Hedi Peterson “Exploiting high-throughput data for establishing relationships between genes”

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View all other units

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Date:

17.06.2015 - 10:00

Thesis supervisor: professor Juhan Sedman (University of Tartu) ja professor Jaak Vilo (University of Tartu).

Opponent: professor Boris Lenhard, Imperial College London, Suurbritannia

Summary

In order to understand the basic principles of how organisms function, and to be able to affect the biological processes, we need to understand relationships between genes and proteins. Modern high-throughput technology enables to study different sides of biological processes in a rapid manner. This, however, has led to a steady growth of amount of data available. The need for more sophisticated methods for analysing raw data, for combining different data sources and to visualise the results, has emerged. Additionally, computational modeling is required to test if our understanding of biological processes is supported by the available data.
In this doctoral thesis, variety of bioinformatics methods demonstrate how to combine different type of high-throughput data for identifying relationships between genes. In this thesis it was shown that through combining various data types from different sources adds value to already published data. In this thesis, data from publications about embryonic stem cell regulation was collected together and made available through Embryonic Stem Cell Database (ESCDb). Complementary data in the database allows researchers to find relationships between genes that would not be possible when analysing only one dataset at a time. One of the main findings of this study illustrates how using computational modelling on data from the ESCDb allowed to find a novel pluripotency regulator — IL11.
Additionally, integration of different data types led to identification of alternative gene regulatory modules of core pluripotency regulator OCT4. Similarly, combination of conservation data and regulatory motif analysis led to identification of three new regulators of adipocyte differentiation. This thesis also covers novel methodology, VisHiC, for automatic identification and visualisation of functionally related gene sets. This methodology allows to find relevant gene sets for further characterisation from large high-throughput datasets.
This doctoral thesis demonstrates that integration of different high-throughput datasets enables establishing gene-gene relationships that would not be possible when looking at a single data type in isolation.

Organizer:

Tiina Tamm

Location:

Riia 23B, Estonian Biocentre, room 105

URL:

hdl.handle.net/10062/46443

Event category:

Defence

M	T	W	T	F	S	S
		1 Rauno Thomas Moss Exhibition „ANATOMICAL ILLUSTRATIONS“ Opening on 25 February at 4 PM Exhibition dedicated to the Estonian national university “Estonia of Ideals. 100 Years of Quests” Estonia's National University 100: Photo exhibition “Put on Your Thinking Cap! The Hundred Faces of the University of Tartu” Aarne Maasik’s Photos of Tartu Cathedral	2 Madis Rahu „Structure and blood supply of the postero-superior part of the shoulder joint capsule with implementation of surgical treatment after anterior traumatic dislocation“ Rauno Thomas Moss Exhibition „ANATOMICAL ILLUSTRATIONS“ Opening on 25 February at 4 PM Exhibition dedicated to the Estonian national university “Estonia of Ideals. 100 Years of Quests” Estonia's National University 100: Photo exhibition “Put on Your Thinking Cap! The Hundred Faces of the University of Tartu” Aarne Maasik’s Photos of Tartu Cathedral	3 Martin Maide „Influence of the microstructure and chemical composition of the fuel electrode on the electrochemical performance of reversible solid oxide fuel cell“ Physicum seminar: Oliver Shorttle "Tracing volatiles from protoplanetary disks through to planets" Rauno Thomas Moss Exhibition „ANATOMICAL ILLUSTRATIONS“ Opening on 25 February at 4 PM Exhibition dedicated to the Estonian national university “Estonia of Ideals. 100 Years of Quests” Estonia's National University 100: Photo exhibition “Put on Your Thinking Cap! The Hundred Faces of the University of Tartu” Aarne Maasik’s Photos of Tartu Cathedral	4 Rauno Thomas Moss Exhibition „ANATOMICAL ILLUSTRATIONS“ Opening on 25 February at 4 PM Exhibition dedicated to the Estonian national university “Estonia of Ideals. 100 Years of Quests” Estonia's National University 100: Photo exhibition “Put on Your Thinking Cap! The Hundred Faces of the University of Tartu” Aarne Maasik’s Photos of Tartu Cathedral	5 Rauno Thomas Moss Exhibition „ANATOMICAL ILLUSTRATIONS“ Opening on 25 February at 4 PM Exhibition dedicated to the Estonian national university “Estonia of Ideals. 100 Years of Quests” Estonia's National University 100: Photo exhibition “Put on Your Thinking Cap! The Hundred Faces of the University of Tartu” Aarne Maasik’s Photos of Tartu Cathedral
6 Rauno Thomas Moss Exhibition „ANATOMICAL ILLUSTRATIONS“ Opening on 25 February at 4 PM Exhibition dedicated to the Estonian national university “Estonia of Ideals. 100 Years of Quests” Estonia's National University 100: Photo exhibition “Put on Your Thinking Cap! The Hundred Faces of the University of Tartu” Aarne Maasik’s Photos of Tartu Cathedral	7 Rauno Thomas Moss Exhibition „ANATOMICAL ILLUSTRATIONS“ Opening on 25 February at 4 PM Exhibition dedicated to the Estonian national university “Estonia of Ideals. 100 Years of Quests” Estonia's National University 100: Photo exhibition “Put on Your Thinking Cap! The Hundred Faces of the University of Tartu” Aarne Maasik’s Photos of Tartu Cathedral	8 Rauno Thomas Moss Exhibition „ANATOMICAL ILLUSTRATIONS“ Opening on 25 February at 4 PM Exhibition dedicated to the Estonian national university “Estonia of Ideals. 100 Years of Quests” Estonia's National University 100: Photo exhibition “Put on Your Thinking Cap! The Hundred Faces of the University of Tartu” Aarne Maasik’s Photos of Tartu Cathedral	9 Rauno Thomas Moss Exhibition „ANATOMICAL ILLUSTRATIONS“ Opening on 25 February at 4 PM Exhibition dedicated to the Estonian national university “Estonia of Ideals. 100 Years of Quests” Estonia's National University 100: Photo exhibition “Put on Your Thinking Cap! The Hundred Faces of the University of Tartu” Aarne Maasik’s Photos of Tartu Cathedral	10 Rauno Thomas Moss Exhibition „ANATOMICAL ILLUSTRATIONS“ Opening on 25 February at 4 PM Exhibition dedicated to the Estonian national university “Estonia of Ideals. 100 Years of Quests” Estonia's National University 100: Photo exhibition “Put on Your Thinking Cap! The Hundred Faces of the University of Tartu” Aarne Maasik’s Photos of Tartu Cathedral	11 Rauno Thomas Moss Exhibition „ANATOMICAL ILLUSTRATIONS“ Opening on 25 February at 4 PM Exhibition dedicated to the Estonian national university “Estonia of Ideals. 100 Years of Quests” Estonia's National University 100: Photo exhibition “Put on Your Thinking Cap! The Hundred Faces of the University of Tartu” Aarne Maasik’s Photos of Tartu Cathedral	12 Rauno Thomas Moss Exhibition „ANATOMICAL ILLUSTRATIONS“ Opening on 25 February at 4 PM Exhibition dedicated to the Estonian national university “Estonia of Ideals. 100 Years of Quests” Estonia's National University 100: Photo exhibition “Put on Your Thinking Cap! The Hundred Faces of the University of Tartu” Aarne Maasik’s Photos of Tartu Cathedral
13 Rauno Thomas Moss Exhibition „ANATOMICAL ILLUSTRATIONS“ Opening on 25 February at 4 PM Exhibition dedicated to the Estonian national university “Estonia of Ideals. 100 Years of Quests” Estonia's National University 100: Photo exhibition “Put on Your Thinking Cap! The Hundred Faces of the University of Tartu” Aarne Maasik’s Photos of Tartu Cathedral	14 Rauno Thomas Moss Exhibition „ANATOMICAL ILLUSTRATIONS“ Opening on 25 February at 4 PM Exhibition dedicated to the Estonian national university “Estonia of Ideals. 100 Years of Quests” Estonia's National University 100: Photo exhibition “Put on Your Thinking Cap! The Hundred Faces of the University of Tartu” Aarne Maasik’s Photos of Tartu Cathedral	15 Rauno Thomas Moss Exhibition „ANATOMICAL ILLUSTRATIONS“ Opening on 25 February at 4 PM Exhibition dedicated to the Estonian national university “Estonia of Ideals. 100 Years of Quests” Estonia's National University 100: Photo exhibition “Put on Your Thinking Cap! The Hundred Faces of the University of Tartu” Aarne Maasik’s Photos of Tartu Cathedral	16 Rauno Thomas Moss Exhibition „ANATOMICAL ILLUSTRATIONS“ Opening on 25 February at 4 PM Exhibition dedicated to the Estonian national university “Estonia of Ideals. 100 Years of Quests” Estonia's National University 100: Photo exhibition “Put on Your Thinking Cap! The Hundred Faces of the University of Tartu” Aarne Maasik’s Photos of Tartu Cathedral	17 Rauno Thomas Moss Exhibition „ANATOMICAL ILLUSTRATIONS“ Opening on 25 February at 4 PM Exhibition dedicated to the Estonian national university “Estonia of Ideals. 100 Years of Quests” Estonia's National University 100: Photo exhibition “Put on Your Thinking Cap! The Hundred Faces of the University of Tartu” Aarne Maasik’s Photos of Tartu Cathedral	18 Rauno Thomas Moss Exhibition „ANATOMICAL ILLUSTRATIONS“ Opening on 25 February at 4 PM Exhibition dedicated to the Estonian national university “Estonia of Ideals. 100 Years of Quests” Estonia's National University 100: Photo exhibition “Put on Your Thinking Cap! The Hundred Faces of the University of Tartu” Aarne Maasik’s Photos of Tartu Cathedral	19 Rauno Thomas Moss Exhibition „ANATOMICAL ILLUSTRATIONS“ Opening on 25 February at 4 PM Exhibition dedicated to the Estonian national university “Estonia of Ideals. 100 Years of Quests” Estonia's National University 100: Photo exhibition “Put on Your Thinking Cap! The Hundred Faces of the University of Tartu” Aarne Maasik’s Photos of Tartu Cathedral
20 Rauno Thomas Moss Exhibition „ANATOMICAL ILLUSTRATIONS“ Opening on 25 February at 4 PM Exhibition dedicated to the Estonian national university “Estonia of Ideals. 100 Years of Quests” Estonia's National University 100: Photo exhibition “Put on Your Thinking Cap! The Hundred Faces of the University of Tartu” Aarne Maasik’s Photos of Tartu Cathedral	21 Rauno Thomas Moss Exhibition „ANATOMICAL ILLUSTRATIONS“ Opening on 25 February at 4 PM Exhibition dedicated to the Estonian national university “Estonia of Ideals. 100 Years of Quests” Estonia's National University 100: Photo exhibition “Put on Your Thinking Cap! The Hundred Faces of the University of Tartu” Aarne Maasik’s Photos of Tartu Cathedral	22 Rauno Thomas Moss Exhibition „ANATOMICAL ILLUSTRATIONS“ Opening on 25 February at 4 PM Exhibition dedicated to the Estonian national university “Estonia of Ideals. 100 Years of Quests” Estonia's National University 100: Photo exhibition “Put on Your Thinking Cap! The Hundred Faces of the University of Tartu” Aarne Maasik’s Photos of Tartu Cathedral	23 Remote sensing webinar: Linda Gulbe, "Single tree detection using template matching and convolutional neural networks" Rauno Thomas Moss Exhibition „ANATOMICAL ILLUSTRATIONS“ Opening on 25 February at 4 PM Exhibition dedicated to the Estonian national university “Estonia of Ideals. 100 Years of Quests” Estonia's National University 100: Photo exhibition “Put on Your Thinking Cap! The Hundred Faces of the University of Tartu” Aarne Maasik’s Photos of Tartu Cathedral	24 Rauno Thomas Moss Exhibition „ANATOMICAL ILLUSTRATIONS“ Opening on 25 February at 4 PM Exhibition dedicated to the Estonian national university “Estonia of Ideals. 100 Years of Quests” Estonia's National University 100: Photo exhibition “Put on Your Thinking Cap! The Hundred Faces of the University of Tartu” Aarne Maasik’s Photos of Tartu Cathedral	25 Rauno Thomas Moss Exhibition „ANATOMICAL ILLUSTRATIONS“ Opening on 25 February at 4 PM Exhibition dedicated to the Estonian national university “Estonia of Ideals. 100 Years of Quests” Estonia's National University 100: Photo exhibition “Put on Your Thinking Cap! The Hundred Faces of the University of Tartu” Aarne Maasik’s Photos of Tartu Cathedral	26 Rauno Thomas Moss Exhibition „ANATOMICAL ILLUSTRATIONS“ Opening on 25 February at 4 PM Exhibition dedicated to the Estonian national university “Estonia of Ideals. 100 Years of Quests” Estonia's National University 100: Photo exhibition “Put on Your Thinking Cap! The Hundred Faces of the University of Tartu” Aarne Maasik’s Photos of Tartu Cathedral
27 Rauno Thomas Moss Exhibition „ANATOMICAL ILLUSTRATIONS“ Opening on 25 February at 4 PM Exhibition dedicated to the Estonian national university “Estonia of Ideals. 100 Years of Quests” Estonia's National University 100: Photo exhibition “Put on Your Thinking Cap! The Hundred Faces of the University of Tartu” Aarne Maasik’s Photos of Tartu Cathedral	28 Rauno Thomas Moss Exhibition „ANATOMICAL ILLUSTRATIONS“ Opening on 25 February at 4 PM Exhibition dedicated to the Estonian national university “Estonia of Ideals. 100 Years of Quests” Estonia's National University 100: Photo exhibition “Put on Your Thinking Cap! The Hundred Faces of the University of Tartu” Aarne Maasik’s Photos of Tartu Cathedral	29 Rauno Thomas Moss Exhibition „ANATOMICAL ILLUSTRATIONS“ Opening on 25 February at 4 PM Exhibition dedicated to the Estonian national university “Estonia of Ideals. 100 Years of Quests” Estonia's National University 100: Photo exhibition “Put on Your Thinking Cap! The Hundred Faces of the University of Tartu” Aarne Maasik’s Photos of Tartu Cathedral	30 Remote sensing webinar: Jane Jäger, "NIVA – introduction and project overview" Rauno Thomas Moss Exhibition „ANATOMICAL ILLUSTRATIONS“ Opening on 25 February at 4 PM Exhibition dedicated to the Estonian national university “Estonia of Ideals. 100 Years of Quests” Estonia's National University 100: Photo exhibition “Put on Your Thinking Cap! The Hundred Faces of the University of Tartu” Aarne Maasik’s Photos of Tartu Cathedral

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Hedi Peterson “Exploiting high-throughput data for establishing relationships between genes”

April