2016

Scientific Articles

unige:97658

Health On the Net's 20 Years of Transparent and Reliable Health Information

Boyer Walther, Célia; Appel, Ron David; Ball, Marion J; van Bemmel, Jan H; ... Geissbuhler, Antoine

Thesis supervisions

unige:82294

Computational identification and analysis of conserved non-coding vertebrate elements

Dousse, Aline;

2014

Scientific Articles

unige:36888

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

Stockinger, Heinz; Altenhoff, Adrian M; Arnold, Konstantin; Bairoch, Amos Marc; ... Appel, Ron David

2013

Thesis supervisions

unige:30428	Analysis of evolutionary constraints on gene arrangements in animal genomes	Li, Jia;
unige:39498	IndiMax: fast and reliable filtering methodology for Tandem Mass Spectrometry data	Kuzyakiv, Rostyslav;
unige:27731	Managing biomedical knowledge: computer-assisted knowledge acquisition and authoring in highly specialized domains	Pasche, Emilie;

2012

Thesis supervisions

unige:23951	Bioinformatics tools to assist drug candidate discovery in venom gland transcriptomes	Koua, Dominique Kadio;
unige:23938	Computational prediction of microRNA targets: thermodynamic, probabilistic and evolutionary models parameterized by genome-scale experimental data	Vejnar, Charles;
unige:23962	Data integration and trend analysis for surveillance of antimicrobial resistance	Teodoro, Douglas Henrique;
unige:30032	Modèles automatiques de questions / réponses pour les sciences biomédicales	Gobeill, Julien;
unige:26680	Next generation sequencing bioinformatics for the analysis of whole microbial genomes	Calderon Copete, Sandra;

2011

Thesis supervisions

unige:16383	Exploring the use of MS/MS spectral libraries to improve protein identification and characterization	Ahrne, Erik;
unige:16082	High-throughput phylogenomics : from vertebrate conserved non-coding sequences to viral genomics	Junier, Thomas;

2010

Thesis supervisions

unige:6890	Computational prediction of functional RNA structures: A study of the animal miRNAome and cis-acting replication elements in enteroviruses	Gerlach, Daniel;
unige:8579	LC-MSMS identification of small molecules: SmileMS, a small molecule identification platform applied to clinical toxicology	Mauron, Yann;
unige:9839	LC-MSMS identification of small molecules; X-Rank, a robust library search algorithm	Mylonas, Roman;

2009

Scientific Articles

unige:5595

SwissPIT: An workflow-based platform for analyzing tandem-MS spectra using the Grid

Quandt, Andreas; Masselot, Alexandre; Hernandez, Patricia; Hernandez, Céline; ... Lisacek, Frédérique

Thesis supervisions

unige:23831	Interfacing sequences and structures of proteins: applications to protein annotation and sequence feature visualization	David, Fabrice Pierre André;
unige:1695	Modèles vectoriels et bibliométriques pour la recherche d'information et la détection de nouveauté appliqués à la protéomique	Tbahriti, Imad;

2008

Scientific Articles

unige:1296	A suite of tools to analyse and publish 2-DE data	Hoogland, Christine; Walther, Daniel; Palagi, Patricia; Bouchet, Gérard; ... Lisacek, Frédérique
unige:843	MIAPEGelDB, a web-based submission tool and public repository for MIAPE gel electrophoresis documents	Robin, Xavier Arnaud; Hoogland, Christine; Appel, Ron David; Lisacek, Frédérique;
unige:1070	swissPIT: a novel approach for pipelined analysis of mass spectrometry data	Quandt, Andreas; Hernandez, Patricia; Masselot, Alexandre; Hernandez, Céline; ... Lisacek, Frédérique
unige:1156	The World-2DPAGE Constellation to promote and publish gel-based proteomics data through the ExPASy server	Hoogland, Christine; Mostaguir, Khaled; Appel, Ron David; Lisacek, Frédérique;

Thesis supervisions

unige:612

Managing and publishing proteomics data : the Make2D-DB II tool, an integrative environment applied to 2-DE datasets

Mostaguir, Khaled;

2007

Scientific Articles

unige:33514	Analysis of proteomes using the molecular scanner	Deon, Catherine; Bienvenut, Willy; Sanchez, Jean-Charles; Hochstrasser, Denis; ... Appel, Ron David
unige:33483	Labeling of Bifidobacterium longum cells with 13C-substituted leucine for quantitative proteomic analyses	Coute, Yohann; Hernandez, Céline; Appel, Ron David; Sanchez, Jean-Charles; Margolles, Abelardo
unige:103675	Using bioinformatic resources in the proteomic analysis of biological fluids	Lisacek, Frédérique; Hoogland, Christine; Lescuyer, Pierre; Hochstrasser, Denis; Appel, Ron David

Thesis supervisions

unige:526

Development and validation of a novel method for clustering protein sequences and detecting diagnostic motifs

Zangger, Nadine;

2005

Scientific Articles

unige:32159	Correlation of proteomic and transcriptomic profiles of Staphylococcus aureus during the post-exponential phase of growth	Scherl, Alexander; Francois, Patrice; Bento, Manuela; Deshusses, Jacques; ... Schrenzel, Jacques
unige:33518	MSight: an image analysis software for liquid chromatography-mass spectrometry	Palagi Graf, Patricia; Walther, Daniel; Quadroni, Manfredo; Catherinet, Sébastien; ... Appel, Ron David

Book Chapters

unige:37793

Protein identification and analysis tools on the ExPASy server

Gasteiger, Elisabeth; Hoogland, Christine; Gattiker, Alexandre; Duvaud, Séverine; ... Bairoch, Amos Marc

Thesis supervisions

unige:726	Development of methods for the automated annotation of prokaryotic proteomes	Gattiker, Alexandre;
unige:372	Peptide identification by tandem mass spectrometry : a tag-oriented open-modification search method	Hernandez, Patricia;
unige:342	Stratégies d'optimisation combinatoire pour le problème de l'alignement local multiple sans indels, et application aux séquences protéiques	Hernandez, David;

2004

Scientific Articles

unige:38279	Post-translational modifications: a challenge for proteomics and bioinformatics	Appel, Ron David; Bairoch, Amos Marc;
unige:36219	SWISS-2DPAGE, ten years later	Hoogland, Christine; Mostaguir, Khaled; Sanchez, Jean-Charles; Hochstrasser, Denis; Appel, Ron David
unige:36215	The molecular scanner: concept and developments	Binz, Pierre-Alain; Muller, Markus Johann; Hoogland, Christine; Zimmermann, Catherine; ... Appel, Ron David

2003

Scientific Articles

unige:40340	ExPASy: The proteomics server for in-depth protein knowledge and analysis	Gasteiger, Elisabeth; Gattiker, Alexandre; Hoogland, Christine; Ivanyi, Ivan; ... Bairoch, Amos Marc
unige:103678	Mass Spectrometry-Based Proteomics: Current Status and Potential Use in Clinical Chemistry	Binz, Pierre-Alain; Hochstrasser, Denis; Appel, Ron David;

Thesis supervisions

unige:267

Molecular scanner data analysis

Muller, Markus Johann;

2002

Scientific Articles

unige:37235	Hydrogen/deuterium exchange for higher specificity of protein identification by peptide mass fingerprinting	Bienvenut, Willy-Vincent; Hoogland, Christine; Greco, Anna; Heller, Manfred; ... Hochstrasser, Denis
unige:103672	Molecular scanner experiment with human plasma: Improving protein identification by using intensity distributions of matching peptide masses	Muller, Markus Johann; Gras, Robin; Binz, Pierre-Alain; Hochstrasser, Denis; Appel, Ron David
unige:103680	Peptide mass fingerprinting peak intensity prediction: Extracting knowledge from spectra	Gay, Steven Daryl; Binz, Pierre-Alain; Hochstrasser, Denis; Appel, Ron David;
unige:37236	Proteomics and its trends facing nature's complexity	Hochstrasser, Denis; Sanchez, Jean-Charles; Appel, Ron David;
unige:74722	The application of bioinformatics to mass spectrometry	Appel, Ron David; Bairoch, Amos Marc;
unige:103664	Visualization and analysis of molecular scanner peptide mass spectra	Muller, Markus Johann; Gras, Robin; Appel, Ron David; Bienvenut, Willy-Vincent; Hochstrasser, Denis

2000

Scientific Articles

unige:74719

The 1999 SWISS-2DPAGE database update

Hoogland, Christine; Sanchez, Jean-Charles; Tonella, Luisa; Binz, Pierre-Alain; ... Appel, Ron David

1999

Scientific Articles

unige:80769	A molecular scanner to automate proteomic research and to display proteome images	Binz, Pierre-Alain; Muller, Markus Johann; Walther, Daniel; Bienvenut, Willy-Vincent; ... Hochstrasser, Denis
unige:75373	Improving protein identification from peptide mass fingerprinting through a parameterized multi-level scoring algorithm and an optimized peak detection	Gras, Robin; Müller, Marcus; Gasteiger, Elisabeth; Gay, Steven Daryl; ... Appel, Ron David
unige:108533	Protein identification and analysis tools in the ExPASy server	Wilkins, Marc; Gasteiger, Elisabeth; Bairoch, Amos Marc; Sanchez, Jean Emmanuel; ... Hochstrasser, Denis