Search Results - "APWEILER, Rolf"

Pindel: a pattern growth approach to detect break points of large deletions and medium sized insertions from paired-end short reads by Ye, Kai, Schulz, Marcel H., Long, Quan, Apweiler, Rolf, Ning, Zemin

“…Motivation: There is a strong demand in the genomic community to develop effective algorithms to reliably identify genomic variants. Indel detection using…”
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QuickGO: a web-based tool for Gene Ontology searching by Binns, David, Dimmer, Emily, Huntley, Rachael, Barrell, Daniel, O'Donovan, Claire, Apweiler, Rolf

“…QuickGO is a web-based tool that allows easy browsing of the Gene Ontology (GO) and all associated electronic and manual GO annotations provided by the GO…”
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The European Bioinformatics Institute: empowering cooperation in response to a global health crisis by Cantelli, Gaia, Cochrane, Guy, Brooksbank, Cath, McDonagh, Ellen, Flicek, Paul, McEntyre, Johanna, Birney, Ewan, Apweiler, Rolf

“…Abstract The European Bioinformatics Institute (EMBL-EBI; https://www.ebi.ac.uk/) provides freely available data and bioinformatics services to the scientific…”
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The European Bioinformatics Institute in 2016: Data growth and integration by Cook, Charles E, Bergman, Mary Todd, Finn, Robert D, Cochrane, Guy, Birney, Ewan, Apweiler, Rolf

“…New technologies are revolutionising biological research and its applications by making it easier and cheaper to generate ever-greater volumes and types of…”
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ProteomeXchange provides globally coordinated proteomics data submission and dissemination by Vizcaíno, Juan A, Deutsch, Eric W, Wang, Rui, Csordas, Attila, Reisinger, Florian, Ríos, Daniel, Dianes, José A, Sun, Zhi, Farrah, Terry, Bandeira, Nuno, Binz, Pierre-Alain, Xenarios, Ioannis, Eisenacher, Martin, Mayer, Gerhard, Gatto, Laurent, Campos, Alex, Chalkley, Robert J, Kraus, Hans-Joachim, Albar, Juan Pablo, Martinez-Bartolomé, Salvador, Apweiler, Rolf, Omenn, Gilbert S, Martens, Lennart, Jones, Andrew R, Hermjakob, Henning

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The European Bioinformatics Institute in 2020: building a global infrastructure of interconnected data resources for the life sciences by Cook, Charles E, Stroe, Oana, Cochrane, Guy, Birney, Ewan, Apweiler, Rolf

“…Abstract Data resources at the European Bioinformatics Institute (EMBL-EBI, https://www.ebi.ac.uk/) archive, organize and provide added-value analysis of…”
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The Ontology Lookup Service, a lightweight cross-platform tool for controlled vocabulary queries by Côté, Richard G, Jones, Philip, Apweiler, Rolf, Hermjakob, Henning

“…With the vast amounts of biomedical data being generated by high-throughput analysis methods, controlled vocabularies and ontologies are becoming increasingly…”
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PRIDE: The proteomics identifications database by Martens, Lennart, Hermjakob, Henning, Jones, Philip, Adamski, Marcin, Taylor, Chris, States, David, Gevaert, Kris, Vandekerckhove, Joël, Apweiler, Rolf

“…The advent of high‐throughput proteomics has enabled the identification of ever increasing numbers of proteins. Correspondingly, the number of publications…”
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The International Protein Index: An integrated database for proteomics experiments by Kersey, Paul J., Duarte, Jorge, Williams, Allyson, Karavidopoulou, Youla, Birney, Ewan, Apweiler, Rolf

“…Despite the complete determination of the genome sequence of several higher eukaryotes, their proteomes remain relatively poorly defined. Information about…”
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The Protein Identifier Cross-Referencing (PICR) service: reconciling protein identifiers across multiple source databases by Côté, Richard G, Jones, Philip, Martens, Lennart, Kerrien, Samuel, Reisinger, Florian, Lin, Quan, Leinonen, Rasko, Apweiler, Rolf, Hermjakob, Henning

“…Each major protein database uses its own conventions when assigning protein identifiers. Resolving the various, potentially unstable, identifiers that refer to…”
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Identifying ELIXIR Core Data Resources by Durinx, Christine, McEntyre, Jo, Appel, Ron, Apweiler, Rolf, Barlow, Mary, Blomberg, Niklas, Cook, Chuck, Gasteiger, Elisabeth, Kim, Jee-Hyub, Lopez, Rodrigo, Redaschi, Nicole, Stockinger, Heinz, Teixeira, Daniel, Valencia, Alfonso

“…The core mission of ELIXIR is to build a stable and sustainable infrastructure for biological information across Europe. At the heart of this are the data…”
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LipidHome: a database of theoretical lipids optimized for high throughput mass spectrometry lipidomics by Foster, Joseph M, Moreno, Pablo, Fabregat, Antonio, Hermjakob, Henning, Steinbeck, Christoph, Apweiler, Rolf, Wakelam, Michael J O, Vizcaíno, Juan Antonio

“…Protein sequence databases are the pillar upon which modern proteomics is supported, representing a stable reference space of predicted and validated proteins…”
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Cellular resolution models for even skipped regulation in the entire Drosophila embryo by Ilsley, Garth R, Fisher, Jasmin, Apweiler, Rolf, De Pace, Angela H, Luscombe, Nicholas M

“…Transcriptional control ensures genes are expressed in the right amounts at the correct times and locations. Understanding quantitatively how regulatory…”
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The Proteomics Standards Initiative by Orchard, Sandra, Hermjakob, Henning, Apweiler, Rolf

“…The Proteomics Standards Initiative (PSI) aims to define community standards for data representation in proteomics and to facilitate data comparison, exchange…”
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An evaluation of GO annotation retrieval for BioCreAtIvE and GOA by Camon, Evelyn B, Barrell, Daniel G, Dimmer, Emily C, Lee, Vivian, Magrane, Michele, Maslen, John, Binns, David, Apweiler, Rolf

“…The Gene Ontology Annotation (GOA) database http://www.ebi.ac.uk/GOA aims to provide high-quality supplementary GO annotation to proteins in the UniProt…”
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The Gene Ontology Annotation (GOA) project: implementation of GO in SWISS-PROT, TrEMBL, and InterPro by Camon, Evelyn, Magrane, Michele, Barrell, Daniel, Binns, David, Fleischmann, Wolfgang, Kersey, Paul, Mulder, Nicola, Oinn, Tom, Maslen, John, Cox, Anthony, Apweiler, Rolf

“…Gene Ontology Annotation (GOA) is a project run by the European Bioinformatics Institute (EBI) that aims to provide assignments of terms from the Gene Ontology…”
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Missing in action: enzyme functional annotations in biological databases by Furnham, Nicholas, Garavelli, John S, Apweiler, Rolf, Thornton, Janet M

“…Annotations of enzyme function provide critical starting points for generating and testing biological hypotheses, but the quality of functional annotations is…”
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The Proteomics Identifications Database (PRIDE) and the ProteomExchange Consortium: making proteomics data accessible by Hermjakob, Henning, Apweiler, Rolf

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Broadening the horizon--level 2.5 of the HUPO-PSI format for molecular interactions by Kerrien, Samuel, Orchard, Sandra, Montecchi-Palazzi, Luisa, Aranda, Bruno, Quinn, Antony F, Vinod, Nisha, Bader, Gary D, Xenarios, Ioannis, Wojcik, Jérôme, Sherman, David, Tyers, Mike, Salama, John J, Moore, Susan, Ceol, Arnaud, Chatr-Aryamontri, Andrew, Oesterheld, Matthias, Stümpflen, Volker, Salwinski, Lukasz, Nerothin, Jason, Cerami, Ethan, Cusick, Michael E, Vidal, Marc, Gilson, Michael, Armstrong, John, Woollard, Peter, Hogue, Christopher, Eisenberg, David, Cesareni, Gianni, Apweiler, Rolf, Hermjakob, Henning

“…Molecular interaction Information is a key resource in modern biomedical research. Publicly available data have previously been provided in a broad array of…”
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UniProt archive by Leinonen, Rasko, Diez, Federico Garcia, Binns, David, Fleischmann, Wolfgang, Lopez, Rodrigo, Apweiler, Rolf

“…UniProt Archive (UniParc) is the most comprehensive, non-redundant protein sequence database available. Its protein sequences are retrieved from predominant,…”
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