International workshop – Machine Learning and Systems Biosciences

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In the frame of the EU project “Internacionalizacija visokega šolstva” the Jožef Stefan International Postgraduate School (in cooperation with the Jožef Stefan Institute) is organizing an
international workshop from 22 to 24 June 2015 entitled


This event is an advanced school at graduate student level with invited lectures only. The content of the program has been selected by Prof. Dr. Sašo Džeroski 1,2, who will open the event with a lecture on Monday, 22 June 2015, at 9:00.
The workshop will be held at the IPS Lecture Room (N205-N206, Jamova 39, Ljubljana). The lectures will be in English.


Time Monday, 22 June 2015 Tuesday, 22 June 2015 Wednesday, 24 June 2015
09:00 Introductory lecture: prof. dr. Sašo Džeroski 1,2
Machine Learning and Systems BioSciences
dr. Cene Gostinčar 3
Machine learning to the extreme: Studies on extremophilic and extremotolerant fungi
dr. Marco Mina 9
Reconstruction of transcriptional network dynamics from gene expression time-course data by time-series clustering and hierarchical motif enrichment analysis
10:30 prof. dr. Kristina Gruden 1,3
Systems biology of the immune response of plants
doc. dr. Miha Moškon 6
Computational modelling, analysis and design of biological systems
dr. Panče Panov 2
Ontology of data types
11:15 Break Break Break
11:30 dr. Oren Tzfadia4
MORPH, an algorithm for revealing missing genes in biological pathways
prof. dr. Roman Jerala7
Designable modularity in Synthetic Biology: Repurposing natural building blocks for cell regulation and structure
dr. Panče Panov2
Ontology of data mining
12:15 dr. Oren Tzfadia4
CoExpNetViz, a gene discovery tool for finding conserved co-expression patterns between orthologs genes
dr. Dimitar Hristovski5
Semantic literature-based discovery and its applications in pharmacovigilance and gene-expression data analysis
prof. dr. Borut Peterlin10
Clinical next generation sequencing for diagnosis of rare diseases
13:00 Lunch Lunch Lunch
14:00 dr. Oren Tzfadia4
Evaluation and integration of functional annotation pipelines for newly sequenced organisms
dr. Fran Supek8
Analysis of ‘big data’ from cancer genomes
dr. Marco Mina9
Disease Association Networks in Systems Medicine: Co-morbidity inference and biomarker discovery
14:45 dr. Oren Tzfadia4
EXPANDER (EXpression Analyzer and DisplayER), a tool for the analysis of gene expression and NGS data
dr. Fran Supek8
Predicting gene function using comparative genomics data
dr. Marco Mina9
Disease Association Networks in Systems Medicine: Co-morbidity inference and biomarker discovery
15:30 Break Break Close
16:00 prof. dr. Maja Bresjanac5
Translational Medicine for delayed aging
prof. dr. Blaž Zupan6
Data fusion
16:45 prof. dr. Maja Bresjanac5
Neural responses underlying dance imagery induced by music
doc. dr. Tomaz Curk6
Data fusion of protein-RNA interaction data using orthogonal matrix factorization
17:30 Close Close
1 Jožef Stefan International Postgraduate School (IPS), Ljubljana, Slovenia
2 “Jožef Stefan” Institute (JSI), Ljubljana, Slovenia
3 National Institute of Biology (NIB), Ljubljana, Slovenia
4 VIB, Ghent University, Belgium
5 Faculty of Medicine, University of Ljubljana, Slovenia
6 Faculty of Computer and Information Science, University of Ljubljana, Slovenia
7 National Institute of Chemistry, Ljubljana, Slovenia
8 Centre for Genomic Regulation (CRG), Barcelona, Spain and
Ruđer Bošković Institute (IRB), Zagreb, Croatia
9 Fondazione Bruno Kessler, Trento, Italy
10 University Medical Centre, Ljubljana, Slovenia
The cost of this contract is funded from European Social Fund, within the project “Krepitev kapacitet MPŠ v mednarodnem sodelovanju”, which was selected at “Javni razpis za sofinanciranje aktivnosti v letih 2013-2015,
ki spodbujajo internacionalizacijo slovenskega visokega šolstva”.
The organization of this workshop is also supported by the European Commission through the project MAESTRA – Learning from Massive, Incompletely annotated,
and Structured Data (Grant number ICT-2013- 612944).

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