Frederique Lisacek Proteome Informatics Group SIB Swiss Institute of Bioinformatics Biography Publications Institution JoVE Articles Frederique Lisacek Frédérique Lisacek heads the Proteome Informatics Group at the SIB Swiss Institute of Bioinformatics and holds a senior lecturer position at the University of Geneva, Switzerland. She received a PhD in Computer Science (Artificial Intelligence) from the University Pierre & Marie Curie, Paris, France and held research positions in France, Japan and Australia working on knowledge representation and data mining methods. She spent a few years in industry (Proteome Systems Ltd in Sydney, Australia and Geneva Bioinformatics (GeneBio) S.A, in Geneva, Switzerland) before joining SIB in 2006, where she has been driving knowledge discovery projects in proteomics and more recently in glycomics . Her group teams with an international network of dedicated glycoscientists gathering momentum to deliver a range of databases and software increasingly used in the community. Publications An Interactive View of Glycosylation Methods in Molecular Biology (Clifton, N.J.). Month, 2022 | Pubmed ID: 34611864 Dealing with the Ambiguity of Glycan Substructure Search Molecules (Basel, Switzerland). Dec, 2021 | Pubmed ID: 35011294 UniLectin, A One-Stop-Shop to Explore and Study Carbohydrate-Binding Proteins Current Protocols. Nov, 2021 | Pubmed ID: 34826352 Bioinformatics in Immunoglobulin Glycosylation Analysis Experientia Supplementum (2012). Month, 2021 | Pubmed ID: 34687011 Corrigendum To: The Glycoconjugate Ontology (GlycoCoO) for Standardizing the Annotation of Glycoconjugate Data and Its Application Glycobiology. Aug, 2021 | Pubmed ID: 34379754 Glycan Compositions with GlyConnect Compozitor to Enhance Glycopeptide Identification Methods in Molecular Biology (Clifton, N.J.). Month, 2021 | Pubmed ID: 34236658 Proteome-wide Prediction of Bacterial Carbohydrate-binding Proteins As a Tool for Understanding Commensal and Pathogen Colonisation of the Vaginal Microbiome NPJ Biofilms and Microbiomes. 06, 2021 | Pubmed ID: 34131152 Expasy, the Swiss Bioinformatics Resource Portal, As Designed by Its Users Nucleic Acids Research. 07, 2021 | Pubmed ID: 33849055 The Glycoconjugate Ontology (GlycoCoO) for Standardizing the Annotation of Glycoconjugate Data and Its Application Glycobiology. Aug, 2021 | Pubmed ID: 33677548 LectomeXplore, an Update of UniLectin for the Discovery of Carbohydrate-binding Proteins Based on a New Lectin Classification Nucleic Acids Research. 01, 2021 | Pubmed ID: 33174598 GAG-DB, the New Interface of the Three-Dimensional Landscape of Glycosaminoglycans Biomolecules. 12, 2020 | Pubmed ID: 33322545 Automatic Annotation and Dereplication of Tandem Mass Spectra of Peptidic Natural Products Analytical Chemistry. 12, 2020 | Pubmed ID: 33226770 Examining and Fine-tuning the Selection of Glycan Compositions with GlyConnect Compozitor Molecular & Cellular Proteomics : MCP. 10, 2020 | Pubmed ID: 32636234 Structural Database for Lectins and the UniLectin Web Platform Methods in Molecular Biology (Clifton, N.J.). Month, 2020 | Pubmed ID: 32306309 Structure and Engineering of Tandem Repeat Lectins Current Opinion in Structural Biology. 06, 2020 | Pubmed ID: 31841833 Norine: Update of the Nonribosomal Peptide Resource Nucleic Acids Research. 01, 2020 | Pubmed ID: 31691799 The GlySpace Alliance: Toward a Collaborative Global Glycoinformatics Community Glycobiology. 01, 2020 | Pubmed ID: 31573039 Kendrick Mass Defect Approach Combined to NORINE Database for Molecular Formula Assignment of Nonribosomal Peptides Journal of the American Society for Mass Spectrometry. Dec, 2019 | Pubmed ID: 31659720 Towards a Standardized Bioinformatics Infrastructure for N- and O-glycomics Nature Communications. 07, 2019 | Pubmed ID: 31332201 Updates to the Symbol Nomenclature for Glycans Guidelines Glycobiology. 08, 2019 | Pubmed ID: 31184695 A Targeted Proteomics Approach Reveals a Serum Protein Signature As Diagnostic Biomarker for Resectable Gastric Cancer EBioMedicine. Jun, 2019 | Pubmed ID: 31151932 A Bioinformatics View of Glycan⁻Virus Interactions Viruses. 04, 2019 | Pubmed ID: 31018588 Architecture and Evolution of Blade Assembly in β-propeller Lectins Structure (London, England : 1993). 05, 2019 | Pubmed ID: 30853410 RBAN: Retro-biosynthetic Analysis of Nonribosomal Peptides Journal of Cheminformatics. Feb, 2019 | Pubmed ID: 30737579 GlyConnect: Glycoproteomics Goes Visual, Interactive, and Analytical Journal of Proteome Research. 02, 2019 | Pubmed ID: 30574787 UniLectin3D, a Database of Carbohydrate Binding Proteins with Curated Information on 3D Structures and Interacting Ligands Nucleic Acids Research. 01, 2019 | Pubmed ID: 30239928 A Pipeline to Translate Glycosaminoglycan Sequences into 3D Models. Application to the Exploration of Glycosaminoglycan Conformational Space Glycobiology. 01, 2019 | Pubmed ID: 30239692 SugarSketcher: Quick and Intuitive Online Glycan Drawing Molecules (Basel, Switzerland). Dec, 2018 | Pubmed ID: 30563078 Large-Scale Reanalysis of Publicly Available HeLa Cell Proteomics Data in the Context of the Human Proteome Project Journal of Proteome Research. 12, 2018 | Pubmed ID: 30175587 Glycomics@ExPASy: Bridging the Gap Molecular & Cellular Proteomics : MCP. 11, 2018 | Pubmed ID: 30097532 Understanding the Glycome: an Interactive View of Glycosylation from Glycocompositions to Glycoepitopes Glycobiology. 06, 2018 | Pubmed ID: 29518231 PepSweetener: A Web-Based Tool to Support Manual Annotation of Intact Glycopeptide MS Spectra Proteomics. Clinical Applications. 09, 2018 | Pubmed ID: 28975713 Glycoforest 1.0 Analytical Chemistry. 10, 2017 | Pubmed ID: 28901741 A Community Proposal to Integrate Proteomics Activities in ELIXIR F1000Research. Month, 2017 | Pubmed ID: 28713550 Peptidomic and Transcriptomic Profiling of Four Distinct Spider Venoms PloS One. Month, 2017 | Pubmed ID: 28306751 Navigating the Glycome Space and Connecting the Glycoproteome Methods in Molecular Biology (Clifton, N.J.). Month, 2017 | Pubmed ID: 28150237 Glycosaminoglycanomics: Where We Are Glycoconjugate Journal. 06, 2017 | Pubmed ID: 27900575 Databases and Associated Tools for Glycomics and Glycoproteomics Methods in Molecular Biology (Clifton, N.J.). Month, 2017 | Pubmed ID: 27743371 GlycoSiteAlign: Glycosite Alignment Based on Glycan Structure Journal of Proteome Research. 10, 2016 | Pubmed ID: 27523326 Dedicated Software Enhancing Data-independent Acquisition Methods in Mass Spectrometry Chimia. Month, 2016 | Pubmed ID: 27131118 Mining Large Scale Tandem Mass Spectrometry Data for Protein Modifications Using Spectral Libraries Journal of Proteome Research. Mar, 2016 | Pubmed ID: 26653734 SugarBindDB, a Resource of Glycan-mediated Host-pathogen Interactions Nucleic Acids Research. Jan, 2016 | Pubmed ID: 26578555 Property Graph Vs RDF Triple Store: A Comparison on Glycan Substructure Search PloS One. Month, 2015 | Pubmed ID: 26656740 Ranking Fragment Ions Based on Outlier Detection for Improved Label-Free Quantification in Data-Independent Acquisition LC-MS/MS Journal of Proteome Research. Nov, 2015 | Pubmed ID: 26412574 The Use of Variable Q1 Isolation Windows Improves Selectivity in LC-SWATH-MS Acquisition Journal of Proteome Research. Oct, 2015 | Pubmed ID: 26302369 MzJava: An Open Source Library for Mass Spectrometry Data Processing Journal of Proteomics. Nov, 2015 | Pubmed ID: 26141507 Optimization of Human Dendritic Cell Sample Preparation for Mass Spectrometry-based Proteomic Studies Analytical Biochemistry. Sep, 2015 | Pubmed ID: 25983236 Unrestricted Modification Search Reveals Lysine Methylation As Major Modification Induced by Tissue Formalin Fixation and Paraffin Embedding Proteomics. Aug, 2015 | Pubmed ID: 25825003 Processing Strategies and Software Solutions for Data-independent Acquisition in Mass Spectrometry Proteomics. Mar, 2015 | Pubmed ID: 25430050 Fifteen Years SIB Swiss Institute of Bioinformatics: Life Science Databases, Tools and Support Nucleic Acids Research. Jul, 2014 | Pubmed ID: 24792157 NETTAB 2012 on "Integrated Bio-Search" BMC Bioinformatics. Month, 2014 | Pubmed ID: 24564635 Toolboxes for a Standardised and Systematic Study of Glycans BMC Bioinformatics. Month, 2014 | Pubmed ID: 24564482 Integrated Bio-Search: Challenges and Trends for the Integration, Search and Comprehensive Processing of Biological Information BMC Bioinformatics. Month, 2014 | Pubmed ID: 24564249 موارد المعلوماتية الحيوية لدراسة تفاعلات البروتين بوساطة الجليكان Frédérique Lisacek1,2,3 1Proteome Informatics Group, SIB Swiss Institute of Bioinformatics, 2Computer Science Department, University of Geneva, 3Section of Biology, University of Geneva JoVE 63356 Biology
موارد المعلوماتية الحيوية لدراسة تفاعلات البروتين بوساطة الجليكان Frédérique Lisacek1,2,3 1Proteome Informatics Group, SIB Swiss Institute of Bioinformatics, 2Computer Science Department, University of Geneva, 3Section of Biology, University of Geneva JoVE 63356 Biology