Kessy Abarenkov "PlutoF - cloud database and computing services supporting biological research"

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View all other units

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Date:

09.11.2011 - 09:15 to 11:00

Kolmapäeval, 9. novembril 2011 algusega kell 09.15 kaitseb oma doktoritööd Ökoloogia ja Maateaduste Instituudi botaanika osakonna doktorant Kessy Abarenkov teemal "PlutoF - cloud database and computing services supporting biological research" (PlutoF pilv - elurikkuse andmebaaside ja analüüsiplatvorm bioloogile).

Juhendaja prof. Urmas Kõljalg
Oponent prof Peter Dawyndt (Genti Ülikool, Belgia)

Doktoritöö eesmärgiks oli luua platvorm, mis võimaldaks üle veebi sisestada, talletada, toimetada ja analüüsida elurikkuse ning sellega seotud metaandmestikku. Töö kitsamaks eesmärgiks oli luua spetsiifilised lahendused seente molekulaarsete andmete (DNA järjestuste) analüüsimiseks ja nende DNA-põhiseks määramiseks.
Paljud seeneliigid ei moodusta määramiseks kasutatavaid viljakehi elades vaid seeneniidistikuna mullas. Seetõttu nende eristamiseks ja kindlakstegemiseks morfoloogilistest ning anatoomilistest tunnustest ei piisa. Viimased viisteist aastat on seeneliikide määramiseks keskkonnaproovidest kasutatud kindla DNA regiooni nukleotiidseid järjestusi. Selliste DNA järjestuste määramiseks tuleb neid võrrelda teadaolevate liikide järjestustega. Viimased pärinevad reeglina eksperdi poolt määratud seene viljakehast või eluskultuurist. Sellise DNA-põhise määramise kitsaskohaks on seni olnud kõrge kvaliteediga määratud DNA järjestuste andmebaasi puudumine, mille vastu uusi järjestusi võrrelda.
Käesoleva töö raames loodi seente viljakehadest pärit kvaliteetseid DNA järjestusi sisaldav andmebaas UNITE (http://unite.ut.ee) koos selle veebiväljundi ja analüüsitarkvaraga seente kiireks ja usaldusväärseks DNA-põhiseks määramiseks. Andmebaas sisaldab DNA järjestusi seente viljakehadest, mis on kogutud oma ala ekspertide poolt üle maailma. Lisaks on võimalik analüüsidesse kaasata ka kõiki rahvusvahelistesse geenipankadesse lisatud keskkonnaproovidest pärit DNA järjestusi, mille metaandmestikku rahvusvahelise uurimisrühma poolt meie süsteemis kontrollitakse ja täiendatakse. Doktoritöö raames loodi mitmed tarkvaralahendused vastavate DNA järjestuste kvaliteedi kontrollimiseks ning veebi-töölaud PlutoF (http://plutof.ut.ee) kogu andmestiku haldamiseks ja analüüsimiseks. Ka UNITE andmebaas asub PlutoF pilves.
PlutoF platvorm võimaldab lisaks eelpool kirjeldatud näitele luua ja hallata mitmesuguseid elurikkuse andmebaase taksonoomiast keskkonnagenoomikani. PlutoF pilve on edukalt kasutatud andmebaaside Eesti eElurikkus ja Eesti Liikide Register loomiseks (http://elurikkus.ut.ee) ning Eesti loodusteaduslike kogude rahvuslike andmebaaside (http://elurikkus.ut.ee/collections.php?lang=est) loomiseks. Erinevad, sh. rahvusvahelised uurimisrühmad kasutavad PlutoF pilve ökoloogiliste uuringute haldamiseks ning molekulaarsete andmete analüüsimiseks.

Location:

Ravila 14A - 1019

URL:

hdl.handle.net/10062/18732

Event category:

Defence

M	T	W	T	F	S	S
	1 Exhibition dedicated to the Estonian national university “Estonia of Ideals. 100 Years of Quests” The Exhibition "The enchanting art of stone cutting. Morgenstern 250" Aarne Maasik’s Photos of Tartu Cathedral Estonia's National University 100: Photo exhibition “Put on Your Thinking Cap! The Hundred Faces of the University of Tartu”	2 Gaygysyz Ashyrov „Essays on firm-level corruption” Exhibition dedicated to the Estonian national university “Estonia of Ideals. 100 Years of Quests” The Exhibition "The enchanting art of stone cutting. Morgenstern 250" Aarne Maasik’s Photos of Tartu Cathedral Estonia's National University 100: Photo exhibition “Put on Your Thinking Cap! The Hundred Faces of the University of Tartu”	3 Exhibition dedicated to the Estonian national university “Estonia of Ideals. 100 Years of Quests” The Exhibition "The enchanting art of stone cutting. Morgenstern 250" Aarne Maasik’s Photos of Tartu Cathedral Estonia's National University 100: Photo exhibition “Put on Your Thinking Cap! The Hundred Faces of the University of Tartu”	4 Kärt Ukkivi “Mutagenic effect of transcription and transcription-coupled repair factors in Pseudomonas putida” Ida Rahu „Bromine formation in inorganic bromide/nitrate mixtures and its application for oxidative aromatic bromination” Exhibition dedicated to the Estonian national university “Estonia of Ideals. 100 Years of Quests” The Exhibition "The enchanting art of stone cutting. Morgenstern 250" Aarne Maasik’s Photos of Tartu Cathedral Estonia's National University 100: Photo exhibition “Put on Your Thinking Cap! The Hundred Faces of the University of Tartu”	5 Exhibition dedicated to the Estonian national university “Estonia of Ideals. 100 Years of Quests” The Exhibition "The enchanting art of stone cutting. Morgenstern 250" Aarne Maasik’s Photos of Tartu Cathedral Estonia's National University 100: Photo exhibition “Put on Your Thinking Cap! The Hundred Faces of the University of Tartu”	6 Exhibition dedicated to the Estonian national university “Estonia of Ideals. 100 Years of Quests” The Exhibition "The enchanting art of stone cutting. Morgenstern 250" Aarne Maasik’s Photos of Tartu Cathedral Estonia's National University 100: Photo exhibition “Put on Your Thinking Cap! The Hundred Faces of the University of Tartu”
7 The inaugural lecture by Gholamreza Anbarjafari, UT Professor of of Computer Vision The Exhibition "The enchanting art of stone cutting. Morgenstern 250" Aarne Maasik’s Photos of Tartu Cathedral Estonia's National University 100: Photo exhibition “Put on Your Thinking Cap! The Hundred Faces of the University of Tartu”	8 The Exhibition "The enchanting art of stone cutting. Morgenstern 250" Aarne Maasik’s Photos of Tartu Cathedral Estonia's National University 100: Photo exhibition “Put on Your Thinking Cap! The Hundred Faces of the University of Tartu”	9 Kadi Luht-Kallas „Risk-taking behaviour: Relationship with personality and markers of heritability, and an intervention to prevent unintentional injury“ The Exhibition "The enchanting art of stone cutting. Morgenstern 250" Aarne Maasik’s Photos of Tartu Cathedral Estonia's National University 100: Photo exhibition “Put on Your Thinking Cap! The Hundred Faces of the University of Tartu”	10 Larisa Ivanova “Design of active compounds against neurodegenerative diseases” The Exhibition "The enchanting art of stone cutting. Morgenstern 250" Aarne Maasik’s Photos of Tartu Cathedral Estonia's National University 100: Photo exhibition “Put on Your Thinking Cap! The Hundred Faces of the University of Tartu”	11 The Exhibition "The enchanting art of stone cutting. Morgenstern 250" Aarne Maasik’s Photos of Tartu Cathedral Estonia's National University 100: Photo exhibition “Put on Your Thinking Cap! The Hundred Faces of the University of Tartu”	12 The Exhibition "The enchanting art of stone cutting. Morgenstern 250" Aarne Maasik’s Photos of Tartu Cathedral Estonia's National University 100: Photo exhibition “Put on Your Thinking Cap! The Hundred Faces of the University of Tartu”	13 The Exhibition "The enchanting art of stone cutting. Morgenstern 250" Aarne Maasik’s Photos of Tartu Cathedral Estonia's National University 100: Photo exhibition “Put on Your Thinking Cap! The Hundred Faces of the University of Tartu”
14 The Exhibition "The enchanting art of stone cutting. Morgenstern 250" Aarne Maasik’s Photos of Tartu Cathedral Estonia's National University 100: Photo exhibition “Put on Your Thinking Cap! The Hundred Faces of the University of Tartu”	15 Matti Vainio's exhibition "Findings \| Leiud" The Exhibition "The enchanting art of stone cutting. Morgenstern 250" Aarne Maasik’s Photos of Tartu Cathedral Estonia's National University 100: Photo exhibition “Put on Your Thinking Cap! The Hundred Faces of the University of Tartu”	16 Matti Vainio's exhibition "Findings \| Leiud" The Exhibition "The enchanting art of stone cutting. Morgenstern 250" Aarne Maasik’s Photos of Tartu Cathedral Estonia's National University 100: Photo exhibition “Put on Your Thinking Cap! The Hundred Faces of the University of Tartu”	17 Matti Vainio's exhibition "Findings \| Leiud" The Exhibition "The enchanting art of stone cutting. Morgenstern 250" Aarne Maasik’s Photos of Tartu Cathedral Estonia's National University 100: Photo exhibition “Put on Your Thinking Cap! The Hundred Faces of the University of Tartu”	18 Sten Saar "Epidemiology of severe injuries in Estonia" Kadi Tilk „Signals and responses of ColRS two-component system in Pseudomonas putida“ Matti Vainio's exhibition "Findings \| Leiud" The Exhibition "The enchanting art of stone cutting. Morgenstern 250" Aarne Maasik’s Photos of Tartu Cathedral Estonia's National University 100: Photo exhibition “Put on Your Thinking Cap! The Hundred Faces of the University of Tartu”	19 Matti Vainio's exhibition "Findings \| Leiud" The Exhibition "The enchanting art of stone cutting. Morgenstern 250" Aarne Maasik’s Photos of Tartu Cathedral Estonia's National University 100: Photo exhibition “Put on Your Thinking Cap! The Hundred Faces of the University of Tartu”	20 Matti Vainio's exhibition "Findings \| Leiud" The Exhibition "The enchanting art of stone cutting. Morgenstern 250" Aarne Maasik’s Photos of Tartu Cathedral Estonia's National University 100: Photo exhibition “Put on Your Thinking Cap! The Hundred Faces of the University of Tartu”
21 Matti Vainio's exhibition "Findings \| Leiud" The Exhibition "The enchanting art of stone cutting. Morgenstern 250" Aarne Maasik’s Photos of Tartu Cathedral Estonia's National University 100: Photo exhibition “Put on Your Thinking Cap! The Hundred Faces of the University of Tartu”	22 Ilya Kuzovkin „Understanding Information Processing in Human Brain by Interpreting Machine Learning Models“ Matti Vainio's exhibition "Findings \| Leiud" The Exhibition "The enchanting art of stone cutting. Morgenstern 250" Aarne Maasik’s Photos of Tartu Cathedral Estonia's National University 100: Photo exhibition “Put on Your Thinking Cap! The Hundred Faces of the University of Tartu”	23 Matti Vainio's exhibition "Findings \| Leiud" The Exhibition "The enchanting art of stone cutting. Morgenstern 250" Aarne Maasik’s Photos of Tartu Cathedral Estonia's National University 100: Photo exhibition “Put on Your Thinking Cap! The Hundred Faces of the University of Tartu”	24 UT Memorial Day Matti Vainio's exhibition "Findings \| Leiud" The Exhibition "The enchanting art of stone cutting. Morgenstern 250" Aarne Maasik’s Photos of Tartu Cathedral Estonia's National University 100: Photo exhibition “Put on Your Thinking Cap! The Hundred Faces of the University of Tartu”	25 Orlenys López Pintado “Collaborative Business Process Execution on the Blockchain: The Caterpillar System“ Mari Urb "DNA methylation in the predisposition, expression and abstinence of cocaine addiction" Matti Vainio's exhibition "Findings \| Leiud" The Exhibition "The enchanting art of stone cutting. Morgenstern 250" Aarne Maasik’s Photos of Tartu Cathedral Estonia's National University 100: Photo exhibition “Put on Your Thinking Cap! The Hundred Faces of the University of Tartu”	26 Matti Vainio's exhibition "Findings \| Leiud" The Exhibition "The enchanting art of stone cutting. Morgenstern 250" Aarne Maasik’s Photos of Tartu Cathedral Estonia's National University 100: Photo exhibition “Put on Your Thinking Cap! The Hundred Faces of the University of Tartu”	27 Matti Vainio's exhibition "Findings \| Leiud" The Exhibition "The enchanting art of stone cutting. Morgenstern 250" Aarne Maasik’s Photos of Tartu Cathedral Estonia's National University 100: Photo exhibition “Put on Your Thinking Cap! The Hundred Faces of the University of Tartu”
28 Matti Vainio's exhibition "Findings \| Leiud" The Exhibition "The enchanting art of stone cutting. Morgenstern 250" Aarne Maasik’s Photos of Tartu Cathedral Estonia's National University 100: Photo exhibition “Put on Your Thinking Cap! The Hundred Faces of the University of Tartu”	29 Matti Vainio's exhibition "Findings \| Leiud" The Exhibition "The enchanting art of stone cutting. Morgenstern 250" Aarne Maasik’s Photos of Tartu Cathedral Estonia's National University 100: Photo exhibition “Put on Your Thinking Cap! The Hundred Faces of the University of Tartu”	30 Concert: smooth harmonies Matti Vainio's exhibition "Findings \| Leiud" The Exhibition "The enchanting art of stone cutting. Morgenstern 250" Aarne Maasik’s Photos of Tartu Cathedral Estonia's National University 100: Photo exhibition “Put on Your Thinking Cap! The Hundred Faces of the University of Tartu”

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Kessy Abarenkov "PlutoF - cloud database and computing services supporting biological research"

September