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	333	446
The ABCD database: a repository for chemically defined antibodies	Nucleic Acids Research	2020	451	135
A high-stringency blueprint of the human proteome	Nature Communications	2020	276	128
Brain metastasis cell lines panel: a public resource of organotropic cell lines	Cancer Research	2020	227	0
The neXtProt knowledgebase in 2020: data, tools and usability improvements	Nucleic Acids Research	2020	440	181
The feature-viewer: a visualization tool for positional annotations on a sequence	Bioinformatics	2020	246	0
CLASTR : the cellosaurus STR similarity search tool ‐ A precious help for cell line authentication	International Journal of Cancer	2020	445	308
Incidences of problematic cell lines are lower in papers that use RRIDs to identify cell lines	eLife	2019	348	23
Cell lines as biological models: practical steps for more reliable research	Chemical Research in Toxicology	2019	312	1
Exploring the Uncharacterized Human Proteome Using neXtProt	Journal of Proteome Research	2018	390	0
Large-Scale Reanalysis of Publicly Available HeLa Cell Proteomics Data in the Context of the Human Proteome Project	Journal of Proteome Research	2018	436	3
Kinases and Cancer	Cancers	2018	471	132
A new bioinformatics tool to help assess the significance of BRCA1 variants	Human Genomics	2018	484	206
The Cellosaurus, a Cell-Line Knowledge Resource	Journal of Biomolecular Techniques	2018	488	357
A Standard Nomenclature for Referencing and Authentication of Pluripotent Stem Cells	Stem Cell Reports	2018	481	284
The neXtProt knowledgebase on human proteins: 2017 update	Nucleic acids research	2017	498	303
Triage by ranking to support the curation of protein interactions	Database	2017	503	436
Annotation of functional impact of voltage-gated sodium channel mutations	Human mutation	2017	528	278
The missing protein landscape of human chromosomes 2 and 14: progress and current status	Journal of proteome research	2016	517	60
ICEPO: the ion channel electrophysiology ontology	Database	2016	551	193
Deep Question Answering for protein annotation	Database	2015	564	1,096
Creating a specialist protein resource network: a meeting report for the protein bioinformatics and community resources retreat	Database	2015	487	264
N-terminome analysis of the human mitochondrial proteome	Proteomics	2015	562	0
The neXtProt knowledgebase on human proteins: current status	Nucleic acids research	2015	644	86
Converting neXtProt into Linked Data and nanopublications	Semantic web	2015	538	633
C11orf83, a Mitochondrial Cardiolipin-Binding Protein Involved in bc₁ Complex Assembly and Supercomplex Stabilization	Molecular and cellular biology	2015	681	79
Key challenges for the creation and maintenance of specialist protein resources	Proteins	2015	482	31
Metrics for the Human Proteome Project 2013-2014 and strategies for finding missing proteins	Journal of proteome research	2014	666	653
Querying neXtProt nanopublications and their value for insights on sequence variants and tissue expression	Journal of web semantics	2014	564	0
Standards for Reporting Enzyme Data: The STRENDA Consortium: What it aims to do and why it should be helpful	Perspectives in science	2014	612	105
C2orf62 and TTC17 are involved in actin organization and ciliogenesis in zebrafish and human	PloS one	2014	632	351
DERA is the human deoxyribose phosphate aldolase and is involved in stress response	Biochimica et biophysica acta. Molecular cell research	2014	620	145
Fifteen years SIB Swiss Institute of Bioinformatics: life science databases, tools and support	Nucleic acids research	2014	865	23
A chromosome-centric human proteome project (C-HPP) to characterize the sets of proteins encoded in chromosome 17	Journal of proteome research	2013	592	0
A large-scale evaluation of computational protein function prediction	Nature methods	2013	648	1,021
neXtProt: organizing protein knowledge in the context of human proteome projects	Journal of proteome research	2013	666	0
Standard guidelines for the chromosome-centric human proteome project	Journal of proteome research	2012	590	0
The Chromosome-Centric Human Proteome Project for cataloging proteins encoded in the genome	Nature biotechnology	2012	587	0
UniPathway: a resource for the exploration and annotation of metabolic pathways	Nucleic acids research	2012	526	750
neXtProt: a knowledge platform for human proteins	Nucleic acids research	2012	636	418
Functional identification of APIP as human mtnB, a key enzyme in the methionine salvage pathway	PloS one	2012	571	403
Towards BioDBcore: a community-defined information specification for biological databases	Nucleic acids research	2011	512	344
ViralZone: a knowledge resource to understand virus diversity	Nucleic acids research	2011	702	346
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	459	0
The human proteome project: current state and future direction	Molecular & cellular proteomics	2011	652	646
PROSITE, a protein domain database for functional characterization and annotation	Nucleic acids research	2010	682	316
Animal Toxins: How is Complexity Represented in Databases?	Toxins	2010	502	312
Mass spectrometry in high-throughput proteomics: ready for the big time	Nature methods	2010	511	0
A large-scale protein-function database	Nature chemical biology	2010	583	268
OpenFluDB, a database for human and animal influenza virus	Database	2010	600	518
Infrastructure for the life sciences: design and implementation of the UniProt website	BMC bioinformatics	2009	965	2,612
Human aldehyde dehydrogenase genes: alternatively spliced transcriptional variants and their suggested nomenclature	Pharmacogenetics and genomics	2009	610	2
Managing the data explosion. A report on the HUPO-PSI Workshop. August 2008, Amsterdam, The Netherlands	Proteomics	2009	566	0
InterPro: the integrative protein signature database	Nucleic acids research	2009	586	81
HAMAP: a database of completely sequenced microbial proteome sets and manually curated microbial protein families in UniProtKB/Swiss-Prot	Nucleic acids research	2009	623	506
UniProtKB/Swiss-Prot manual and automated annotation of complete proteomes: the Dictyostelium discoideum case study	Bioinformatics: a Swiss Perspective	2009	492	0
The UniProtKB/Swiss-Prot knowledgebase and its Plant Proteome Annotation Program	Journal of proteomics	2009	593	0
CTdatabase: a knowledge-base of high-throughput and curated data on cancer-testis antigens	Nucleic acids research	2009	651	120
Collaborative annotation of genes and proteins between UniProtKB/Swiss-Prot and dictyBase	Database	2009	662	327
The impact of 3D structures on a protein knowledgebase: from proteins to systems	Structural Proteomics and its Impact on the Life Sciences	2008	554	0
Calling on a million minds for community annotation in WikiProteins	GenomeBiology.com	2008	592	1,029
The 20 years of PROSITE	Nucleic acids research	2008	545	410
Annotating single amino acid polymorphisms in the UniProt/Swiss-Prot knowledgebase	Human mutation	2008	636	81
UniProtKB/Swiss-Prot: new and future developments	Data Integration in the Life Sciences, Proceedings of the 5th International Workshop, DILS 2008	2008	561	0
New developments in the InterPro database	Nucleic acids research	2007	645	1,178
UniProtKB/Swiss-Prot	Methods in molecular biology	2007	641	0
Data integration in Proteomics	Proteome research: concepts, technology and applications	2007	535	0
Protein variations: resources and tools	Biomedical application of proteomics	2006	554	0
The Universal Protein Resource (UniProt): an expanding universe of protein information	Nucleic acids research	2006	647	714
ScanProsite: detection of PROSITE signature matches and ProRule-associated functional and structural residues in proteins	Nucleic acids research	2006	728	364
Small can be beautiful, but it remains complex!	Complexus	2006	522	0
The PROSITE database	Nucleic acids research	2006	632	257
Functionally and structurally relevant residues in PROSITE motif descriptors	Encyclopedia of Genetics, Genomics, Proteomics and Bioinformatics	2005	461	1
Tox-Prot, the toxin protein annotation program of the Swiss-Prot protein knowledgebase	Toxicon	2005	593	0
ProRule: a new database containing functional and structural information on PROSITE profiles	Bioinformatics	2005	671	157
Plant protein annotation in the UniProt Knowledgebase	Plant physiology	2005	503	141
InterPro, progress and status in 2005	Nucleic acids research	2005	653	18
Protein identification and analysis tools on the ExPASy server	The Proteomics Protocols Handbook	2005	1,376	0
The Universal Protein Resource (UniProt)	Nucleic acids research	2005	896	109
Protein variety and functional diversity: Swiss-Prot annotation in its biological context	Comptes rendus. Biologies	2005	591	0
The Swiss-Prot variant page and the ModSNP database: a resource for sequence and structure information on human protein variants	Human mutation	2004	565	0
IntAct: an open source molecular interaction database	Nucleic acids research	2004	633	28
Annotation of post-translational modifications in the Swiss-Prot knowledge base	Proteomics	2004	575	0
Protein sequence databases	Current opinion in chemical biology	2004	431	0
The Swiss-Prot protein knowledgebase and ExPASy: providing the plant community with high quality proteomic data and tools	Plant physiology and biochemistry	2004	584	0
Swiss-Prot: juggling between evolution and stability	Briefings in bioinformatics	2004	576	147
Industrial-scale proteomics: from liters of plasma to chemically synthesized proteins	Proteomics	2004	577	0
Post-translational modifications: a challenge for proteomics and bioinformatics	Proteomics	2004	549	45
IntEnz, the integrated relational enzyme database	Nucleic acids research	2004	660	42
UniProt: the Universal Protein knowledgebase	Nucleic acids research	2004	1,254	96
Recent improvements to the PROSITE database	Nucleic acids research	2004	565	210
ExPASy: The proteomics server for in-depth protein knowledge and analysis	Nucleic acids research	2003	1,051	65
Protein databases	Nature Encyclopedia of the Human Genome	2003	475	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	589	0
The SWISS-PROT protein knowledgebase and its supplement TrEMBL in 2003	Nucleic acids research	2003	915	37
NEWT, a new taxonomy portal	Nucleic acids research	2003	556	38
The InterPro Database, 2003 brings increased coverage and new features	Nucleic acids research	2003	651	468
Automated annotation of microbial proteomes in SWISS-PROT	Computational biology and chemistry	2003	450	0
FindPept, a tool to identify unmatched masses in peptide mass fingerprinting protein identification	Proteomics	2002	643	0
The application of bioinformatics to mass spectrometry	Proteomics	2002	458	0
El nuevo servidor Latinoamericano de biologia molecular de la UCB: bo.expasy.org	Acta Nova	2002	256	150
The Sulfinator: predicting tyrosine sulfation sites in protein sequences	Bioinformatics	2002	595	170
High-quality protein knowledge resource: SWISS-PROT and TrEMBL	Briefings in bioinformatics	2002	592	380
The PROSITE database, its status in 2002	Nucleic acids research	2002	538	59
PROSITE: a documented database using patterns and profiles as motif descriptors	Briefings in bioinformatics	2002	608	205
ScanProsite: a reference implementation of a PROSITE scanning tool	Applied bioinformatics	2002	1,100	94
Annotation of glycoproteins in the SWISS-PROT database	Proteomics	2001	585	0
The human proteomics initiative (HPI)	Trends in biotechnology	2001	536	0
SWISS-PROT: connecting biomolecular knowledge via a protein database	Current issues in molecular biology	2001	780	104
Technical comment to "Database verification studies of SWISS-PROT and GenBank" by Karp et al	Bioinformatics	2001	607	24
The InterPro database, an integrated documentation resource for protein families, domains and functional sites	Nucleic acids research	2001	627	81
Quality control in databanks for molecular biology	BioEssays	2000	508	0
InterPro--an integrated documentation resource for protein families, domains and functional sites	Bioinformatics	2000	649	281
The ENZYME database in 2000	Nucleic acids research	2000	479	551
A comprehensive web resource on RNA helicases from the baker's yeast Saccharomyces cerevisiae	Yeast	2000	574	0
Serendipity in bioinformatics, the tribulations of a Swiss bioinformatician through exciting times!	Bioinformatics	2000	579	402
The SWISS-PROT protein sequence database and its supplement TrEMBL in 2000	Nucleic acids research	2000	584	610
The 1999 SWISS-2DPAGE database update	Nucleic acids research	2000	501	316
The PROSITE database, its status in 1999	Nucleic acids research	1999	533	140
Eukaryotic aldehyde dehydrogenase (ALDH) genes: human polymorphisms, and recommended nomenclature based on divergent evolution and chromosomal mapping	Pharmacogenetics	1999	434	0
Improving protein identification from peptide mass fingerprinting through a parameterized multi-level scoring algorithm and an optimized peak detection	Electrophoresis	1999	560	0
Internet resources for protein identification and characterization	Microcharacterization of proteins	1999	344	0
The SWISS-2DPAGE database: what has changed during the last year	Nucleic acids research	1999	527	287
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	579	0
High-throughput mass spectrometric discovery of protein post-translational modifications	Journal of Molecular Biology	1999	627	985
A molecular scanner to automate proteomic research and to display proteome images	Analytical chemistry	1999	552	574
The ENZYME data bank in 1999	Nucleic acids research	1999	463	517
Protein identification and analysis tools in the ExPASy server	Methods in Molecular Biology	1999	396	0
Representation of functional information in the SWISS-PROT data bank	Bioinformatics	1999	463	14
The SWISS-PROT protein sequence data bank and its supplement TrEMBL in 1999	Nucleic acids research	1999	552	838
Low molecular weight proteins: a challenge for post-genomic research	Electrophoresis	1998	492	0
Multiple parameter cross-species protein identification using MultiIdent - a world-wide web accessible tool	Electrophoresis	1998	456	0
GPCRDB: an information system for G protein-coupled receptors	Nucleic acids research	1998	588	116
'98 Escherichia coli SWISS-2DPAGE database update	Electrophoresis	1998	588	2
Two-dimensional gel electrophoresis for proteome projects: the effects of protein hydrophobicity and copy number	Electrophoresis	1998	469	0
A superfamily of metalloenzymes unifies phosphopentomutase and cofactor-independent phosphoglycerate mutase with alkaline phosphatases and sulfatases	Protein science	1998	503	296
Construction of the gyrB Database for the Identification and Classification of Bacteria	Genomics & Informatics	1998	503	210
Protein annotation: detective work for function prediction	Trends in genetics	1998	477	0
Protein identification with N and C-terminal sequence tags in proteome projects	Journal of Molecular Biology	1998	481	0
The SWISS-PROT protein sequence data bank and its supplement TrEMBL in 1998	Nucleic acids research	1998	507	292
New insulin-like proteins with atypical disulfide bond pattern characterized in Caenorhabditis elegans by comparative sequence analysis and homology modeling	Genome research	1998	415	21
Current status of the SWISS-2DPAGE database	Nucleic acids research	1998	482	26
Sequences and topology: Predicting evolution	Current opinion in structural biology	1997	465	0
Proteome Databases	Proteome research: new frontiers in functional genomics	1997	303	0
The PROSITE database, its status in 1997	Nucleic acids research	1997	503	13
The UDP glycosyltransferase gene superfamily: recommended nomenclature update based on evolutionary divergence	Pharmacogenetics	1997	524	0
The SWISS-PROT protein sequence database: its relevance to human molecular medical research	Journal of molecular medicine	1997	483	0
Detailed peptide characterization using PEPTIDEMASS : a World-Wide-Web-accessible tool	Electrophoresis	1997	663	0
Arac/XylS family of transcriptional regulators	Microbiology and molecular biology reviews	1997	536	130
Molecular basis of symbiosis between Rhizobium and legumes	Nature	1997	882	0
Protein sequence annotation in the genome era: the annotation concept of SWISS-PROT+TREMBL	Proceedings	1997	580	105
The SWISS-PROT protein sequence data bank and its supplement TrEMBL	Nucleic acids research	1997	575	82
The SWISS-2DPAGE database of two-dimensional polyacrylamide gel electrophoresis, its status in 1995	Nucleic acids research	1996	623	49
The yeast SWISS-2DPAGE database	Electrophoresis	1996	565	0
The PROSITE database, its status in 1995	Nucleic acids research	1996	503	31
Federated two-dimensional electrophoresis database: a simple means of publishing two-dimensional electrophoresis data	Electrophoresis	1996	525	0
Updating the sequence-based classification of glycosyl hydrolases	Biochemical journal	1996	631	51
The ENZYME data bank in 1995	Nucleic acids research	1996	529	60
Two-dimensional gel electrophoresis of Escherichia coli homogenates: the Escherichia coli SWISS-2DPAGE database	Electrophoresis	1996	610	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	566	14
Integrating two-dimensional gel databases using the Melanie II software	Trends in biochemical sciences	1996	693	0
The SWISS-PROT protein sequence data bank and its new supplement TREMBL	Nucleic acids research	1996	610	229
Go hunting in sequence databases but watch out for the traps	Trends in genetics	1996	541	0
Inside SWISS-2DPAGE database	Electrophoresis	1995	617	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	522	0
The SWISS-PROT protein sequence data bank: current status	Nucleic acids research	1994	629	76
A new generation of information retrieval tools for biologists: the example of the ExPASy WWW server	Trends in biochemical sciences	1994	559	0
Proposals for the naming of chloroplast genes. III. Nomenclature for open reading frames encoded in chloroplast genomes	Plant molecular biology reporter	1994	576	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	567	11
The ENZYME data bank	Nucleic acids research	1994	584	63
PROSITE: recent developments	Nucleic acids research	1994	498	16
A novel zinc-binding motif found in two ubiquitous deaminase families	Protein science	1994	584	53
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	530	200
The SWISS-2DPAGE database of two-dimensional polyacrylamide gel electrophoresis	Nucleic acids research	1994	579	105
The SWISS-PROT protein sequence data bank, recent developments	Nucleic acids research	1993	621	68
ExPASy: un système expert pour l'analyse de séquences protéiques	Technologie et Santé	1993	367	71
A diverse transketolase family that includes the RecP protein of Streptococcus pneumoniae, a protein implicated in genetic recombination	Research in microbiology	1993	513	0
Snake proteins and nucleic acids	Toxicon	1993	547	0
Human liver protein map: update 1993	Electrophoresis	1993	609	0
The PROSITE dictionary of sites and patterns in proteins, its current status	Nucleic acids research	1993	550	56
New families in the classification of glycosyl hydrolases based on amino acid sequence similarities	Biochemical journal	1993	880	35
SWISS-2DPAGE: a database of two-dimensional gel electrophoresis images	Electrophoresis	1993	616	0
Complementation of the DNA repair defect in xeroderma pigmentosum group G cells by a human cDNA related to yeast RAD2	Nature	1993	605	0
A possible mechanism for metal-ion induced DNA-protein dissociation in a family of prokaryotic transcriptional regulators	Nucleic acids research	1993	586	38
The ENZYME data bank	Nucleic acids research	1993	554	108
Electrophorèse bidimensionnelle et informatique: un outil pour le diagnostic médical?	Labolife	1993	393	112
Plasma and red blood cell protein maps: update 1993	Electrophoresis	1993	576	0
The SWISS-PROT protein sequence data bank	Nucleic acids research	1992	633	41
PROSITE: a dictionary of sites and patterns in proteins	Nucleic acids research	1992	620	684
Human liver protein map: a reference database established by microsequencing and gel comparison	Electrophoresis	1992	596	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	536	0
Proto-vav and gene expression	Nature	1992	587	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	518	52
The SWISS-PROT protein sequence data bank	Nucleic acids research	1991	818	379
Nucleotide sequences of the Acinetobacter calcoaceticus benABC genes for benzoate 1,2-dioxygenase reveal evolutionary relationships among multicomponent oxygenases	Journal of bacteriology	1991	558	584
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	546	228
PROSITE: a dictionary of sites and patterns in proteins	Nucleic acids research	1991	628	393
SEQANALREF: a sequence analysis bibliographic reference databank	Computer applications in the biosciences	1991	615	200
EF-hand motifs in inositol phospholipid-specific phospholipase C	FEBS letters	1990	629	384
Calcium-binding affinity and calcium-enhanced activity of Clostridium thermocellum endoglucanase D	Biochemical journal	1990	593	488
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	425	86
A unique signature identifies a family of zinc-dependent metallopeptidases	FEBS letters	1989	580	96
Sequence similarities in calcium-binding proteins	Nature	1988	554	0
Sequence patterns in protein kinases	Nature	1988	495	0
Using PC/GENE for protein and nucleic acid analysis	BioTechniques	1988	500	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	537	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	592	0
Amino acid sequence determination by gas chromatography—mass spectrometry of permethylated peptides	Journal of chromatography	1983	680	0
Suggestion to research groups working on protein and peptide sequence	Biochemical journal	1982	605	280
Evidence for the existence of a mutated enkephalin sequence in preproenkephalin	FEBS letters	1982	589	109

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

Database

2021

333

446

The ABCD database: a repository for chemically defined antibodies

Nucleic Acids Research

2020

451

135

A high-stringency blueprint of the human proteome

Nature Communications

2020

276

128

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

Cancer Research

2020

227

0

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

Nucleic Acids Research

2020

440

181

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

Bioinformatics

2020

246

0

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

International Journal of Cancer

2020

445

308

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

eLife

2019

348

23

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

Chemical Research in Toxicology

2019

312

1

Exploring the Uncharacterized Human Proteome Using neXtProt

Journal of Proteome Research

2018

390

0

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

Journal of Proteome Research

2018

436

3

Kinases and Cancer

Cancers

2018

471

132

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

Human Genomics

2018

484

206

The Cellosaurus, a Cell-Line Knowledge Resource

Journal of Biomolecular Techniques

2018

488

357

A Standard Nomenclature for Referencing and Authentication of Pluripotent Stem Cells

Stem Cell Reports

2018

481

284

The neXtProt knowledgebase on human proteins: 2017 update

Nucleic acids research

2017

498

303

Triage by ranking to support the curation of protein interactions

Database

2017

503

436

Annotation of functional impact of voltage-gated sodium channel mutations

Human mutation

2017

528

278

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

Journal of proteome research

2016

517

60

ICEPO: the ion channel electrophysiology ontology

Database

2016

551

193

Deep Question Answering for protein annotation

Database

2015

564

1,096

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

Database

2015

487

264

N-terminome analysis of the human mitochondrial proteome

Proteomics

2015

562

0

The neXtProt knowledgebase on human proteins: current status

Nucleic acids research

2015

644

86

Converting neXtProt into Linked Data and nanopublications

Semantic web

2015

538

633

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

Molecular and cellular biology

2015

681

79

Key challenges for the creation and maintenance of specialist protein resources

Proteins

2015

482

31

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

Journal of proteome research

2014

666

653

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

Journal of web semantics

2014

564

0

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

Perspectives in science

2014

612

105

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

PloS one

2014

632

351

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

Biochimica et biophysica acta. Molecular cell research

2014

620

145

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

Nucleic acids research

2014

865

23

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

Journal of proteome research

2013

592

0

A large-scale evaluation of computational protein function prediction

Nature methods

2013

648

1,021

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

Journal of proteome research

2013

666

0

Standard guidelines for the chromosome-centric human proteome project

Journal of proteome research

2012

590

0

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

Nature biotechnology

2012

587

0

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

Nucleic acids research

2012

526

750

neXtProt: a knowledge platform for human proteins

Nucleic acids research

2012

636

418

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

PloS one

2012

571

403

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

Nucleic acids research

2011

512

344

ViralZone: a knowledge resource to understand virus diversity

Nucleic acids research

2011

702

346

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

459

0

The human proteome project: current state and future direction

Molecular & cellular proteomics

2011

652

646

PROSITE, a protein domain database for functional characterization and annotation

Nucleic acids research

2010

682

316

Animal Toxins: How is Complexity Represented in Databases?

Toxins

2010

502

312

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

Nature methods

2010

511

0

A large-scale protein-function database

Nature chemical biology

2010

583

268

OpenFluDB, a database for human and animal influenza virus

Database

2010

600

518

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

BMC bioinformatics

2009

965

2,612

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

Pharmacogenetics and genomics

2009

610

2

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

Proteomics

2009

566

0

InterPro: the integrative protein signature database

Nucleic acids research

2009

586

81

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

Nucleic acids research

2009

623

506

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

Bioinformatics: a Swiss Perspective

2009

492

0

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

Journal of proteomics

2009

593

0

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

Nucleic acids research

2009

651

120

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

Database

2009

662

327

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

Structural Proteomics and its Impact on the Life Sciences

2008

554

0

Calling on a million minds for community annotation in WikiProteins

GenomeBiology.com

2008

592

1,029

The 20 years of PROSITE

Nucleic acids research

2008

545

410

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

Human mutation

2008

636

81

UniProtKB/Swiss-Prot: new and future developments

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

2008

561

0

New developments in the InterPro database

Nucleic acids research

2007

645

1,178

UniProtKB/Swiss-Prot

Methods in molecular biology

2007

641

0

Data integration in Proteomics

Proteome research: concepts, technology and applications

2007

535

0

Protein variations: resources and tools

Biomedical application of proteomics

2006

554

0

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

Nucleic acids research

2006

647

714

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

Nucleic acids research

2006

728

364

Small can be beautiful, but it remains complex!

Complexus

2006

522

0

The PROSITE database

Nucleic acids research

2006

632

257

Functionally and structurally relevant residues in PROSITE motif descriptors

Encyclopedia of Genetics, Genomics, Proteomics and Bioinformatics

2005

461

1

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

Toxicon

2005

593

0

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

Bioinformatics

2005

671

157

Plant protein annotation in the UniProt Knowledgebase

Plant physiology

2005

503

141

InterPro, progress and status in 2005

Nucleic acids research

2005

653

18

Protein identification and analysis tools on the ExPASy server

The Proteomics Protocols Handbook

2005

1,376

0

The Universal Protein Resource (UniProt)

Nucleic acids research

2005

896

109

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

Comptes rendus. Biologies

2005

591

0

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

Human mutation

2004

565

0

IntAct: an open source molecular interaction database

Nucleic acids research

2004

633

28

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

Proteomics

2004

575

0

Protein sequence databases

Current opinion in chemical biology

2004

431

0

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

Plant physiology and biochemistry

2004

584

0

Swiss-Prot: juggling between evolution and stability

Briefings in bioinformatics

2004

576

147

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

Proteomics

2004

577

0

Post-translational modifications: a challenge for proteomics and bioinformatics

Proteomics

2004

549

45

IntEnz, the integrated relational enzyme database

Nucleic acids research

2004

660

42

UniProt: the Universal Protein knowledgebase

Nucleic acids research

2004

1,254

96

Recent improvements to the PROSITE database

Nucleic acids research

2004

565

210

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

Nucleic acids research

2003

1,051

65

Protein databases

Nature Encyclopedia of the Human Genome

2003

475

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

589

0

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

Nucleic acids research

2003

915

37

NEWT, a new taxonomy portal

Nucleic acids research

2003

556

38

The InterPro Database, 2003 brings increased coverage and new features

Nucleic acids research

2003

651

468

Automated annotation of microbial proteomes in SWISS-PROT

Computational biology and chemistry

2003

450

0

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

Proteomics

2002

643

0

The application of bioinformatics to mass spectrometry

Proteomics

2002

458

0

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

Acta Nova

2002

256

150

The Sulfinator: predicting tyrosine sulfation sites in protein sequences

Bioinformatics

2002

595

170

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

Briefings in bioinformatics

2002

592

380

The PROSITE database, its status in 2002

Nucleic acids research

2002

538

59

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

Briefings in bioinformatics

2002

608

205

ScanProsite: a reference implementation of a PROSITE scanning tool

Applied bioinformatics

2002

1,100

94

Annotation of glycoproteins in the SWISS-PROT database

Proteomics

2001

585

0

The human proteomics initiative (HPI)

Trends in biotechnology

2001

536

0

SWISS-PROT: connecting biomolecular knowledge via a protein database

Current issues in molecular biology

2001

780

104

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

Bioinformatics

2001

607

24

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

Nucleic acids research

2001

627

81

Quality control in databanks for molecular biology

BioEssays

2000

508

0

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

Bioinformatics

2000

649

281

The ENZYME database in 2000

Nucleic acids research

2000

479

551

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

Yeast

2000

574

0

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

Bioinformatics

2000

579

402

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

Nucleic acids research

2000

584

610

The 1999 SWISS-2DPAGE database update

Nucleic acids research

2000

501

316

The PROSITE database, its status in 1999

Nucleic acids research

1999

533

140

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

Pharmacogenetics

1999

434

0

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

Electrophoresis

1999

560

0

Internet resources for protein identification and characterization

Microcharacterization of proteins

1999

344

0

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

Nucleic acids research

1999

527

287

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

579

0

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

Journal of Molecular Biology

1999

627

985

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

Analytical chemistry

1999

552

574

The ENZYME data bank in 1999

Nucleic acids research

1999

463

517

Protein identification and analysis tools in the ExPASy server

Methods in Molecular Biology

1999

396

0

Representation of functional information in the SWISS-PROT data bank

Bioinformatics

1999

463

14

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

Nucleic acids research

1999

552

838

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

Electrophoresis

1998

492

0

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

Electrophoresis

1998

456

0

GPCRDB: an information system for G protein-coupled receptors

Nucleic acids research

1998

588

116

'98 Escherichia coli SWISS-2DPAGE database update

Electrophoresis

1998

588

2

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

Electrophoresis

1998

469

0

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

Protein science

1998

503

296

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

Genomics & Informatics

1998

503

210

Protein annotation: detective work for function prediction

Trends in genetics

1998

477

0

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

Journal of Molecular Biology

1998

481

0

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

Nucleic acids research

1998

507

292

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

Genome research

1998

415

21

Current status of the SWISS-2DPAGE database

Nucleic acids research

1998

482

26

Sequences and topology: Predicting evolution

Current opinion in structural biology

1997

465

0

Proteome Databases

Proteome research: new frontiers in functional genomics

1997

303

0

The PROSITE database, its status in 1997

Nucleic acids research

1997

503

13

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

Pharmacogenetics

1997

524

0

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

Journal of molecular medicine

1997

483

0

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

Electrophoresis

1997

663

0

Arac/XylS family of transcriptional regulators

Microbiology and molecular biology reviews

1997

536

130

Molecular basis of symbiosis between Rhizobium and legumes

Nature

1997

882

0

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

Proceedings

1997

580

105

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

Nucleic acids research

1997

575

82

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

Nucleic acids research

1996

623

49

The yeast SWISS-2DPAGE database

Electrophoresis

1996

565

0

The PROSITE database, its status in 1995

Nucleic acids research

1996

503

31

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

Electrophoresis

1996

525

0

Updating the sequence-based classification of glycosyl hydrolases

Biochemical journal

1996

631

51

The ENZYME data bank in 1995

Nucleic acids research

1996

529

60

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

Electrophoresis

1996

610

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

566

14

Integrating two-dimensional gel databases using the Melanie II software

Trends in biochemical sciences

1996

693

0

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

Nucleic acids research

1996

610

229

Go hunting in sequence databases but watch out for the traps

Trends in genetics

1996

541

0

Inside SWISS-2DPAGE database

Electrophoresis

1995

617

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

522

0

The SWISS-PROT protein sequence data bank: current status

Nucleic acids research

1994

629

76

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

Trends in biochemical sciences

1994

559

0

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

Plant molecular biology reporter

1994

576

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

567

11

The ENZYME data bank

Nucleic acids research

1994

584

63

PROSITE: recent developments

Nucleic acids research

1994

498

16

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

Protein science

1994

584

53

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

530

200

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

Nucleic acids research

1994

579

105

The SWISS-PROT protein sequence data bank, recent developments

Nucleic acids research

1993

621

68

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

Technologie et Santé

1993

367

71

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

Research in microbiology

1993

513

0

Snake proteins and nucleic acids

Toxicon

1993

547

0

Human liver protein map: update 1993

Electrophoresis

1993

609

0

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

Nucleic acids research

1993

550

56

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

Biochemical journal

1993

880

35

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

Electrophoresis

1993

616

0

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

Nature

1993

605

0

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

Nucleic acids research

1993

586

38

The ENZYME data bank

Nucleic acids research

1993

554

108

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

Labolife

1993

393

112

Plasma and red blood cell protein maps: update 1993

Electrophoresis

1993

576

0

The SWISS-PROT protein sequence data bank

Nucleic acids research

1992

633

41

PROSITE: a dictionary of sites and patterns in proteins

Nucleic acids research

1992

620

684

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

Electrophoresis

1992

596

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

536

0

Proto-vav and gene expression

Nature

1992

587

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

518

52

The SWISS-PROT protein sequence data bank

Nucleic acids research

1991

818

379

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

Journal of bacteriology

1991

558

584

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

546

228

PROSITE: a dictionary of sites and patterns in proteins

Nucleic acids research

1991

628

393

SEQANALREF: a sequence analysis bibliographic reference databank

Computer applications in the biosciences

1991

615

200

EF-hand motifs in inositol phospholipid-specific phospholipase C

FEBS letters

1990

629

384

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

Biochemical journal

1990

593

488

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

425

86

A unique signature identifies a family of zinc-dependent metallopeptidases

FEBS letters

1989

580

96

Sequence similarities in calcium-binding proteins

Nature

1988

554

0

Sequence patterns in protein kinases

Nature

1988

495

0

Using PC/GENE for protein and nucleic acid analysis

BioTechniques

1988

500

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

537

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

592

0

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

Journal of chromatography

1983

680

0

Suggestion to research groups working on protein and peptide sequence

Biochemical journal

1982

605

280

Evidence for the existence of a mutated enkephalin sequence in preproenkephalin

FEBS letters

1982

589

109

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