See veebileht kasutab küpsiseid kasutaja sessiooni andmete hoidmiseks. Veebilehe kasutamisega nõustute ETISe kasutustingimustega. Loe rohkem
Olen nõus
29.12.1984
elena.sugis@ut.ee

Teenistuskäik

Töökohad ja ametid
01.08.2021–...   
Tartu Ülikool, Loodus- ja täppisteaduste valdkond, arvutiteaduse instituut, terviseinformaatika lektor (1,00)
01.03.2020–...   
OÜ Quretec, Bioinformaatika teadur (0,10)
01.04.2020–31.07.2021   
Tartu Ülikool, Loodus- ja täppisteaduste valdkond, arvutiteaduse instituut, bioinformaatika teadur (1,00)
16.09.2019–29.02.2020   
OÜ Quretec, Äriarendusjuht, Kliiniliste uuringute osakond (0,20)
15.09.2019–31.03.2020   
Tartu Ülikool, Loodus- ja täppisteaduste valdkond, arvutiteaduse instituut, bioinformaatika nooremteadur (1,00)
01.09.2018–14.09.2019   
Tartu Ülikool, Loodus- ja täppisteaduste valdkond, arvutiteaduse instituut, bioinformaatika nooremteadur (0,20)
01.08.2018–15.09.2019   
OÜ Quretec, Äriarendusjuht, Kliiniliste uuringute osankond (1,00)
01.06.2018–31.08.2018   
Tartu Ülikool, Loodus- ja täppisteaduste valdkond, arvutiteaduse instituut, bioinformaatika nooremteadur (1,00)
01.06.2018–31.07.2018   
OÜ Quretec, Teadur (0,10)
01.08.2017–31.05.2018   
Tartu Ülikool, Loodus- ja täppisteaduste valdkond, arvutiteaduse instituut, bioinformaatika nooremteadur (0,90)
02.03.2016–12.11.2016   
Tartu Ülikool, Loodus- ja täppisteaduste valdkond, arvutiteaduse instituut, bioinformaatika nooremteadur (0,90)
01.01.2016–01.03.2016   
Tartu Ülikool, Loodus- ja täppisteaduste valdkond, arvutiteaduse instituut, bioinformaatika nooremteadur (0,90)
01.08.2014–31.12.2015   
Tartu Ülikool, Matemaatika-informaatikateaduskond, Arvutiteaduse instituut, bioinformaatika nooremteadur (0,90)
01.09.2013–31.05.2018   
OÜ Quretec, Teadur (1,00)
01.07.2012–30.06.2013   
Tartu Ülikool, Matemaatika-informaatikateaduskond, Arvutiteaduse instituut, programmeerija (0,20)
01.01.2009–31.12.2010   
OJSC MegaFon, Roaming Specialist
01.01.2008–31.12.2009   
Raadionavigatsiooni ja Aja Instituut, Insener-projekteerija (1,00)
01.01.2006–31.12.2008   
Svetlana JSC, Insener-projekteerija (1,00)
01.01.2004–31.12.2005   
Leningradi Raadio Teadus- ja Arengu Instituut, insener-projekteerija (1,00)
 
 
Haridustee
2010–2019   
Tartu Ulikool, Doktorikraad (informaatika)
2006–2008   
Peterburi Telekommunikatsiooni Riiklik Ulikool, MSc telekommunikatsioonis (cum laude, praktiline vaartus on tunnustatud)
2002–2006   
Peterburi Telekommunikatsiooni Riiklik  Ulikool, BSc telekommunikatsioonis (cum laude)
 
 
Teadusorganisatsiooniline ja -administratiivne tegevus
2020−...   
Since april 2020 I am acting as a software development quality manager in the project Application of Personalized Medicine in Estonia. I this role I am contributing to the development of medical device to identify patient pharmacogenetic phenotype.
2020−...   
Acting as a peer-reviewer for scientific publication in PlosOne Computational Biology.
2016−...   
Software and data carpentry instructor
2019−2019   
Acting as a scientific peer-reviewer for RECOMB 2020 conference publication.
2017−2020   
SZ_TEST EU H2020 project: Leading the project from Quretec Ltd.
2017−2018   
Antibody humanisation PERMIDES EU H2020 project: Leading the team developing a novel algorithm for antibody humanization. Communicating and reporting to EU.
2012−2017   
AgedBrainSYSBIO EU FP7 project: Leading project scientific work package on networks integration. Reporting to the EU comission.
 
 
Loometöö
2020–2021 (DataClinic Erasmus+).
2021 (Online, Institute of computer science, University of Tartu) https://courses.cs.ut.ee/2021/tehisintellekti_algkursus/spring.
2020 (Online, Institute of Computer Science, University of Tartu) https://courses.cs.ut.ee/2020/atva/fall.
2020 (Online, Institute of Computer Science, University of Tartu) https://courses.cs.ut.ee/2020/Tehisintellekti_algkursus/spring.
2017 (Tartu, Institute of Computer Science, University of Tartu) http://sidh2017.ut.ee/.
1.International Education Fair, Saint Petersburg; representative of the University of Tartu together with Marget Taivere (International Marketing Specialist, UT)
.
 
 
Lisainfo
Invited speaker at
19 th European Conference on
Computational Biology workshop BioNetVisA: biological network reconstruction, data visualization and analysis in biology and medicine
Bioinnovation days 2019: hackathon on health active aging, healthy food and biosustainability (Estonia).
Team Epifox (team lead Elena Sügis), Tartu, Estonia
ISCB membership (International Society for Computational Biology) http://www.iscb.org/
ISCB Student Council membership.

Kvalifikatsioon

 
 
Teadustöö põhisuunad
ETIS KLASSIFIKAATOR: 4. Loodusteadused ja tehnika; 4.6. Arvutiteadused
ETIS KLASSIFIKAATOR: 3. Terviseuuringud; 3.11. Terviseuuringutega seotud uuringud, näiteks biokeemia, geneetika, mikrobioloogia, biotehnoloogia, molekulaarbioloogia, rakubioloogia, biofüüsika ja bioinformaatika; CERCS KLASSIFIKAATOR: B110 Bioinformaatika, meditsiiniinformaatika, biomatemaatika, biomeetrika
 
 
Lisainfo
Research experience and participation in the collaborative projects:

AgedBrainSYSBIO EU FP7 project (2012 – 2017):
•Leading data integration and network analysis work package.
•Multi-omics integration method development (R, Python, igraph, bash, Unix).
•Database web interface development (R Shiny web-framework, JS, other resources APIs).
•Developing graph convolutional networks-based method application for heterogeneous graphs (R, Python).
•Statistical analysis of large diverse biological data sets (running analysis on HPC server).
•Node classification in heterogeneous graphs using graph convolutional networks, i.e. deep-learning for graph structures.
•Community detection tasks (R language, igraph, cytoscape,web-based tools).
•Omics integration in Alzheimer's disease.
•Communicating and reporting to EU.
Antibody humanisation PERMIDES EU H2020 project (2017 – 2018):
•Leading the team developing a novel algorithm for antibody humanization.
•Communicating and reporting to EU.
SZ_TEST EU H2020 project (2017 – 2020):
•Leading the project from Quretec Ltd.
•Communicating and reporting to EU.
Psoriasis study with Tartu University Dermatology Clinic (2015-2017):
•Statistical analysis of psoriasis patients' data in the clinical immunology-related study.
•Developing a statistical model for patient phenotype classification (R language).
•Develop a data integration approach to investigate the pathogenesis of psoriasis.
•Preparing figures for the publication.
Impact of the toxic compound on early embryo development (2012-2015):
•Statistical analysis and data integration for improvement of toxicity testing strategies (R language).
•Applying supervised machine learning to develop a model for the classification of toxic compounds (R language).
•Machine learning and hypothesis testing tasks in drug toxicity testing EU project ESNATS (FP6).
Embryonic Stem Cell Database (2010-2011):
Adding new data types and developing new web interface for embryonic stem cell database (ESCD).

Jooksvad projektid

Lõppenud projektid

Publikatsioonid

Klass
Aasta
Publikatsioon
 
1.1.
2019
2.3.
2019
1.1.
2017
1.1.
2015
3.5.
2013
1.1.
2012
3.5.
2012
3.5.
2011
3.5.
2011
3.5.
2010
19.07.2021
29.12.1984
elena.sugis@ut.ee

Career

Institutions and positions
01.08.2021–...   
University of Tartu, Faculty of Science and Technology, Institute of Computer Science, Lecturer in Health Informatics (1,00)
01.03.2020–...   
Quretec Ltd, Bioinformatics researcher (0,10)
01.04.2020–31.07.2021   
University of Tartu, Faculty of Science and Technology, Institute of Computer Science, Research Fellow of Bioinformatics (1,00)
16.09.2019–29.02.2020   
Quretec Ltd, Business development manager, Department of Clinical Trials (0,20)
15.09.2019–31.03.2020   
University of Tartu, Faculty of Science and Technology, Institute of Computer Science, Junior Research Fellow in Bioinformatics (1,00)
01.09.2018–14.09.2019   
University of Tartu, Faculty of Science and Technology, Institute of Computer Science, Junior Research Fellow in Bioinformatics (0,20)
01.08.2018–15.09.2019   
Quretec Ltd, Business development manager, Department of Clinical Trials (1,00)
01.06.2018–31.08.2018   
University of Tartu, Faculty of Science and Technology, Institute of Computer Science, Junior Research Fellow in Bioinformatics (1,00)
01.06.2018–31.07.2018   
Quretec Ltd, Researcher (0,10)
01.08.2017–31.05.2018   
University of Tartu, Faculty of Science and Technology, Institute of Computer Science, Junior Research Fellow in Bioinformatics (0,90)
02.03.2016–12.11.2016   
University of Tartu, Faculty of Science and Technology, Institute of Computer Science, Junior Research Fellow of Bioinformatics (0,90)
01.01.2016–01.03.2016   
University of Tartu, Faculty of Science and Technology, Institute of Computer Science, Junior Research Fellow of Bioinformatics (0,90)
01.08.2014–31.12.2015   
University of Tartu, Faculty of Mathematics and Computer Science, Institute of Computer Science, Junior Research Fellow of Bioinformatics (0,90)
01.09.2013–31.05.2018   
Quretec Ltd, Researcher (1,00)
01.07.2012–30.06.2013   
University of Tartu, Faculty of Mathematics and Computer Science, Institute of Computer Science, Programmer (0,20)
01.01.2009–31.12.2010   
OJSC MegaFon, Roaming Specialist
01.01.2008–31.12.2009   
Institute of Radionavigation and Time, Design Engineer (1,00)
01.01.2006–31.12.2008   
Svetlana JSC, Design Engineer (1,00)
01.01.2004–31.12.2005   
Leningrad Radio Research and Development Institute, Design Engineer, engineer (1,00)
 
 
Education
2010–2019   
University of Tartu, PhD in computer science
2006–2008   
St.Petersburg state university of telecommunications, Master's Degree of Engineering and technology in the field of Telecommunications(cum laude)
2002–2006   
St.Petersburg state university of telecommunications, Bachelor's Degree of Engineering and technology in the field of Telecommunications (cum laude)
 
 
R&D related managerial and administrative work
2020−...   
Since april 2020 I am acting as a software development quality manager in the project Application of Personalized Medicine in Estonia. I this role I am contributing to the development of medical device to identify patient pharmacogenetic phenotype.
2020−...   
Acting as a peer-reviewer for scientific publication in PlosOne Computational Biology.
2016−...   
Software and data carpentry instructor
2019−2019   
Acting as a scientific peer-reviewer for RECOMB 2020 conference publication.
2017−2020   
SZ_TEST EU H2020 project: Leading the project from Quretec Ltd.
2017−2018   
Antibody humanisation PERMIDES EU H2020 project: Leading the team developing a novel algorithm for antibody humanization. Communicating and reporting to EU.
2012−2017   
AgedBrainSYSBIO EU FP7 project: Leading project scientific work package on networks integration. Reporting to the EU comission.
 
 
Creative work
2020-2021 Designing a MOOC course on Data Literacy for MD PhD students and healthcare professionals for DATAclinic project (2019-2022): Develop competencies and data science skills in healthcare. (DataClinic Erasmus+).
2021 I have led the organization, development of the materials, and conduction of MOOC course "Introduction to artificial intelligence" for business professionals. (Online, Institute of computer science, University of Tartu) https://courses.cs.ut.ee/2021/tehisintellekti_algkursus/spring.
2020 In autumn 2020 I have led the creation and conduction of the MOOC course "Data science for business". The course aimed to introduce the possibilities, best practices and limitations of data science applications for solving business-oriented questions. In autumn 2020 more than 300 business professionals participated in this course. (Online, Institute of Computer Science, University of Tartu) https://courses.cs.ut.ee/2020/atva/fall.
2020 I have led the creation and carrying out of the MOOC course "Introduction to artificial intelligence". The course was created for the general public and did not require prior programming experience or domain knowledge. More than 2000 people participated in the course in spring 2020 (Online, Institute of Computer Science, University of Tartu) https://courses.cs.ut.ee/2020/Tehisintellekti_algkursus/spring.
2017 I participated in organizing and conducting Social Impact Data Hack hackathon (>200 participants), Tartu, Estonia.
Social Impact Data Hack 2017 http://sidh2017.ut.ee/ brought together and mixed people from various fields and challenged them to discover how to impact our society through the use of data. (Tartu, Institute of Computer Science, University of Tartu) http://sidh2017.ut.ee/.
1.International Education Fair, Saint Petersburg; representative of the University of Tartu together with Marget Taivere (International Marketing Specialist, UT).
 
 
Additional information
Invited speaker at
19 th European Conference on
Computational Biology workshop BioNetVisA: biological network reconstruction, data visualization and analysis in biology and medicine
Bioinnovation days 2019: hackathon on health active aging, healthy food and biosustainability (Estonia).
Team Epifox (team lead Elena Sügis), Tartu, Estonia
ISCB membership (International Society for Computational Biology) http://www.iscb.org/
ISCB Student Council membership.

Qualifications

 
 
Honours & awards
2019, Elena Sügis, First place at the Bioinnovation days 2019: hackathon on health active aging, healthy food and biosustainability (Estonia). Team Epifox (lead by Elena Sügis), right to represent Estonia at the international event.
2016, Elena Sügis, Best scientific project at the Bioinformatics Summer School, Saint-Petersburg (supervisor Elena Sügis).
2014, Elena Sügis, Best student project in data mining, Institute of Computer Science, University of Tartu (supervisor Elena Sügis).
 
 
Fields of research
ETIS CLASSIFICATION: 4. Natural Sciences and Engineering; 4.6. Computer Sciences
ETIS CLASSIFICATION: 3. Health; 3.11. Biochemistry, Genetics, Microbiology, Biotechnology, Molecular Biology, Cell Biology, Biophysics and Bioinformatics relating to Health Studies; CERCS CLASSIFICATION: B110 Bioinformatics, medical informatics, biomathematics, biometrics
 
 
Additional information
Research experience and participation in the collaborative projects:

AgedBrainSYSBIO EU FP7 project (2012 – 2017):
•Leading data integration and network analysis work package.
•Multi-omics integration method development (R, Python, igraph, bash, Unix).
•Database web interface development (R Shiny web-framework, JS, other resources APIs).
•Developing graph convolutional networks-based method application for heterogeneous graphs (R, Python).
•Statistical analysis of large diverse biological data sets (running analysis on HPC server).
•Node classification in heterogeneous graphs using graph convolutional networks, i.e. deep-learning for graph structures.
•Community detection tasks (R language, igraph, cytoscape,web-based tools).
•Omics integration in Alzheimer's disease.
•Communicating and reporting to EU.
Antibody humanisation PERMIDES EU H2020 project (2017 – 2018):
•Leading the team developing a novel algorithm for antibody humanization.
•Communicating and reporting to EU.
SZ_TEST EU H2020 project (2017 – 2020):
•Leading the project from Quretec Ltd.
•Communicating and reporting to EU.
Psoriasis study with Tartu University Dermatology Clinic (2015-2017):
•Statistical analysis of psoriasis patients' data in the clinical immunology-related study.
•Developing a statistical model for patient phenotype classification (R language).
•Develop a data integration approach to investigate the pathogenesis of psoriasis.
•Preparing figures for the publication.
Impact of the toxic compound on early embryo development (2012-2015):
•Statistical analysis and data integration for improvement of toxicity testing strategies (R language).
•Applying supervised machine learning to develop a model for the classification of toxic compounds (R language).
•Machine learning and hypothesis testing tasks in drug toxicity testing EU project ESNATS (FP6).
Embryonic Stem Cell Database (2010-2011):
Adding new data types and developing new web interface for embryonic stem cell database (ESCD).

Projects in progress

Supervised dissertations

Publications

Category
Year
Publication
 
1.1.
2019
2.3.
2019
1.1.
2017
1.1.
2015
3.5.
2013
1.1.
2012
3.5.
2012
3.5.
2011
3.5.
2011
3.5.
2010
19.07.2021