MSc theses

Yueying Fu
A time course analysis of transcriptome and proteome data from mouse and human
Date: 22-10-2020  |  Supervisor: Ole Winther, Mathias Husted Torp   |  Department: Biologisk Institut

Andreas Ørslev Rasmussen
Prioritisation of known and novel disease-causing variants in patients suspected of inherited bleeding disorders - a tool for data mining and automated PDF report generation
Date: 22-10-2020  |  Supervisor: Ole Winther, Caroline Maria Rossing  |  Department: Biologisk Institut

Liuqing Zheng
A time course analysis of transcriptome and proteome data from mouse and human
Date: 22-10-2020  |  Supervisor: Ole Winther  |  Department: Biologisk Institut

Aidas Marijus Vysniauskas
Genomic analysis of prophages in Vibrio species
Date: 21-10-2020  |  Supervisor: Mathias Middelboe  |  Department: Biologisk Institut

Zhuoyuan Liu
Deep learning for diagnosis of ulcerative colitis
Date: 20-10-2020  |  Supervisor: Christian Igel  |  Department: Datalogisk Institut

Ida Callesen
Dissecting the genetics of Menstrual Migraine
Date: 20-10-2020  |  Supervisor: Anders Albrechtsen  |  Department: Biologisk Institut

Rikke Louise Jacobsen
Dissecting the genetics of Menstrual Migraine
Date: 20-10-2020  |  Supervisor: Anders Albrechtsen  |  Department: Biologisk Institut

Guangzheng Weng
Implementation of a new trajectory inference tool: VeTra
Date: 09-10-2020  |  Supervisor: Anders Krogh, Kyoung Jae Won  |  Department: Biologisk Institut

Christian Sigvald Breinholt
Protein structure prediction using deep probabilistic programming and directional statistics
Date: 09-10-2020  |  Supervisor: Thomas Wim Hamelryck  |  Department: Biologisk Institut

Teodora-Francesca Ràdut
Protein structure prediction usingdeep probabilistic programming: model choice and hyperparameters
Date: 09-10-2020  |  Supervisor: Thomas Hamelryck  |  Department: Biologisk Institut

Silvija Pupsaite
Bayesian Deep Learning with Hamiltonian Monte Carlo
Date: 06-10-2020  |  Supervisor: Wouter Krogh Boomsma, Ole Winther  |  Department: Datalogisk Institut

Sizhuo Li
Deep Learning For the Analysis of Arthritic Knee X-rays
Date: 16-09-2020  |  Supervisor: Bulat Ibragimov, Eric Navarro  |  Department: Datalogisk Institut

Mario García Ureña
In silico identification of molecular pathways and key genes behind abdominal fat accumulation given lean body constitution
Date: 10-09-2020  |  Supervisor: Anders Albrechtsen, German Carrasquilla  |  Department: Biologisk Institut

Michael Roger West
Genome wide association of host genetic control of HIV in a meta-analysis of the five INSIGHT HIV+ cohorts.
Date: 10-09-2020  |  Supervisor: Anders Albrechtsen   |  Department: Biologisk Institut

Malthe Sebro Rasmussen
Accurate estimation of allele frequency covariance from NGS data for improved admixture inference
Date: 03-09-2020  |  Supervisor: Anders Albrechtsen, Carsten Wiuf  |  Department: Biologisk Institut

Taoyu Mei
Multi-omics Data Analysis of Alzheimer's Disease with a Focus on Mitochondria, Mitophagy, and Oxidative Stress Response
Date: 24-08-2020  |  Supervisor: Robin Andersson, Lene Juel Rasmussen  |  Department: Biologisk Institut

Pau Piera Líndez
Metagenomics binning using deep learning techniques
Date: 13-08-2020  |  Supervisor: Anders Krogh, Simon Rasmussen  |  Department: Biologisk Institut

Maliha Mashkoor
Semi- and fully automatic analysis of Perineuronal Networks
Date: 10-08-2020  |  Supervisor: Jon Sporring  |  Department: Datalogisk Institut

Liubov Pashkova
Integration of single cell transcriptomic atlases with genome-wide association studies to discover likely etiological cell types underlying intelligence and obesity
Date: 27-07-2020  |  Supervisor: Anders Albrechtsen, Tune Pers, Pascal Nordgren Timshel  |  Department: Biologisk Institut

Tetyana Bayzetinova
A multi-omics investigation of the etiology of Tourette syndrome integrating DNA methylation and mRNA-sequencing data from pairs of affected and unaffected monozygotic twins.
Date: 10-07-2020  |  Supervisor: Albin Sandelin, Frederik Otzsen Bagger, Zeynep Tümer  |  Department: Biologisk Institut

Nuttapong Mekvipad
BERT-based context-aware classifier for biomedical relation extraction
Date: 19-06-2020  |  Supervisor: Anders Krogh, Lars Juhl Jensen, Katerina Nastou  |  Department: Biologisk Institut

Frederik Filip Stæger
The PROMISing cohort
Date: 12-06-2020  |  Supervisor: Anders Albrechtsen  |  Department: Biologisk Institut

Oliver Knights Møller
Benchmarking of data integration methods on single-cell RNA sequencing data from temporally and regionally distinct human neural stem cells
Date: 30-04-2020  |  Supervisor: Albin Sandelin, Agnete Kirkeby  |  Department: Biologisk Institut

Floris Julian van der Flier
Dilated Convolutional Neural Networks for Small Protein and Individual Domain Tertiary Structure Prediction
Date: 19-12-2019  |  Supervisor: Wouter Boomsma  |  Department: Datalogisk Institut

Kristine Nielsen
Evaluating measures of intra
Date: 16-12-2019  |  Supervisor: Melanie Ganz-Benjaminsen, Martin Nørgaard  |  Department: Datalogisk Institut

Danai Vagiaki
Integration of electronic health records to predict the development of diabetes using deep learning.
Date: 30-10-2019  |  Supervisor: Søren Brunak, Anders Krogh  |  Department: Biologisk Institut

Andreas Manoukian
3D Structure Prediction through Probablistic Programming
Date: 10-10-2019  |  Supervisor: Thomas Hamelryck  |  Department: Biologisk Institut

No Name
TMHMM3: Application of Deep Learning for Transmembrane Topology Prediction and Classification of Transmembrane Proteins
Date: 07-10-2019  |  Supervisor: Ole Winther  |  Department: Biologisk Institut

Lishan Cai
Deep Learning Segmentation for Knee MRI with Shape Prior
Date: 27-09-2019  |  Supervisor: Erik Bjørnager Dam  |  Department: Datalogisk Institut

Sergio Andreu Sánchez
Mitochondrial influence in avian adaptation and evolution
Date: 26-09-2019  |  Supervisor: Guojie Zhang  |  Department: Biologisk Institut

Povilas Matusevicius
Investigating the evolution of olfactory receptor genes in the ruminants using comparative genomics
Date: 26-09-2019  |  Supervisor: Goujie Zhang, Rasmus Heller  |  Department: Biologisk Institut

Guido Barzaghi
Unveiling Human Neural Developmental Dynamics Through RNA Velocity Of Single Cells
Date: 26-09-2019  |  Supervisor: Albin Sandelin, Agnete Kirkeby  |  Department: Biologisk Institut

Guido Barzaghi
Unveiling Human Neural Developmental Dynamics Through RNA Velocity Of Single Cells
Date: 26-09-2019  |  Supervisor: Albin Sandelin, Agnete Kirkeby  |  Department: Biologisk Institut

Luiza Dominika Czerwinska
Segmentation of microscopic brain images from a mouse model of amyotrophic lateral sclerosis using a convolutional neural network
Date: 23-09-2019  |  Supervisor: Stine Hasselholt, Jon Sporring  |  Department: Datalogisk Institut

Chenhao Wang
The Computerized Analysis of Tongue Papillae
Date: 23-09-2019  |  Supervisor: Jon Sporring  |  Department: Datalogisk Institut

Jing Lin
Statistical analysis of pyramidal cells in brain tissue
Date: 23-09-2019  |  Supervisor: Jon Sporring  |  Department: Datalogisk Institut

Steven Dennis Pilger
Rationalizing and predicting GPCR - G protein selectivity: a new structure interface - sequence alignment online research tool
Date: 20-09-2019  |  Supervisor: Wouter Boomsma  |  Department: Datalogisk Institut

Soham Ravindra Shinde
Functional Characterisation of RNA binding proteins by analysing Systematic Alternative Splicing Patterns
Date: 20-09-2019  |  Supervisor: Albin Sandelin, Kristoffer Vitting-Seerup  |  Department: Biologisk Institut

Emily Barot
Optimisation of Voxelwise and Surface-Based Preprocessing Pipelines for PET Data
Date: 19-09-2019  |  Supervisor: Melanie Ganz, Gitte N Knudsen, Martin Nørgaard  |  Department: Datalogisk Institut

Lars E Bustamante Christoffersen
Identifying Divergent Celltypes Between Conditions using Single-Cell RNA-Seq Data
Date: 18-09-2019  |  Supervisor: Albin Sandelin, Konstantin Khodosevich  |  Department: Biologisk Institut

Rasmus Henrik Amund Henriksen
Mapping of oxford nanopore long sequenced reads to identify extrachromosomal circular DNA
Date: 17-09-2019  |  Supervisor: Anders Krogh, Birgitte Regenberg  |  Department: Biologisk Institut

Genis Garcia Erill
Evaluation of admixture model assumptions, inference of recent admixture and application to the study of the Grants gazelle
Date: 16-09-2019  |  Supervisor: Anders Albrechtsen  |  Department: Biologisk Institut

Oluwatobi Babatunde B Alegbe
CELLECT-LDSC: Integration of single cell transcriptomic atlases with genome-wide association studies using LD score regression
Date: 16-09-2019  |  Supervisor: Pascal Nordgren Timshel, Anders Albrechtsen, Tune Pers  |  Department: Biologisk Institut

Vykintas Jauniskis
Assessment of generative algorithms for engineering of new molecules to treat skin diseases
Date: 13-09-2019  |  Supervisor: Ole Winther, Daniel Greve  |  Department: Biologisk Institut

Basile Nicolas Rommes
Mean Field Networks for Retinal Blood Vessel Segmentation
Date: 10-09-2019  |  Supervisor: Jens Petersen, Raghavendra Selvan  |  Department: Datalogisk Institut

Ruta Masiulyte
Retinal blood vessel segmentation using GNNs
Date: 10-09-2019  |  Supervisor: Selvan Raghavendra, Jens Petersen  |  Department: Datalogisk Institut

Adamantia Tsouchnika
Using Auxiliary Information to Regularize Deep Neural Networks: A Case-study on Multi-modal Brain Tumor Segmentation
Date: 03-09-2019  |  Supervisor: Stefan Sommer. Akshay Pai  |  Department: Datalogisk Institut

Dimitrios Chouliaras
Date: 30-08-2019  |  Supervisor: Thomas Wim Hamelryck  |  Department: Biologisk Institut

Alba Refoyo Martínez
Polygenic and single-locus selection under complex population histories
Date: 21-08-2019  |  Supervisor: Fernando Racimo  |  Department: Statens Naturhistoriske Museum

Zuqi Li
DeepCNV: a deep learning-based method for calling copy number variations by image recognition
Date: 08-08-2019  |  Supervisor: Alfonso Buil Demur, Anders Albrechtsen  |  Department: Biologisk Institut

Shadi Mansouryar
Thesis Report: Deconvolving Cancer and Normal Breast Tissue with Deep Learning
Date: 21-06-2019  |  Supervisor: Ole Winther, Christopher Heje Grønbech  |  Department: Biologisk Institut

Julia Agnieszka Gnatek
Thesis Report: Deconvolving Cancer and Normal Breast Tissue with Deep Learning
Date: 21-06-2019  |  Supervisor: Ole Winther, Christopher Heje Grønbech  |  Department: Biologisk Institut

Grzegorz Jerzy Maciag
Comparison between caco-2 and organoids as models for human colon inflammation
Date: 14-06-2019  |  Supervisor: Albin Sandelin  |  Department: Biologisk Institut

Enrique Goñi Echeverria
Study cell line specificity with Deep Learning models on CAGE datasets
Date: 09-11-2018  |  Supervisor: Robin Anderson, Nicolas Alcaraz  |  Department: Biologisk Institut

Natthawut Adulyanukosol
Date: 09-11-2018  |  Supervisor: Thomas Hamelryck, Isabella Friis Jorgensen, Mette Kristina Beck, Soren Brunak  |  Department: Biologisk Institut

Sonia Maria Piedrahita Abella
Simulation Studies to Assess the Effect of Demography in Trondheim during the Second Plague Pandemic
Date: 02-11-2018  |  Supervisor: Ida Moltke, Shyam Gopalakrishnan  |  Department: Statens Naturhistoriske Museum

Adrian Otamendi Laspiur
Cancer independent HRD gene expressional signature identification for the selection of phase 1 potential patients for treatment with Olaparib.
Date: 25-10-2018  |  Supervisor: Olga Åstrup, Robin Andersson  |  Department: Biologisk Institut

Gowthami Rajukkannu
Evolutionary Pattern of Alternative Splicing Associated with Ant Caste Differentiation
Date: 23-10-2018  |  Supervisor: Guojie Zhan  |  Department: Biologisk Institut

Sofia Laghouila
Risk assessment of chronic disease in the future based on lifestyle
Date: 10-10-2018  |  Supervisor: Katarzyna Wac  |  Department: Datalogisk Institut

Casia Nursyifa
Local Ancestry Inferences and Admixture-Based Association Analysis in Inuit Population
Date: 10-10-2018  |  Supervisor: Anders Albrechtsen  |  Department: Biologisk Institut

Carlotta Porcelli
Mass spectrometry data analysis and visualisation of the IL-17A osteoarthritis study
Date: 01-10-2018  |  Supervisor: Albin Gustav Sandelin, Anne-Christine Bay-Jensen  |  Department: Biologisk Institut

Juan Manuel Medina Mendez
A Study of Plasmid-Bacterial Associations in Microbial Communities
Date: 06-09-2018  |  Supervisor: Soren Sorensen  |  Department: Biologisk Institut

Elmir Mahammadov
Modelling Gene Regulatory Network of the Mammalian Circadian Clock
Date: 05-09-2018  |  Supervisor: Hanspeter Herzel, Albin Sandelin  |  Department: Biologisk Institut

Ke Zhai
Deep Learning of Segmentation on Knee Tibial Cartilage MRIs
Date: 03-09-2018  |  Supervisor: Erik Dam  |  Department: Datalogisk Institut

William Paul Bullock
U-Net Fully-Convolutional Neural Network for Volumetric Semantic Segmentation of Magnetic Resonance Images for Osteoarthritis Staging
Date: 03-09-2018  |  Supervisor: Oswin Krause, Erik Dam  |  Department: Datalogisk Institut

Anja Moltke Jørgensen
Evolution of Complex Traits in the Ancient Eurasian Steppe
Date: 24-08-2018  |  Supervisor: Anders Albrechtsen, Fernando Racimo  |  Department: Statens Naturhistoriske Museum

Jesus Vicente Torresano Lominchar
Local IBD Inference of an Admixed Greenlandic Population, and a new Association Test of IBD Mapping
Date: 24-08-2018  |  Supervisor: Anders Albrechtsen  |  Department: Biologisk Institut

Miguel Díez Fernandez De Bobadilla
OLST, a New Approach for Intra-Species Diversity Characterization in Metagenomics
Date: 24-08-2018  |  Supervisor: Val F. Lanza, Teresa M. Coque, Anders Krogh  |  Department: Biologisk Institut

Ioannis Chrysostomakis
Inferring Migration Patterns over Historical Periods using Ancient DNA
Date: 24-08-2018  |  Supervisor: Fernando Racimo  |  Department: Statens Naturhistoriske Museum

Adham Khaled Muhammed Mandour
The Human Virome in the 1000 Genomes Project
Date: 24-08-2018  |  Supervisor: Anders Albrechtsen  |  Department: Biologisk Institut

Mathias Perslev
Generalizable Deep Learning for Medical Image Segmentation
Date: 22-08-2018  |  Supervisor: Stefan Horst Sommer, Akshay Sadananda Uppinakudru Pai  |  Department: Datalogisk Institut

Tycho Yorrick Canter Cremers
Benchmarking Predictions of Free Energy Changes upon Mutation
Date: 20-08-2018  |  Supervisor: Thomas Hamelryck, Matteo Tiberti, Matteo Tiberti  |  Department: Biologisk Institut

Migle Gabrielaite
Loss and Acquisition of Genes in P. aeruginosa Populations Evolving in the Lungs of Cystic Fibrosis Patients
Date: 20-08-2018  |  Supervisor: Rasmus Lykke Marvig, Anders Krogh  |  Department: Biologisk Institut

Maria Touceda Suarez
Network Construction and Analysis from Microbial Community Meta-Omics Data.
Date: 20-08-2018  |  Supervisor: Barth F. Smets, Anders Krogh  |  Department: Biologisk Institut

Mette Qvistgaard Ludwig
Single-Cell Transcriptomics Based Discovery of Energy Homeostasis Regulating Pathways in the Hypothalamus
Date: 17-08-2018  |  Supervisor: Tune Pers, Anders Krogh  |  Department: Biologisk Institut

Alicia Margaritha Berkvens
Determinants of Constitutive Activity in Class A GPCRS
Date: 15-08-2018  |  Supervisor: Thomas Hamelryck, David Gloriam, Alexander Hauser, Gert Dandanell  |  Department: Biologisk Institut

Derya Aytan-Aktug
Analyzing 16S rRNA and Whole-Metagenomic Data for Diet Response Prediction
Date: 14-08-2018  |  Supervisor: Anders Krogh, Ramneek Gupta  |  Department: Biologisk Institut

Antonio Ortega Jimenez
Development of Label-free Quantification Methods in Proteomics
Date: 08-08-2018  |  Supervisor: Thomas Hamelryck  |  Department: Biologisk Institut

Derya Esdorf Bach Aslan
Integrative High Throughput Sequencing in Leukemia Mouse Models
Date: 31-05-2018  |  Supervisor: Robin Andersson, Bo Torben Porse  |  Department: Biologisk Institut

Siobhan Anne Mc Loughlin
Investigating Structure of DNA Using Neural Networks
Date: 31-05-2018  |  Supervisor: Anders Krogh  |  Department: Biologisk Institut

Theis Hjalte Thorn Jakobsen
Convolutional Neural Network for Predicting Protein Stability by using Local Spherical Representations of Amino Acid Environments
Date: 26-03-2018  |  Supervisor: Wouter Boomsma  |  Department: Datalogisk Institut

Hyeongki Kim
Dihedral Angle Prediction using Generative Adversarial Networks
Date: 23-03-2018  |  Supervisor: Thomas Hamelryck, Wouter Krogh Boomsma  |  Department: Biologisk Institut

Leo Alexander Dworkin
Toward a Classification of Mucin Tandem Repeat Region Sequences
Date: 21-03-2018  |  Supervisor: Thomas Hamelryck  |  Department: Biologisk Institut

Lys Sanz Moreta
Analysis of Avian Exome Capture Data
Date: 20-02-2018  |  Supervisor: Rute Fonseca, David Nogues  |  Department: Biologisk Institut

Simon Rødtness Poulsen
Improving Short Read Alignments using Super Reads
Date: 05-12-2017  |  Supervisor: Anders Krogh  |  Department: Biologisk Institut

Michael Ben Ezra
Modelling of Cell Type Proportions in Aging Frontal Lobe
Date: 16-11-2017  |  Supervisor: Robin Andersson  |  Department: Biologisk Institut

Alfred Ferrer Florensa
Predicting the Energy Content of Proteins using Deep Learning
Date: 16-11-2017  |  Supervisor: Thomas Hamelryck  |  Department: Biologisk Institut

Mohamed Mounir
A Guide To An Integrative Analysis Of the Cancder Genome Atlas Using New Features In TCGAbiolinks R/Biodconductor Package
Date: 15-11-2017  |  Supervisor: Thomas Hamelryck, Elena Papaleo  |  Department: Biologisk Institut

Philip Alstrup Andersen
Inferring Relatedness from Low-Depth NGS Data in the Presence of Inbreeding
Date: 13-11-2017  |  Supervisor: Thorfinn Sand Korneliussen  |  Department: Statens Naturhistoriske Museum

Rudolfs Berzins
Predicting Protein-Protein Interaction Types from Text-Mined Associations
Date: 29-08-2017  |  Supervisor: Anders Krogh  |  Department: Biologisk Institut

Dongjie Zhang
Influence of Intensity Normalization on CNN-based Segmentation of T1 Brain MRIs
Date: 28-08-2017  |  Supervisor: Stefan Horst Sommer  |  Department: Datalogisk Institut

Marcos Yebenes Mayordomo
Development, Evaluation and Comparison of RNA Sequencing Pipelines Using Pseudo-Alignment against Traditional Alignment Methods
Date: 23-08-2017  |  Supervisor: Robin Andersson, Andre Olsen, Elena Papaleo  |  Department: Biologisk Institut

Jamshed Pratap Singh Gill
Detecting Differentially Expressed Genes and Pathways between Rats from Two Different Suppliers
Date: 23-08-2017  |  Supervisor: Robin Andersson  |  Department: Biologisk Institut

Marina Vabistsevits
Identification of Autopagy Signatures in Breast Cancer Using the Cancer Genome Atlas Data
Date: 22-08-2017  |  Supervisor: Albin Sandelin, Elena Papaleo  |  Department: Biologisk Institut

Jonas Meisner
Framework for Analyzing Low Depth Next-Generation Sequencing Data in Heterogeneous Populations Using PCA
Date: 21-08-2017  |  Supervisor: Anders Albrechtsen  |  Department: Biologisk Institut

Inigo Prada Luengo
Circle-Map Suite: Fast and Accurate Identification of Extrachromosomal Circular DNA Mediated Copy Number Variation
Date: 18-08-2017  |  Supervisor: Lasse Maretty, Birgitte Regenberg  |  Department: Biologisk Institut

Timo Röder
Analysis Methods for Sequence Libraries Targeting Transposable Elements
Date: 15-08-2017  |  Supervisor: Anders Hansen  |  Department: Statens Naturhistoriske Museum

Mads Obi Bergsten
Community Composition of Ammonia-Oxidizers at Two Different Pelagic Sites In the Baltic Sea
Date: 08-05-2017  |  Supervisor: Lasse Riemann  |  Department: Biologisk Institut

Milos Kovacevic
Quantifying Compressibility of Gene Expression Data Using Neural Networks
Date: 31-03-2017  |  Supervisor: Karsten Kristiansen  |  Department: Biologisk Institut

Signe Tang Karlsen
Inferring phenotypes from Bacterial Genomes
Date: 30-03-2017  |  Supervisor: Anders Krogh, Mette Sørensen  |  Department: Biologisk Institut

Lucía Robles Tascón
Population Genomics of Historical Bee Samples
Date: 21-03-2017  |  Supervisor: Rute Fonseca  |  Department: Biologisk Institut

Anna Tsolakou
Analysis and Visualization of Expreimental Parameters of G-protein Coupled Receptors Crystallization
Date: 13-03-2017  |  Supervisor: Thomas Hamelryck  |  Department: Biologisk Institut

Lisa Cantwell
Investigation of the Database of Cysteine S-nitrosylation (dbSNO) and Structure-related Mechanisms of SNO-mediated Signaling
Date: 13-12-2016  |  Supervisor: Wouter Boomsma  |  Department: Biologisk Institut

Sofia Popov
Chracterizatin of Gu Microbiota Composition Following Intake of Dietary Fibers from Different Sources Using Next-generation Sequencing and Metagenome Analyses
Date: 10-10-2016  |  Supervisor: Anders Krogh  |  Department: Biologisk Institut

Abigail Daisy Ramsøe
Hybrid Classification in the Common Chimpanzee
Date: 16-09-2016  |  Supervisor: Anders Albrechtsen  |  Department: Biologisk Institut

Anders Kær Bennetsen
Prediction of the Energy Content of Protein Structures Using Deep Learning
Date: 15-09-2016  |  Supervisor: Thomas Hamelryck  |  Department: Biologisk Institut

Ernesto Luis Aparicio Puerta
Relating Single Neuron Transcriptomic Data and Cellular Phenotypic Traits: Tools and Techniques
Date: 09-09-2016  |  Supervisor: Anders Krogh  |  Department: Biologisk Institut

Line Mærsk Staunstrup
A Comprehensive Analysis of Isoform Usage in Human Tissues
Date: 02-09-2016  |  Supervisor: Albin Sandelin  |  Department: Biologisk Institut

Jens Erik Rovelt Andreasen
Creating Extended Data Sets of Protein Structures using Loop Building and Homology Modelling
Date: 31-08-2016  |  Supervisor: Thomas Hamelryck  |  Department: Biologisk Institut

Jose Juan Almagro Armenteros
Prediction of Protein Subcellular Localization using Deep Learning
Date: 30-08-2016  |  Supervisor: Anders Krogh  |  Department: Biologisk Institut

Andrej Gnip
Application of the Reference Ratio Method on Image Classification
Date: 30-08-2016  |  Supervisor: Thomas Hamelryck  |  Department: Biologisk Institut

Juan Salamanca Viloria
Conformational Changes Induced upon Redox Post-Translational Modifications of an Oncogenic Mitochondrial Chaperone Investigated by Molecular Dynamics and Network Analyses
Date: 30-08-2016  |  Supervisor: Wouter Boomsma  |  Department: Biologisk Institut

Sangzi Sandra Chen
Biology in Schizophrenia Genomics: lmproving Prediction with Biological Information in Machine Learning Algorithms
Date: 30-08-2016  |  Supervisor: Ida Moltke  |  Department: Biologisk Institut

Ricard Argelaguet
Group Factor Analysis to Disentangle Common and Specific Sources of Variation between Different Molecular Layers
Date: 23-08-2016  |  Supervisor: Anders Krogh  |  Department: Biologisk Institut

Xabier Calle Sanchez
TumorTracer 2.0: A Method to Identify the Tissue of Origin from the Somatic Mutations of a Tumor Specimen
Date: 18-08-2016  |  Supervisor: Anders Albrechtsen  |  Department: Biologisk Institut

Joseph Patrick Michele Blair
A Comparison of 2D and 3D Convolutional Neural Networks for Knee Cartilage Segmentation in MRI
Date: 16-08-2016  |  Supervisor: Christian Igel  |  Department: Datalogisk Institut

Christoffer Egeberg Hother
RNA-seq in Personalized Oncogenomics
Date: 27-06-2016  |  Supervisor: Anders Krogh  |  Department: Biologisk Institut

Christian Ravn
Statistical Models for Protein Evolution
Date: 02-05-2016  |  Supervisor: Thomas Hamelryck  |  Department: Biologisk Institut

Stylianos Bakoulis
Identification and joint Analysis of Tissue MicroRNA and mRNA Experssion Profiles from Microarry Data in Ulcerative Colitis
Date: 29-04-2016  |  Supervisor: Albin Gustav Sandelin  |  Department: Biologisk Institut

Christian Munk
Mutant Desig Tools - Developing Mutant Design Tools to Facilitate Mutagenesis Experiments for GPCRs
Date: 17-03-2016  |  Supervisor: Anders Krogh  |  Department: Biologisk Institut

Anne Saaby Schmidt-Høier
Investigation of Imprinting and Differential Allelic Expression in Schizophrenic Patients and Controls
Date: 15-03-2016  |  Supervisor: Anders Krogh  |  Department: Biologisk Institut

Jarno Johannes Koskinen
Feature Extraction of Energy Entities Used in Protein Structure Folding Prediction
Date: 23-02-2016  |  Supervisor: Thomas Hamelryck  |  Department: Biologisk Institut

Christian Grønbæk
Efficient Applications of Gauss Integral Invariants for Protein Folding Predictions
Date: 10-02-2016  |  Supervisor: Thomas Hamelryck  |  Department: Biologisk Institut

André Vidas Olsen
Detection of Copy Number Variation in the LuCamp Data Set and Subsequent Association Study
Date: 14-12-2015  |  Supervisor: Anders Albrechtsen  |  Department: Biologisk Institut

Evangelos Tsitlakidis
Exploring Optimal Pipelines for Analyzing the Chemical and Biological Space of SmalI Molecule Compunds in LINCS L 1000 Data
Date: 20-11-2015  |  Supervisor: Albin Sandelin  |  Department: Biologisk Institut

Kristian Ebbesen Hanghøj
Fast Aaurlg and Automatic Ancient Nucliosoml and Methylation Maps with Epipaliomix
Date: 09-09-2015  |  Supervisor: Ludovic Orlando  |  Department: Statens Naturhistoriske Museum

Gáspár Pándy-Szekeres
Automated Chimeric Homology Model Building Pipeline for GPCRS
Date: 09-09-2015  |  Supervisor: Thomas Wim Hamelryck  |  Department: Biologisk Institut

Emil Jørsboe
Imputation and genome-wide association studies in the admixed Greenlandic population
Date: 24-08-2015  |  Supervisor: Anders Albrechtsen  |  Department: Biologisk Institut

Sandra Capdevila Walsh
Whole genome sequence analysis of five Ethiopian populations and identification of candidate genes under positive selection
Date: 18-08-2015  |  Supervisor: Anders Albrechtsen  |  Department: Biologisk Institut

Rasmus Koefoed Jakobsen
Prediction of Energy Content of Proteins
Date: 13-08-2015  |  Supervisor: Ken Friis Larsen  |  Department: Biologisk Institut

Thilde Bagger Terkelsen
High Throughput Analysis of Enhancer Usage in Inflammatory Bowel Disease
Date: 22-06-2015  |  Supervisor: Albin Sandelin  |  Department: Biologisk Institut

Hancheng Zheng
The Genetic Landscape of Hepatocellular Carcinomas in Chinese Population
Date: 16-06-2015  |  Supervisor: Anders Krogh  |  Department: Biologisk Institut

Kristina Aluzaité
Ecaliationg Exome Sequencing of Circulationg Tumour DNA as a Tool for Mutation Detection in Relapsed Diffuse Large B-cell Lymphoma
Date: 16-06-2015  |  Supervisor: Anders Krogh  |  Department: Biologisk Institut

Nikolaos Sidiropoulos
Identifying Strong Survival Predictions in Acute Myeloid Leukemia Using Gene Signatures
Date: 05-05-2015  |  Supervisor: Anders Krogh  |  Department: Biologisk Institut

Siyang Liu
Population-scale de Novo Assembly, Mapping of Structural Variations and Novel Sequences from Deeply Sequenced Danish Trios
Date: 21-04-2015  |  Supervisor: Anders Krogh  |  Department: Biologisk Institut

Hassan Omer Hamied Sirelkhatim
Modelling Ancestry Specific Effects (mase)
Date: 02-03-2015  |  Supervisor: Anders Albrechsen  |  Department: Biologisk Institut

Malte Thodberg
Analysis of Differential Gene Expression in Inflammatory Bowel Disease Using Cage Data
Date: 12-02-2015  |  Supervisor: Albin Sandelin  |  Department: Biologisk Institut

Yatin Vijay Joshi
Unfolding Genetic Diaspora of New Samples from West African Populations
Date: 28-01-2015  |  Supervisor: Tom Gilbert  |  Department: Statens Naturhistoriske Museum

Cecilia Elisabet Lövkvist
Methylation of CpG Sites
Date: 07-01-2015  |  Supervisor: Jan Olaf Mirko Härter  |  Department: Biologisk Institut

Oana Palasca
BW-HMM - Probabilistic Sequence Alignment
Date: 16-12-2014  |  Supervisor: Anders Krogh  |  Department: Biologisk Institut

Simon Bolding Halifax
Prediction of Primary Tumour Site from Molecular Signatures
Date: 11-09-2014  |  Supervisor: Niels Richard Hansen  |  Department: Institut for Matematiske Fag

Anna Hakobyan
Investigation of Splicing Mechanisms of Large Intron Excision Employed in Humans
Date: 05-09-2014  |  Supervisor: Anders Krogh  |  Department: Biologisk Institut

Carina Grøntved Jønck
Genome Analysis of Six New Danish Potato Blight Isolates
Date: 27-08-2014  |  Supervisor: Anders Krogh  |  Department: Biologisk Institut

Vipin Kumar
Effect of Exosome Components & Cofactor Expression on Exotic RNA Production across the Human Body
Date: 11-08-2014  |  Supervisor: Albin Sandelin  |  Department: Biologisk Institut

José Victor Moreno Mayar
Genome-wide Ancestry Patterns in Easter Islanders Reveal Pre-European Admixture with Native Americans
Date: 19-05-2014  |  Supervisor: Anders Krogh  |  Department: Biologisk Institut

Jon Lund Steffensen
Studying Escherichia Coli in the Mouse Intestinal Environment using 16S rRNA Surveys
Date: 04-04-2014  |  Supervisor: Anders Krogh  |  Department: Biologisk Institut

Nicholas Anders Clark
An Application of Machine Learning for Determination of Spatial Structure within and across Cell-specific Enhancers in Human
Date: 14-03-2014  |  Supervisor: Albin Sandelin  |  Department: Biologisk Institut

Evdoxia Karadoulama
Structural-based Analysis of the Binding Preferences of RNA-Binding Proteins in the Context of miRNA Target Site Centered, Argonaute 2 Knock-down Expression Data
Date: 28-02-2014  |  Supervisor: Anders Krogh  |  Department: Biologisk Institut

Maria Garcia Romo
In Silico Prediction of Antibody Physicochemical Properties via Construction of Homology Models
Date: 30-01-2014  |  Supervisor: Thomas Wim Hamelryck  |  Department: Biologisk Institut

Victor Adriano Okstoft Carmelo
Calling of Short Insertions and Deletions in Deep Exome Sequencing Data
Date: 16-12-2013  |  Supervisor: Anders Krogh  |  Department: Biologisk Institut

Marietta Kokla
Detection of Pulmonary Thrombosis in Dogs using Texture Analysis and Multvariate Classification Models
Date: 13-12-2013  |  Supervisor: Jose Manuel Amigo Rublo  |  Department: Institut for Fødevarevidenskab

Peter Novotny
Sequencing Assembly and Annotation of the Yeast genome Debryomyces Hansenii Isolated from danish Cheese
Date: 28-11-2013  |  Supervisor: Søren Johannes Sørensen  |  Department: Biologisk Institut

Kortine Annina Kleinheinz
In Silico Bacteriophage Host Prediction and Prophage Prediction: Is it Possible?
Date: 04-10-2013  |  Supervisor: Anders Krogh  |  Department: Biologisk Institut

Kristoffer Vitting-Seerup
Genome-Wide Analysis of Alternative Transciption Usage in Acute Myeloid Leukemia Patients Characterized by Biallelic C/ebpx Mutations
Date: 16-08-2013  |  Supervisor: Albin Sandelin  |  Department: Biologisk Institut

Adriana Pitea
Comprehensive Identification and Annotation of Human MicroDNA Promoter Regions
Date: 16-08-2013  |  Supervisor: Anders Krogh  |  Department: Biologisk Institut

Emil Vincent Rosenbaum Appel
Estimering af fylogenetisk historie for to beslægtede populationer
Date: 23-07-2013  |  Supervisor: Rasmus Nielsen  |  Department: Biologisk Institut

Justinas Vygintas Daugmaudis
Statistical Analysis and Applications
Date: 31-05-2013  |  Supervisor: Thomas Hamelryck  |  Department: Biologisk Institut

Lars Yannik Schöning
Statistical Issues in Chip-seq Peak Calling Integrated Analysis and Visualization
Date: 01-03-2013  |  Supervisor: Ole Winther  |  Department: Biologisk Institut

Dagny Ros Nicolaisdottir
Enzyme Classification in Metagenomics Data
Date: 31-01-2013  |  Supervisor: Anders Krogh  |  Department: Biologisk Institut

Lasse Maretty Sørensen
Probabilistic Transcriptome Assembly
Date: 30-11-2012  |  Supervisor: Anders krogh  |  Department: Biologisk Institut

Jonas Andreas Sibbesen
Probabilistic Transcriptome Asselbly
Date: 30-11-2012  |  Supervisor: Anders Krogh  |  Department: Biologisk Institut

Daniel Mulnæs
Modelling PH dependent conformationac fluctuations in proteins
Date: 09-11-2012  |  Supervisor: Thomas Hamelryck  |  Department: Biologisk Institut

svd978 svd978
Discovery of mirsignatures and possible therapeutic targets for the treatment of cardiovascular diseases
Date: 15-10-2012  |  Supervisor: Morten Lindow  |  Department: Biologisk Institut

Victor Tzvetanov Yakimov
Machine Learning Tools for Antisense Oligonucleotide Analysis
Date: 11-10-2012  |  Supervisor: Anders Krogh  |  Department: Biologisk Institut

Vibha Raghavan
Relative Ratio Test - a Novel Way to Date Ancient DNA
Date: 27-09-2012  |  Supervisor: Anders Krogh  |  Department: Biologisk Institut

Thorfinn Sand Korneliussen
Estimering af Tajima's D og andre neutralitetsstatistikker fra Next Generation Sequence data
Date: 27-09-2012  |  Supervisor: Rasmus Nielsen  |  Department: Biologisk Institut

Lubomir Dimitrov Antonov
Inferential Structure determination from Saxs Data
Date: 19-09-2012  |  Supervisor: Thomas Hamelryck  |  Department: Biologisk Institut

Razvan-Mihai Badea
Enhancers and Promoter in Erythropoiesis
Date: 04-09-2012  |  Supervisor: Albin Sandelin  |  Department: Biologisk Institut

Pranav Kumar
Computational methods in Cross-linking and Immuno-Percipitation data analysis
Date: 31-08-2012  |  Supervisor: Anders Krogh  |  Department: Biologisk Institut

Daniela Salvini
Relationships between two chromatin binding proteins studied by ChIP-Seq motif discovery and positional data analysis
Date: 21-06-2012  |  Supervisor: Anders Krogh  |  Department: Biologisk Institut

Brian Stidsen
A probabilistic model of the local structure of antibodies: Phaistos implementation
Date: 08-02-2012  |  Supervisor: Thomas Hamelryck  |  Department: Biologisk Institut

Jan Teichmann
Genes with microRNA seed sites within hairpin structures show correlation with PUM2 and are related to long-term generepression
Date: 28-10-2011  |  Supervisor: Anders Krogh  |  Department: Biologisk Institut

Pedro Manuel Martínez Garcia
Non-canonical miRNA targeting in Arabidopsis thaliana.
Date: 16-09-2011  |  Supervisor: Anders Krogh  |  Department: Biologisk Institut

Mikkel Schubert
Improving ancient DNA read mapping against modern reference genomes.
Date: 15-09-2011  |  Supervisor: Ludovic Orlando  |  Department: Statens Naturhistoriske Museum

Peter Stefanov Kerpedjiev
using position speci_c scoring matrices for short read alignment on a compressed genome index
Date: 05-09-2011  |  Supervisor: Anders krogh  |  Department: Biologisk Institut

Berit Lilje
Exploration of human tissue-specific promoters using FANTOM5 data
Date: 08-08-2011  |  Supervisor: Albin Sandelin  |  Department: Biologisk Institut