Publications

Found 178 results
Filters: Author is Hermjakob, H.  [Clear All Filters]
2013
Mayer G, Jones A.R, Binz P.A, et al. "Controlled vocabularies and ontologies in proteomics: Overview, principles and practice." Biochim Biophys Acta. 2013.
Csordas A., Wang R., Rios D, et al. "From Peptidome to PRIDE: Public proteomics data migration at a large scale." Proteomics. 2013;13:1692-5.
Perez-Riverol Y., Sanchez A, Noda J., et al. "HI-bone: a scoring system for identifying phenylisothiocyanate-derivatized peptides based on precursor mass and high intensity fragment ions." Anal Chem. 2013;85:3515-20.
Foster J.M, Moreno P., Fabregat A, et al. "LipidHome: A Database of Theoretical Lipids Optimized for High Throughput Mass Spectrometry Lipidomics." PLoS One. 2013;8:e61951.
Perez-Riverol Y., Wang R., Hermjakob H, Müller M, Vesada V., Vizcaino J.A. "Open source libraries and frameworks for mass spectrometry based proteomics: A developer's perspective." Biochim Biophys Acta. 2013.
Orchard S, Binz P.A, Jones A.R, Vizcaino J.A, Deutsch E.W, Hermjakob H. "Preparing to Work with Big Data in Proteomics - A Report on the HUPO-PSI Spring Workshop: April 15-17, 2013, Liverpool, UK." Proteomics. 2013;13:2931-7.
Griss J., Foster J.M, Hermjakob H, Vizcaino J.A. "PRIDE Cluster: building a consensus of proteomics data." Nat Methods. 2013;10:95-6.
Griss J., Foster J.M, Hermjakob H, Vizcaino J.A. "PRIDE Cluster: building the consensus of proteomics data." Nature Methods. 2013:in press.
Vizcaino J.A, Cote R.G, Csordas A., et al. "The PRoteomics IDEntifications (PRIDE) database and associated tools: status in 2013." Nucleic Acids Res. 2013;41:D1063-9.
Ghali F, Krishna R, Lukasse P., et al. "Tools (Viewer, Library and Validator) that Facilitate Use of the Peptide and Protein Identification Standard Format, Termed mzIdentML." Mol Cell Proteomics. 2013;12:3026-35.
2012
Koh GCKW, Porras P, Aranda B., Hermjakob H, Orchard SE. "Analyzing Protein–Protein Interaction Networks†." Journal of proteome research. 2012;11:2014-2031.
Milacic M, Haw R, Rothfels K, et al. "Annotating Cancer Variants and Anti-Cancer Therapeutics in Reactome." Cancers. 2012;4:1180-1211.
Gonzalez-Galarza FF, Lawless C, Hubbard SJ, et al. "A Critical Appraisal of Techniques, Software Packages, and Standards for Quantitative Proteomic Analysis." OMICS: A Journal of Integrative Biology. 2012.
Orchard S, Albar J.P, Deutsch E.W, et al. "From proteomics data representation to public data flow: a report on the HUPO-PSI workshop September 2011, Geneva, Switzerland." Proteomics. 2012;12:351-5.
Orchard S, Albar J.P., Deutsch E.W., et al. "From Proteomics Data Representation to Public Data Flow: A Report on the HUPO-PSI Workshop September 2011, Geneva, Switzerland." Proteomics. 2012;12:351-355.
Lam MPY, Vivanco F, Scholten A, Hermjakob H, Van Eyk J, Ping P.. "HUPO 2011: The New Cardiovascular Initiative-Integrating Proteomics and Cardiovascular Biology in Health and Disease." Proteomics. 2012;12:749-751.
Jones AME, Aebersold R., Daube M, et al. "The HUPO initiative on Model Organism Proteomes, iMOP| Macquarie University ResearchOnline.". 2012.
Lewis S, Csordas A., Killcoyne S, et al. "Hydra: a scalable proteomic search engine which utilizes the Hadoop distributed computing framework." BMC bioinformatics. 2012;13:324.
Wein SP, Côté R.G., Dumousseau M., Reisinger F, Hermjakob H, Vizcaino J.A.. "Improvements in the protein identifier cross-reference service." Nucleic acids research. 2012;40:W276-W280.
Wein S.P, Cote R.G, Dumousseau M., Reisinger F, Hermjakob H, Vizcaino J.A. "Improvements in the Protein Identifier Cross-Reference service." Nucleic Acids Res. 2012;40:W276-80.
Reisinger F, Krishna R, Ghali F, et al. "jmzIdentML API: A Java interface to the mzIdentML standard for peptide and protein identification data." Proteomics. 2012;12:790-794.
Reisinger F, Krishna R, Ghali F, et al. "jmzIdentML API: A Java interface to the mzIdentML standard for peptide and protein identification data." Proteomics. 2012;12:790-4.
Griss J., Reisinger F, Hermjakob H, Vizcaino J.A.. "jmzReader: A Java parser library to process and visualize multiple text and XML-based mass spectrometry data formats." Proteomics. 2012;12:795-798.
Griss J., Reisinger F, Hermjakob H, Vizcaino J.A. "jmzReader: A Java parser library to process and visualize multiple text and XML-based mass spectrometry data formats." Proteomics. 2012;12:795-8.
Salazar GA, Garc{\'ıa LJ, Jones P, et al. "MyDas, an Extensible Java DAS Server." PLOS ONE. 2012;7:e44180.

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