

0

New developments in the InterPro database

Nucleic acids research

2007

660

1,181

UniProtKB/Swiss-Prot

Methods in molecular biology

2007

677

0

Data integration in Proteomics

Proteome research: concepts, technology and applications

2007

544

0

Protein variations: resources and tools

Biomedical application of proteomics

2006

565

0

The Universal Protein Resource (UniProt): an expanding universe of protein information

Nucleic acids research

2006

664

768

ScanProsite: detection of PROSITE signature matches and ProRule-associated functional and structural residues in proteins

Nucleic acids research

2006

806

389

Small can be beautiful, but it remains complex!

Complexus

2006

526

0

The PROSITE database

Nucleic acids research

2006

654

286

Functionally and structurally relevant residues in PROSITE motif descriptors

Encyclopedia of Genetics, Genomics, Proteomics and Bioinformatics

2005

479

1

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

Toxicon

2005

618

0

ProRule: a new database containing functional and structural information on PROSITE profiles

Bioinformatics

2005

684

194

Plant protein annotation in the UniProt Knowledgebase

Plant physiology

2005

516

176

InterPro, progress and status in 2005

Nucleic acids research

2005

670

21

Protein identification and analysis tools on the ExPASy server

The Proteomics Protocols Handbook

2005

1,440

0

The Universal Protein Resource (UniProt)

Nucleic acids research

2005

919

174

Protein variety and functional diversity: Swiss-Prot annotation in its biological context

Comptes rendus. Biologies

2005

604

0

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

Human mutation

2004

581

0

IntAct: an open source molecular interaction database

Nucleic acids research

2004

656

53

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

Proteomics

2004

584

0

Protein sequence databases

Current opinion in chemical biology

2004

440

0

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

Plant physiology and biochemistry

2004

600

0

Swiss-Prot: juggling between evolution and stability

Briefings in bioinformatics

2004

587

164

Industrial-scale proteomics: from liters of plasma to chemically synthesized proteins

Proteomics

2004

593

0

Post-translational modifications: a challenge for proteomics and bioinformatics

Proteomics

2004

556

56

IntEnz, the integrated relational enzyme database

Nucleic acids research

2004

683

66

UniProt: the Universal Protein knowledgebase

Nucleic acids research

2004

1,276

152

Recent improvements to the PROSITE database

Nucleic acids research

2004

581

231

ExPASy: The proteomics server for in-depth protein knowledge and analysis

Nucleic acids research

2003

1,098

98

Protein databases

Nature Encyclopedia of the Human Genome

2003

496

0

PA26 is a candidate gene for heterotaxia in humans: identification of a novel PA26-related gene family in human and mouse

Human genetics

2003

597

0

The SWISS-PROT protein knowledgebase and its supplement TrEMBL in 2003

Nucleic acids research

2003

948

196

NEWT, a new taxonomy portal

Nucleic acids research

2003

581

43

The InterPro Database, 2003 brings increased coverage and new features

Nucleic acids research

2003

663

470

Automated annotation of microbial proteomes in SWISS-PROT

Computational biology and chemistry

2003

461

0

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

Proteomics

2002

656

0

The application of bioinformatics to mass spectrometry

Proteomics

2002

466

0

El nuevo servidor Latinoamericano de biologia molecular de la UCB: bo.expasy.org

Acta Nova

2002

266

164

The Sulfinator: predicting tyrosine sulfation sites in protein sequences

Bioinformatics

2002

620

213

High-quality protein knowledge resource: SWISS-PROT and TrEMBL

Briefings in bioinformatics

2002

616

490

The PROSITE database, its status in 2002

Nucleic acids research

2002

554

64

PROSITE: a documented database using patterns and profiles as motif descriptors

Briefings in bioinformatics

2002

627

263

ScanProsite: a reference implementation of a PROSITE scanning tool

Applied bioinformatics

2002

1,136

149

Annotation of glycoproteins in the SWISS-PROT database

Proteomics

2001

604

0

The human proteomics initiative (HPI)

Trends in biotechnology

2001

546

0

SWISS-PROT: connecting biomolecular knowledge via a protein database

Current issues in molecular biology

2001

801

127

Technical comment to "Database verification studies of SWISS-PROT and GenBank" by Karp et al

Bioinformatics

2001

632

30

The InterPro database, an integrated documentation resource for protein families, domains and functional sites

Nucleic acids research

2001

642

117

Quality control in databanks for molecular biology

BioEssays

2000

522

0

InterPro--an integrated documentation resource for protein families, domains and functional sites

Bioinformatics

2000

666

323

The ENZYME database in 2000

Nucleic acids research

2000

491

573

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

Yeast

2000

593

0

Serendipity in bioinformatics, the tribulations of a Swiss bioinformatician through exciting times!

Bioinformatics

2000

598

532

The SWISS-PROT protein sequence database and its supplement TrEMBL in 2000

Nucleic acids research

2000

637

690

The 1999 SWISS-2DPAGE database update

Nucleic acids research

2000

520

327

The PROSITE database, its status in 1999

Nucleic acids research

1999

541

156

Eukaryotic aldehyde dehydrogenase (ALDH) genes: human polymorphisms, and recommended nomenclature based on divergent evolution and chromosomal mapping

Pharmacogenetics

1999

451

0

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

Electrophoresis

1999

569

0

Internet resources for protein identification and characterization

Microcharacterization of proteins

1999

361

0

The SWISS-2DPAGE database: what has changed during the last year

Nucleic acids research

1999

548

300

A testis-specific gene, TPTE, encodes a putative transmembrane tyrosine phosphatase and maps to the pericentromeric region of human chromosomes 21 and 13, and to chromosomes 15, 22, and Y

Human genetics

1999

594

0

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

Journal of Molecular Biology

1999

642

1,021

A molecular scanner to automate proteomic research and to display proteome images

Analytical chemistry

1999

582

594

The ENZYME data bank in 1999

Nucleic acids research

1999

475

527

Protein identification and analysis tools in the ExPASy server

Methods in Molecular Biology

1999

409

0

Representation of functional information in the SWISS-PROT data bank

Bioinformatics

1999

473

16

The SWISS-PROT protein sequence data bank and its supplement TrEMBL in 1999

Nucleic acids research

1999

582

891

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

Electrophoresis

1998

500

0

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

Electrophoresis

1998

493

0

GPCRDB: an information system for G protein-coupled receptors

Nucleic acids research

1998

607

170

'98 Escherichia coli SWISS-2DPAGE database update

Electrophoresis

1998

627

2

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

Electrophoresis

1998

483

0

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

Protein science

1998

517

302

Construction of the gyrB Database for the Identification and Classification of Bacteria

Genomics & Informatics

1998

525

246

Protein annotation: detective work for function prediction

Trends in genetics

1998

483

0

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

Journal of Molecular Biology

1998

497

0

The SWISS-PROT protein sequence data bank and its supplement TrEMBL in 1998

Nucleic acids research

1998

530

349

New insulin-like proteins with atypical disulfide bond pattern characterized in Caenorhabditis elegans by comparative sequence analysis and homology modeling

Genome research

1998

433

33

Current status of the SWISS-2DPAGE database

Nucleic acids research

1998

497

34

Sequences and topology: Predicting evolution

Current opinion in structural biology

1997

470

0

Proteome Databases

Proteome research: new frontiers in functional genomics

1997

320

0

The PROSITE database, its status in 1997

Nucleic acids research

1997

512

15

The UDP glycosyltransferase gene superfamily: recommended nomenclature update based on evolutionary divergence

Pharmacogenetics

1997

535

0

The SWISS-PROT protein sequence database: its relevance to human molecular medical research

Journal of molecular medicine

1997

495

0

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

Electrophoresis

1997

678

0

Arac/XylS family of transcriptional regulators

Microbiology and molecular biology reviews

1997

546

182

Molecular basis of symbiosis between Rhizobium and legumes

Nature

1997

907

0

Protein sequence annotation in the genome era: the annotation concept of SWISS-PROT+TREMBL

Proceedings

1997

599

162

The SWISS-PROT protein sequence data bank and its supplement TrEMBL

Nucleic acids research

1997

606

171

The SWISS-2DPAGE database of two-dimensional polyacrylamide gel electrophoresis, its status in 1995

Nucleic acids research

1996

640

59

The yeast SWISS-2DPAGE database

Electrophoresis

1996

582

0

The PROSITE database, its status in 1995

Nucleic acids research

1996

514

44

Federated two-dimensional electrophoresis database: a simple means of publishing two-dimensional electrophoresis data

Electrophoresis

1996

538

0

Updating the sequence-based classification of glycosyl hydrolases

Biochemical journal

1996

645

85

The ENZYME data bank in 1995

Nucleic acids research

1996

540

80

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

Electrophoresis

1996

629

0

LISTA, LISTA-HOP and LISTA-HON: a comprehensive compilation of protein encoding sequences and its associated homology databases from the yeast Saccharomyces

Nucleic acids research

1996

579

17

Integrating two-dimensional gel databases using the Melanie II software

Trends in biochemical sciences

1996

706

0

The SWISS-PROT protein sequence data bank and its new supplement TREMBL

Nucleic acids research

1996

620

252

Go hunting in sequence databases but watch out for the traps

Trends in genetics

1996

578

0

Inside SWISS-2DPAGE database

Electrophoresis

1995

632

0

Sharing of worldwide spread knowledge using hypermedia facilities & fast communication protocols (Mosaic and World Wide Web): the example of ExPASy

Methods of information in medicine

1995

534

0

The SWISS-PROT protein sequence data bank: current status

Nucleic acids research

1994

658

99

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

Trends in biochemical sciences

1994

576

0

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

Plant molecular biology reporter

1994

584

0

LISTA, LISTA-HOP and LISTA-HON: a comprehensive compilation of protein encoding sequences and its associated homology databases from the yeast Saccharomyces

Nucleic acids research

1994

576

14

The ENZYME data bank

Nucleic acids research

1994

614

72

PROSITE: recent developments

Nucleic acids research

1994

509

29

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

Protein science

1994

598

83

A generalized profile syntax for biomolecular sequence motifs and its function in automatic sequence interpretation

ISMB-94; Proceedings 2nd International Conference on Intelligent Systems for Molecular Biology

1994

549

207

The SWISS-2DPAGE database of two-dimensional polyacrylamide gel electrophoresis

Nucleic acids research

1994

593

132

The SWISS-PROT protein sequence data bank, recent developments

Nucleic acids research

1993

635

84

ExPASy: un système expert pour l'analyse de séquences protéiques

Technologie et Santé

1993

371

75

A diverse transketolase family that includes the RecP protein of Streptococcus pneumoniae, a protein implicated in genetic recombination

Research in microbiology

1993

530

0

Snake proteins and nucleic acids

Toxicon

1993

569

0

Human liver protein map: update 1993

Electrophoresis

1993

628

0

The PROSITE dictionary of sites and patterns in proteins, its current status

Nucleic acids research

1993

562

86

New families in the classification of glycosyl hydrolases based on amino acid sequence similarities

Biochemical journal

1993

915

53

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

Electrophoresis

1993

650

0

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

Nature

1993

620

0

A possible mechanism for metal-ion induced DNA-protein dissociation in a family of prokaryotic transcriptional regulators

Nucleic acids research

1993

602

49

The ENZYME data bank

Nucleic acids research

1993

568

142

Electrophorèse bidimensionnelle et informatique: un outil pour le diagnostic médical?

Labolife

1993

459

135

Plasma and red blood cell protein maps: update 1993

Electrophoresis

1993

592

0

The SWISS-PROT protein sequence data bank

Nucleic acids research

1992

651

53

PROSITE: a dictionary of sites and patterns in proteins

Nucleic acids research

1992

643

743

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

Electrophoresis

1992

622

0

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

European journal of biochemistry

1992

545

0

Proto-vav and gene expression

Nature

1992

596

0

Interleukin-1-inducible genes in endothelial cells. Cloning of a new gene related to C-reactive protein and serum amyloid P component

The Journal of biological chemistry

1992

536

80

The SWISS-PROT protein sequence data bank

Nucleic acids research

1991

844

402

Nucleotide sequences of the Acinetobacter calcoaceticus benABC genes for benzoate 1,2-dioxygenase reveal evolutionary relationships among multicomponent oxygenases

Journal of bacteriology

1991

571

585

Potential DNA slippage structures acquired during evolutionary divergence of Acinetobacter calcoaceticus chromosomal benABC and Pseudomonas putida TOL pWW0 plasmid xylXYZ, genes encoding benzoate dioxygenases

Journal of bacteriology

1991

559

230

PROSITE: a dictionary of sites and patterns in proteins

Nucleic acids research

1991

655

407

SEQANALREF: a sequence analysis bibliographic reference databank

Computer applications in the biosciences

1991

623

221

EF-hand motifs in inositol phospholipid-specific phospholipase C

FEBS letters

1990

639

406

Calcium-binding affinity and calcium-enhanced activity of Clostridium thermocellum endoglucanase D

Biochemical journal

1990

612

506

A cross-reference table between the Protein Data Bank of macromolecular structures and the National Biomedical Research Foundation-Protein Identification Resource amino acid sequence data bank

Protein sequences & data analysis

1989

439

92

A unique signature identifies a family of zinc-dependent metallopeptidases

FEBS letters

1989

596

118

Sequence similarities in calcium-binding proteins

Nature

1988

564

0

Sequence patterns in protein kinases

Nature

1988

505

0

Using PC/GENE for protein and nucleic acid analysis

BioTechniques

1988

516

0

The xylS gene positive regulator of TOL plasmid pWWO: identification, sequence analysis and overproduction leading to constitutive expression of meta cleavage operon

MGG. Molecular & general genetics

1987

568

0

Evolutionary relationships between catabolic pathways for aromatics: conservation of gene order and nucleotide sequences of catechol oxidation genes of pWW0 and NAH7 plasmids

MGG. Molecular & general genetics

1987

607

0

Amino acid sequence determination by gas chromatography—mass spectrometry of permethylated peptides

Journal of chromatography

1983

699

0

Suggestion to research groups working on protein and peptide sequence

Biochemical journal

1982

612

283

Evidence for the existence of a mutated enkephalin sequence in preproenkephalin

FEBS letters

1982

604

115

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