Bachelor Master topics 2020
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SupervisorContactGroupAssociated GroupTopic titleCommentsOpen / Taken
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Michael Lauber
michael.lauber@tum.de
Markus, BDIBMMalte Lücken, HelmholtzCell type ontology benchmarking with scRNA-seq
suitable for python or R, experience with scRNA-seq needed
Open
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Markus
markus.list@wzw.tum.de
Markus, BDIBMKeyPathwayMiner R package
R and Java, coding-centric, REST APIs, rJava
Open
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David Blumenthal
david.blumenthal@wzw.tum.de
Markus, BDIBMA meta-algorithm for bi-cluster editing
benchmarking, methods-focused
Open
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David Blumenthal
david.blumenthal@wzw.tum.de
Markus, BDIBM / Tim, CSM
Fast C++ implementation of survival module detection
implementation-focused, C++ needed
Open
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Olga Lazareva
olga.lazareva@wzw.tum.de
Markus, BDIBMLothar Hennighausen, NIHPredicting chromatin structure from CHIP-seq data
Python or R, machine learning
Open
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Olga Lazareva
olga.lazareva@wzw.tum.de
Markus, BDIBM
Epigenetic regulatory network inference Enhancers, TFs, target genes (in contrast to gene regulatory networks)
Python or R, igraph, network construction
Open
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Monica Matchado
monica.matchado@wzw.tum.de
Markus, BDIBM
Identification of novel targets and their associated pathways for Rheumatoid Arthritis using next generation sequence data analysis
Python or R, analysis-focused
Open
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Melissa Klugmelissa.klug@tum.deMarkus, BDIBMDr. Dario Bongiovanni, MRIMulti-omics Analysis in Platelets
Analysis-focused
Open
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Fabio Boniolofabio.boniolo@tum.deMarkus, BDIBMProf. Saur, TranslaTUMMulti Omics data integration in pancreatic ductal adenocarcinoma
Python or R, machine learning
Open
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Julian Matschinske/Jan
julian.matschinske@wzw.tum.de
Jan, ExBioAdopt and implement standard statistical methods for federated ML: Support vector machines (SVM)
method/coding (any language)
Open
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Julian Späth/Jan
julian.spaeth@wzw.tum.de
Jan, ExBio
Adopt and implement survival analysis methods for federated ML: (a) Univariate Models: Kaplan-Meier, Nelson-Aalen, … (b) Regression Models: Cox-PH, Weibull, … (c) ML Models: Random Survival Forest, Survival SVM, …
method/coding (any language)
Open
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Julian Matschinske/Jan
julian.matschinske@wzw.tum.de
Jan, ExBio
Platform data management: Import and export functionality for various biodata formats (research + implementation)
coding, python, java
Open
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Tim
tim.kacprowski@wzw.tum.de
Tim, CSMNClue for GWAS DataappliedOpen
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ChitTong Lio/Tim
tim.kacprowski@wzw.tum.de
Tim, CSMTiCoNE-SC
java, method/coding
Open
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Manuela Lautizi/Tim
manuela.lautizi@wzw.tum.de
Tim, CSMTumor Sample DeconvolutionappliedOpen
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Manuela Lautizi/Tim
manuela.lautizi@wzw.tum.de
Tim, CSMShiny app for methylation data
coding, r or python
Open
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Olga Tsoy
olga.tsoy@wzw.tum.de
Tim, CSM / Markus, BDIBM
Tissue versus blood-based dataanalyticalOpen
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Olga Tsoy
olga.tsoy@wzw.tum.de
Tim, CSM / Markus, BDIBM
Definition of percent spliced in (PSI)analyticalOpen
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Zakaria Louadi/Tim
zakaria.louadi@wzw.tum.de
Tim, CSM / Markus, BDIBM
Machine learning annotation of RNA splicing branchpointsmethodOpen
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Gihanna Galindez/Tim
gihanna.gaye@wzw.tum.de
Tim, CSMDrug repurposing using TF and drug perturbation dataapplied/methodOpen
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Amit Fenn/Tim
amit.fenn@wzw.tum.de
Tim, CSM / Markus, BDIBM
Quantifying SNPs in mitochondrial DNAr, methodOpen
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Sepideh Sadegh/Tim
sepideh.sadegh@wzw.tum.de
Tim, CSMInvestigating the relation between disease comorbidity patterns and underlying structure of cellular networks
java/python, applied
Open
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Mhaned Oubounyt/Tim/Jan
mhaned.oubounyt@wzw.tum.de
Tim, CSM / Jan, ExBio
single‐cell RNA‐seq analysis using Scellnetorpython, appliedOpen
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remco.stam@tum.deProf. Remco StamWhole genome re-assembly & annotation: Use dovetail data to improve draft assembly of S. chilenseOpen
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remco.stam@tum.deProf. Remco Stam
Comparative genomics S. chilense: Linking phenotype to genotype. Analysis of 35 whole genomes from different geographical populations
Open
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remco.stam@tum.deProf. Remco Stam
Pathogen phylogenetics: Identification and characterisation of fungal pathogens isolated from different geographical S. chilense populations
Open
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remco.stam@tum.deProf. Remco StamPathogen genomics: Assembly & comparative genomics of Alternaria strains (Nanopore data)Open
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remco.stam@tum.deProf. Remco StamComparative genomics of newly identified Fusarium speciesOpen
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