The SIB Swiss Institute of Bioinformatics' resources: focus on curated databases

scientific article (publication date: 4 January 2016)

The SIB Swiss Institute of Bioinformatics' resources: focus on curated databases is …
instance of (P31):
scholarly articleQ13442814

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P8978DBLP publication IDjournals/nar/Members16
P356DOI10.1093/NAR/GKV1310
P3181OpenCitations bibliographic resource ID281169
P932PMC publication ID4702916
P698PubMed publication ID26615188

P50authorDina VishnyakovaQ47503064
Patrick RuchQ47503066
Bart DeplanckeQ51020290
Oksana Riba-GrognuzQ51398085
Yolanda SchaerliQ51562602
Ivo PedruzziQ53587955
Lionel BreuzaQ53587962
Anne EstreicherQ53587969
Frédérique LisacekQ28609783
Christian von MeringQ30002493
Nicolas SalaminQ30004169
Gina CannarozziQ54438485
Lydie LaneQ54670253
Alfonso BuilQ54877870
Ana ViñuelaQ55112437
Serap ErkekQ55207557
Van Du T TranQ56153081
Panagiotis IoannidisQ56378941
Edoardo MissiagliaQ56426845
Stephan PeischlQ56434683
Emmanuel BoutetQ56452707
Michael TognolliQ56452708
Michel SchneiderQ56452710
Christian W ThorballQ56519867
Marc FeuermannQ56544962
Catherine RivoireQ56544965
Alexandre GouyQ56551188
Anne NiknejadQ56582619
Elisabeth CoudertQ56604103
Anne MorgatQ56604104
Lucila AimoQ56604105
Altuna AkalinQ56614722
Giovanna AmbrosiniQ56654453
Marcin J DomagalskiQ56660206
Igor V PivkinQ56799802
Edouard de CastroQ56855140
Jerven BollemanQ56888653
Bulak A ArpatQ56946957
Luciano CascioneQ57013374
Thierry LombardotQ57019924
Isaac CrespoQ57089331
Julien DorierQ57089335
Aivett BilbaoQ57208384
Julien RouxQ57208719
Valentine Rech de LavalQ57209098
Daniel TeixeiraQ57209111
Sebastien GehantQ57411256
Dirk KlingbielQ57611695
Michael SchmidQ57650423
Luc MottinQ57678007
Hyunjin ShimQ57951020
Nikolaos I PanousisQ57953421
Athanasios KousathanasQ58219460
Andreas R GschwindQ58232675
Thibault RobinQ58367746
Meric AtamanQ58488592
Sylvain PouxQ42892691
Christian H. AhrensQ44698745
Abdullah KahramanQ45736290
René DreosQ46108851
Marco PagniQ47097366
Halit OngenQ47502225
Michael BaudisQ30505717
Stefan WyderQ30524440
Robert M. WaterhouseQ30524445
Cedric SimillionQ37368009
Elisabeth GasteigerQ37391979
Jeffrey D. JensenQ40513972
Antonio RausellQ41044189
Macarena Toll-RieraQ41044893
David GfellerQ41045293
Patricia M. PalagiQ41046938
Carsten MagnusQ41050369
Sébastien MorettiQ42233018
Dmitry KuznetsovQ42233029
Heinz StockingerQ42233056
Nicole RedaschiQ42233068
Ramón García-EscuderoQ42289927
Julien PradosQ42395275
Alan J BridgeQ42745470
Adithi R VaradarajanQ58665624
Arnaud GaudinatQ59160381
Michel C MilinkovitchQ59312329
Francesco N CarelliQ59552950
Alexandros KiparissidesQ59698575
Julien MariethozQ60974763
Mohamad R Abdul SaterQ61142761
Caterina BarillariQ61853462
José Aguilar-RodríguezQ63374569
Alessio MilaneseQ63953097
Henrik KaessmannQ63980600
Asier Ullate-AgoteQ64854718
Joana Pinto VieiraQ64854720
Sayed-Rzgar HosseiniQ64854721
Ivan TopolskyQ64854723
Leonor RibQ64854724
Heeju NohQ64854725
Adam SmithQ64854727
Ute F. RöhrigQ64854728
Ljubisa MiskovicQ64854733
Ursula HinzQ96102923
P2860cites workarrayMap: a reference resource for genomic copy number imbalances in human malignanciesQ21134582
Annotation error in public databases: misannotation of molecular function in enzyme superfamiliesQ21145347
Unification of multi-species vertebrate anatomy ontologies for comparative biology in UberonQ22001246
Content discovery and retrieval services at the European Nucleotide ArchiveQ24426457
OrthoDB: a hierarchical catalog of animal, fungal and bacterial orthologsQ24595539
NCBI GEO: archive for functional genomics data sets--updateQ24595691
The Structural Biology Knowledgebase: a portal to protein structures, sequences, functions, and methodsQ24604825
MotEvo: integrated Bayesian probabilistic methods for inferring regulatory sites and motifs on multiple alignments of DNA sequencesQ48008831
iLOGP: a simple, robust, and efficient description of n-octanol/water partition coefficient for drug design using the GB/SA approach.Q50615528
The Protein Model Portal--a comprehensive resource for protein structure and model informationQ24618531
InterPro in 2011: new developments in the family and domain prediction databaseQ24620144
big data: The future of biocurationQ24650969
The SWISS-MODEL Repository and associated resourcesQ24656047
SWISS-MODEL and the Swiss-PdbViewer: an environment for comparative protein modelingQ27860614
The transcriptional landscape of the mammalian genomeQ27861110
The neXtProt knowledgebase on human proteins: current statusQ28255663
Biocurators and biocuration: surveying the 21st century challengesQ28262383
The Confidence Information Ontology: a step towards a standard for asserting confidence in annotationsQ28647782
The Protein Data Bank archive as an open data resourceQ28654725
The PRoteomics IDEntifications (PRIDE) database and associated tools: status in 2013Q28710185
The ChEBI reference database and ontology for biologically relevant chemistry: enhancements for 2013Q28710191
SwissRegulon, a database of genome-wide annotations of regulatory sites: recent updatesQ28710194
Outcome of a workshop on applications of protein models in biomedical researchQ28751701
UniProt: a hub for protein informationQ29547457
STRING v10: protein-protein interaction networks, integrated over the tree of lifeQ29615545
SWISS-MODEL: modelling protein tertiary and quaternary structure using evolutionary informationQ29615720
ArrayExpress--a public repository for microarray gene expression data at the EBIQ29616172
Gene Ontology Consortium: going forwardQ29616846
eggNOG v4.0: nested orthology inference across 3686 organismsQ30002339
UniCarbKB: building a knowledge platform for glycoproteomicsQ30050744
Protein structure computing in the genomic era.Q30326922
Protein structure homology modeling using SWISS-MODEL workspace.Q30374281
Automated comparative protein structure modeling with SWISS-MODEL and Swiss-PdbViewer: a historical perspective.Q30377960
Global and local model quality estimation at CASP8 using the scoring functions QMEAN and QMEANclust.Q30380089
GLYCOSCIENCES.de: an Internet portal to support glycomics and glycobiology research.Q30482956
A robust second-generation genome-wide test for fetal aneuploidy based on shotgun sequencing cell-free DNA in maternal bloodQ56986865
Assessing the local structural quality of transmembrane protein models using statistical potentials (QMEANBrane).Q42848308
Expanding molecular modeling and design tools to non-natural sidechainsQ43745380
Uncovering hidden duplicated content in public transcriptomics dataQ30597848
Managing the data deluge: data-driven GO category assignment improves while complexity of functional annotation increases.Q30654492
Progenetix: 12 years of oncogenomic data curationQ30694445
HAMAP in 2015: updates to the protein family classification and annotation systemQ30864270
Methods for analyzing deep sequencing expression data: constructing the human and mouse promoterome with deepCAGE dataQ33485579
IDEAL-Q, an automated tool for label-free quantitation analysis using an efficient peptide alignment approach and spectral data validationQ33502940
IQRray, a new method for Affymetrix microarray quality control, and the homologous organ conservation score, a new benchmark method for quality control metricsQ33593372
Fifteen years SIB Swiss Institute of Bioinformatics: life science databases, tools and supportQ33860694
The Sequence Read Archive: explosive growth of sequencing data.Q34051179
Closing the loop: from paper to protein annotation using supervised Gene Ontology classificationQ34132687
PASSEL: the PeptideAtlas SRMexperiment libraryQ34154235
GlycoSuiteDB: a curated relational database of glycoprotein glycan structures and their biological sources. 2003 updateQ34169553
A promoter-level mammalian expression atlasQ34412203
OMIM.org: Online Mendelian Inheritance in Man (OMIM®), an online catalog of human genes and genetic disordersQ34449729
BUSCO: assessing genome assembly and annotation completeness with single-copy orthologsQ34480034
Metrics for the Human Proteome Project 2015: Progress on the Human Proteome and Guidelines for High-Confidence Protein IdentificationQ34484117
Shaping the interaction landscape of bioactive molecules.Q34992054
Protter: interactive protein feature visualization and integration with experimental proteomic dataQ35026816
Expert curation in UniProtKB: a case study on dealing with conflicting and erroneous dataQ35119093
The Eukaryotic Promoter Database: expansion of EPDnew and new promoter analysis toolsQ35253696
The OMA orthology database in 2015: function predictions, better plant support, synteny view and other improvements.Q35254048
Updates in Rhea--a manually curated resource of biochemical reactionsQ35254873
UniPep--a database for human N-linked glycosites: a resource for biomarker discoveryQ35606070
Protein homology reveals new targets for bioactive small moleculesQ35611201
The SwissLipids knowledgebase for lipid biologyQ35622724
Big Data: Astronomical or Genomical?Q35685054
MetaNetX/MNXref--reconciliation of metabolites and biochemical reactions to bring together genome-scale metabolic networksQ36434651
SugarBindDB, a resource of glycan-mediated host-pathogen interactionsQ36434892
New and continuing developments at PROSITE.Q36491615
Genetic variations and diseases in UniProtKB/Swiss-Prot: the ins and outs of expert manual curationQ38213497
ExPASy: SIB bioinformatics resource portalQ42232951
SwissSidechain: a molecular and structural database of non-natural sidechainsQ42429983
SwissBioisostere: a database of molecular replacements for ligand design.Q42430081
SwissTargetPrediction: a web server for target prediction of bioactive small moleculesQ42724602
It's sink or swim as a tidal wave of data approachesQ58996331
P275copyright licenseCreative Commons Attribution 4.0 InternationalQ20007257
P6216copyright statuscopyrightedQ50423863
P433issueD1
P407language of work or nameEnglishQ1860
P921main subjectbioinformaticsQ128570
databaseQ8513
P304page(s)D27-37
P577publication date2016-01-04
P1433published inNucleic Acids ResearchQ135122
P1476titleThe SIB Swiss Institute of Bioinformatics' resources: focus on curated databases
P478volume44