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• 22:10, 22 September 2026 Carol talk contribs created page File:MHCMotifDecon rank2.png
• 22:10, 22 September 2026 Carol talk contribs uploaded File:MHCMotifDecon rank2.png
• 22:09, 22 September 2026 Carol talk contribs created page File:MHCMotifDecon rank20 extendedHLA.png
• 22:09, 22 September 2026 Carol talk contribs uploaded File:MHCMotifDecon rank20 extendedHLA.png
• 22:09, 22 September 2026 Carol talk contribs created page File:MHCMotifDecon rank20.png
• 22:09, 22 September 2026 Carol talk contribs uploaded File:MHCMotifDecon rank20.png
• 19:57, 22 September 2026 Carol talk contribs created page Exercise:AntigenProcessing ans (Created page with " *'''Q1: How many epitopes do you find with the initial filter?''' *'''Q2: Do you agree with calling these peptides epitopes? Why?''' Now refine your search by including only '''mass-spectrometry assays''' on '''HLA-DR restriction alleles'''. From the '''References''' tab, select the publication from the ''Journal of Proteome Research'' from 2017 by Wang et al. *'''Q3: How many eluted ligands did they find in this study?''' Under the '''Assays''' tab, select '''MHC...")
• 17:29, 22 September 2026 Carol talk contribs created page Exercise:AntigenProcessing (Created page with "== MHC Motif Deconvolution == Immunopeptidomics is currently used in several biomedical applications, including neo-epitope discovery in oncology, protein-drug immunogenicity assessment, as well as next-generation vaccine development. Immunopeptidome data are highly complex given the expression of multiple HLA alleles on the cell membrane and the presence of co-immunoprecipitated contaminants, which is an inherent drawback of the immunopeptidomic workflow. To resolve t...")
• 11:47, 6 August 2026 Carol talk contribs created page 22145 Immunological Bioinformatics Course Programme Fall 2026 (Created page with "== General information == === Where and when === Wednesday from 9 to 12 in '''building 208, holdlokale 3/065''', starting on '''Wednesday, Sep 3 at 9:00'''. Classess will start at 9am unless specified. The first hour of the course will be dedicated to course-preparation. Including some videos or paper reading material === Teachers === * [https://www.dtu.dk/Person/cwis?id=142840&entity=profile Carolina Barra Quaglia] — Associate professor, course responsible. *...")
• 19:30, 4 November 2025 Carol talk contribs created page Bcell Epitope prediction answers (Created page with "'''B-cell epitope prediction — Why do some flu vaccines miss? Influenza A hemagglutinin (HA) has two very different antibody targets: the variable head and the conserved stem. Head-binding antibodies often lose potency as the virus drifts; stem-binding broadly neutralizing antibodies (bnAbs) can resist drift. Can standard sequence-based and structure-based B-cell epitope predictors tell these stories apart? '''Part A, Get your bearings in PyMOL (find the ground truth...")
• 13:25, 24 October 2025 Carol talk contribs created page Bcell Epitope prediction (Created page with "We want to look for epitopes on the HIV GP120 protein. We will use both sequence-based and structure-based methods. Input data. Go to the pdb homepage and look for the pdb entry 4LSP. It is GP120 complexed with a broadly neutralizing antibody. These antibodies are extremely powerful, since they are effective against many different strains. Q1: Download both the structure (pdb) and the sequence (fasta) of the proteins in this entry. Which proteins are in chain G, L and...")
• 13:12, 24 October 2025 Carol talk contribs created page Epitope prediction (Created page with "'''B-cell epitope prediction exercise''' VEGF (vascular endothelial growth factor) is a target in cancer therapies, being the protein responsible for vascularization of tumoral tissue. The murine anti-VEGF antibody has been proved to be effective in blocking VEGF, but it is immunogenic. The Bevacizumab is the commercial, humanized version of the antibody. Let’s reproduce its humanization. Anti-VEGF Humanization The sequence of the murine antibody is: >Light chai...")
• 17:12, 20 October 2025 Carol talk contribs created page Antibody Modelling (Created page with "'''Humanization of the anti-VEGF antibody''' VEGF (vascular endothelial growth factor) is a target in cancer therapies, being the protein responsible for vascularization of tumoral tissue. The murine anti-VEGF antibody has been proved to be effective in blocking VEGF, but it is immunogenic. The Bevacizumab is the commercial, humanized version of the antibody. Let’s reproduce its humanization. Anti-VEGF Humanization The sequence of the murine antibody is: >Light c...")
• 13:10, 7 August 2025 Carol talk contribs created page 22145 Immunological Bioinformatics Course Programme Fall 2025 (Created page with "== General information == === Where and when === Wednesday from 8 to 12 in '''building 208, holdlokale 3/065''', starting on '''Wednesday, Sep 4 at 8:00'''. === Teachers === * [https://www.dtu.dk/Person/cwis?id=142840&entity=profile Carolina Barra Quaglia] — Associate professor, course responsible. * [https://www.dtu.dk/person/morten-nielsen?id=5973&entity=profile Morten Nielsen] — Professor, course responsible. === Teaching assistant === * [https://w...")
• 20:02, 25 August 2024 Carol talk contribs created page 22145 Immunological Bioinformatics Course Programme Fall 2024 (Created page with "== General information == === Where and when === Lectures and exercises will take place every Wednesday morning from 8 to 12 in '''Holdlokale 3/065, building 208''', starting on '''Wednesday, Sep 4 at 8:00'''. === Teachers === * [https://www.dtu.dk/Person/cwis?id=142840&entity=profile Carolina Barra Quaglia] — Associate professor, course responsible. * [https://www.dtu.dk/person/morten-nielsen?id=5973&entity=profile Morten Nielsen] — Professor, course...")