Events News Research CBS CBS Publications Bioinformatics
Staff Contact About Internal CBS CBS Other

Protein and Immune Systems Biology Projects


Bachelor Projects
  • 07/06-2013 - Exploring tools for the prediction of polypharmacology
  • 21/01-2013 - Benchmarking of a method for species identification from whole genome sequencing data
  • 14/07-2012 - Antibody related functional studies of Influenza Hemagglutinin protein
  • 01/12-2011 - A novel method for construction and visualization of amino acid binding motifs and sequence profiles including sequence weighting, pseudo counts and two-sided representation of amino acid enrichment and depletion
  • 30/06-2011 - Prediction of the immunogenicity of therapeutic antibodies
  • 30/06-2011 - Validation of predictors of discontinous B-cell epitopes using homology modelled 3-D protein structures
  • 15/06-2011 - Validtion of multi-layer multi-valued neural networks
  • 10/12-2010 - Immunological pressure and molecular evolution of Influenza A virus
  • 20/12-2009 - Molecular Evolution of Influenza A Virus
  • 26/06-2009 - Selection and Validation of CTL Responding Peptides by Bioinformatics Methods
  • 07/05-2009 - Structural Properties of MHC Class II Ligands
  • 23/01-2009 - Molecular Evolution of Influenza A Virus
  • 19/12-2008 - Implementation and validation of a stabilization matrix method for peptide:MHC binding predictions
  • 30/06-2008 - Peptide binding based substitution matrices in epitope prediction
Master Projects
  • 22/03-2014 - Bayesian modelling of MHC peptide binding
  • 23/02-2014 - Improvement of the pan MHC class I prediction method, PickPocket, through SMM optimisation and development of an alternative picking algorithm
  • 01/03-2013 - AnnDecode, a method for artificial neural network decoding
  • 14/01-2013 - Imprints on the T cell epitope repertoire from self-nonself proteomic overlaps
  • 21/12-2012 - Predicting stability of peptide:MHC complexes; impacts for epitope discovery
  • 10/07-2012 - Development of an automated approach to FACS data analysis
  • 31/05-2012 - Analysis of overlap between pathogenic and human peptides in MHC binding and presentation
  • 07/11-2011 - Peptide overlap between humans and human pathogens
  • 19/09-2011 - Identification of position specific receptor-ligant interactions by use of artificial neural network decomposition. An investigation of interactions in the MHC:peptide system
  • 22/08-2011 - Improved protein homology modelling using structure specific gap penalties and multiple templates
  • 15/04-2011 - Evaluation of HIV-1 CCR5/CXCR4 Tropism in Danish HIV Infected Patients
  • 31/03-2011 - Analysis of B-cell epitopes based on structural analysis of 3D antigen-antibody interactions
  • 25/03-2011 - Define Optimal Conditions for Assaying of Low-affinity TCR-MHC Interactions Using MHC Multimers
  • 15/03-2011 - Analysis of Individual and Mixtures of Antibodies
  • 14/02-2011 - In Silico Immunogenicity Evaluation and Commercialisation of a Protein Drug
  • 30/06-2010 - In Silico Prediction of T Cell Receptor Specificity
  • 01/03-2010 - Analysis of Malaria Proteins
  • 31/07-2009 - Swine SLA Clustering Using Sequence and Specificity Similariity
  • 30/06-2009 - In Silico Prediction of Bacterial Pathogenicity
  • 03/03-2009 - Structure-guided Prediction of MHC-II Ligand Binding
  • 20/08-2007 - Computational Mapping of Antibody Binding Sites in HIV
  • 06/08-2007 - Prediction of local structure elements using artificial neural networks
  • 06/07-2007 - Feature based discrimination of antigenes in Malaria
  • 31/07-2006 - Implementation and Evaluation of Protein Potentials: Applications to Immunological Problems
  • 28/07-2006 - Epitope prediction in arenaviruses
  • 01/04-2005 - Development of diagnostic assays for detection of retinal diseases
Special Courses
  • 14/02-2014 - Characterization of a Georgian Bacteriophage Cocktail
  • 22/01-2014 - Analysis of structural changes in B-cell epitopes upon Antibody complex formation
  • 23/12-2013 - Improving the PickPocket method for predicting MHC class II ligands using different PSSM approaches
  • 15/11-2013 - Optimization of construction of phylogenetic trees based on whole genome data
  • 11/10-2013 - Benchmarking of a method for species identification from whole genome sequencing data
  • 15/08-2013 - Specific primer identification for clonal vancomycin resistant Enterococcus differentiation
  • 01/07-2013 - Exploring simultaneous peptide clustering and neural network training for predicting peptide affinities to multiple MHC alleles
  • 28/06-2013 - Benchmarking of a method for species identification from whole genome sequencing data
  • 01/06-2013 - B-cell epitopes in polymorphic regions of human proteins
  • 17/05-2013 - Cellular and humoral immune response in mice; test for single epitope responses selected by bioinformatics
  • 16/05-2013 - Python for bioinformaticians
  • 16/05-2013 - Comparing immunogenicity of biopharmaceuticals to SNPs in MHCII epitopes
  • 25/04-2013 - Building a prediction tool for HIV Protease cleavage sites using artificial neural networks
  • 21/12-2012 - Bioinformatics Programming Using Python
  • 20/12-2012 - Writing a scientific paper based on bachelor project
  • 22/11-2012 - MHCcluster, an interactive web-based method for functional clustering of MHC molecules
  • 01/02-2012 - HLA allele specific dominant effects determined using verified HIV CTL epitopes
  • 15/12-2011 - Evaluation of CTL Epitope predtions at Peptide Length Larger than 10 Amino Acid Residues
  • 02/12-2011 - Analysis of FACS data using probability binning
  • 01/11-2011 - Python programming in Bioinformatics
  • 25/08-2011 - Improvement of predictions of MHC-I-peptide binding affinities using combined data from 9, 10 and 11 mer peptides
  • 24/08-2011 - Effect of primary sequence on the expression of antibodies
  • 01/07-2011 - Analysis of FACS data using R
  • 11/02-2011 - HLA allele specific dominanse of verified HIV CTL epitopes
  • 01/02-2011 - Improved Protein Homology Modeling Using Structure Specific Gap Penalties
  • 31/01-2011 - A method for identification of receptor-ligand interactions by artificial neural network decomposition. Applied to the peptide:MHC system
  • 28/01-2011 - Improvement of predictions of MHC-peptide binding affinities using initial classification predictions
  • 21/01-2011 - Preparation of a scientific manuscript regarding own research and submission to an international peer reviewed journal
  • 21/01-2011 - Introduction to programming in Python
  • 21/01-2011 - Influence of the Cellular Immune Response on Specific Resistance Mutations in HIV
  • 20/01-2011 - Python programming of tool for analysis of protein structures in relation to improvement of B-cell epitope predictions
  • 31/12-2010 - Evaluation of MHC-peptide Binding Predictors at Peptide Length Larger than 11 Amino Acid Residues
  • 14/12-2010 - Sequence Analysis in t-cell Epitopes and Antigens
  • 03/12-2010 - Improvement of MHC-peptide Binding Affinity Predictions Using Neural Networks Trained on Classification Data
  • 24/09-2010 - Competitive Influences of Anti-CD8 Antibodies on MHC Dextramer Binding to Antigen-specific T-cells
  • 01/07-2010 - A Bioinformatic Approach to Predict Immunogenecity in Therapeutic Proteins
  • 25/06-2010 - Improvement of MHC:Peptide Binding Prediction by Use of Classification Networks
  • 20/06-2010 - Identification of MHC Class I Ligands Using MHC Binding and Stability Predictions
  • 18/06-2010 - Effects of Antibody Mixtures
  • 15/05-2010 - Structural Properties of MHC Class II Ligands, Implications for Predictions of MHC Class II Epitopes
  • 04/01-2010 - Genotyping and Determination of Genotypic Resistance of HBV



GETTING HELP

Data problems:        Technical problems: