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The ERA Chair for Translational Genomics and Personalized Medicine

Deliverables

Training materials for internal workshops

The ERA Chair and staff will conduct seminars and workshops within the unit and with those from other departments when relevant – such as to transmit knowledge gained from study trips.

ERA Chair Contract Executed

The legal framework for employing people is provided by the respective rules of the University. Once selected, the vice rector of UT will sign the job contract. The ERA Chair will be paid at a rate comparable to the EU average for top level researchers

Training materials for 8 seminars on genomics research and clinical genomics

Training materials for 8 seminars on genomics research and clinical genomics Months 20, 25, 32, 37, 44, 49, 56, 60.

Materials for 10 public workshops for the general public

Materials for 10 public workshops for the general public

UT TG Research Integration Plan

The ERA chair will visit and meet with staff from related units to gain a better understanding of how the different staff and departments work with each other. Based upon this observation and analysis, the ERA chair will develop recommendations for how research efforts could be better coordinated so that overall results and quality are improved. This includes integration of equipment, workflow, proposal development, etc.

Research team Contracts Executed

Most of the research team will also be involved in WP4 and WP5 activities (Teaching and Dissemination), so decisions will be based both on their overall potential as researchers as well as demonstrated creativity and level of independence based upon a wide range of evaluation criteria, including publications, experience in teaching, supervision, and working with teams. An interest beyond lab work will also be evaluated, including a willingness to participate in knowledge transfer and public awareness activities (described further in WP5). Any experience working on the commercialization of research will also be considered.

Updated Dissemination and Exploitation Plan

Updated Dissemination and Exploitation Plan Month 30 and 60

PhD Curriculum for Translational Genomics

The ERA Chair will recruit foreign experts to teach doctoral courses/seminars and to supervise theses. the PhD curriculum on Translational Genomics will be approved by the University Board Curricula will be designed in cooperation with several different UT departments, including the UT Faculties of Medicine and Science/Technology (Institute of Molecular and Cell Biology); the Graduate School in Biomedicine and Biotechnology (a collaboration between UT the Estonian University of Life Sciences and the Tallinn University of Technology); the Estonian Genome Centre and 3 Centres of Excellence (Genomics, Translational Medicine and Computer Science) Research being undertaken in the ERA Chair lab will be integrated into course work as much as possible and students will be given opportunities to conduct ’hands on’ research

Annual progress report 1

The Management Board will review quarterly internal progress reports submitted by the Project Coordinator, the ERA Chair and the Executive Committee in terms of the science, budget and program objectives. Annual progress reports will be generated for the funder.

Annual progress report 5

The Management Board will review quarterly internal progress reports submitted by the Project Coordinator, the ERA Chair and the Executive Committee in terms of the science, budget and program objectives. Annual progress reports will be generated for the funder

Training manuals for 3 international summer schools

Training manuals for 3 international summer schools (Months 28,40 52)

Data Management Plan

The DMP will follow the template set by Horizon 2020 and include sections for each data set developed, including the data set name and description; Standards and metadata; Data sharing and Archiving and preservation. In so doing, the DMP will ensure that scientific research data produced by the ERA Chair will be discoverable, accessible, intelligible, have as many uses as possible and have a high standard of interoperability.

6 EU funding applications (3 as lead)

Based upon the direction of research efforts, the ERA Chair will put together at least 3 applications for funding at the EU level for which he/she is the principle investigator. The ERA Chair will also submit applications for funding at the national level. The ERA Chair will use their contacts to make partnerships with other Translational Genomic centres in Europe and seek to be included in larger funding proposals.

Report on ERA Chair employment

D2.5 Report on ERA Chair employment, month 9

Annual progress report 4

The Management Board will review quarterly internal progress reports submitted by the Project Coordinator, the ERA Chair and the Executive Committee in terms of the science, budget and program objectives. Annual progress reports will be generated for the funder

Research team job descriptions

The ERA Chair will, with the support of the Project Coordinator, create job listings that include a full description of the working conditions and benefits including career development prospects as well as the recruitment process, selection criteria, the number of available positions and the career development prospects. Postings will be advertised locally in Estonian public newspapers and the ETIS online information system; internationally via Nature Magazine, the Euraxxes website and through our scientific network.

Annual progress report 3

The Management Board will review quarterly internal progress reports submitted by the Project Coordinator, the ERA Chair and the Executive Committee in terms of the science, budget and program objectives. Annual progress reports will be generated for the funder.

Annual progress report 2

The Management Board will review quarterly internal progress reports submitted by the Project Coordinator, the ERA Chair and the Executive Committee in terms of the science, budget and program objectives. Annual progress reports will be generated for the funder

7 syllabi for PhD and Post Doctoral courses

At least 7 syllabi created for courses taught for PhD and Post Doctoral students The ERA Chair will personally teach at least one course per semester beginning in month 16 of the project Curricula will be designed in cooperation with several different UT departments, including the UT Faculties of Medicine and Science/Technology (Institute of Molecular and Cell Biology); the Graduate School in Biomedicine and Biotechnology (a collaboration between UT the Estonian University of Life Sciences and the Tallinn University of Technology); the Estonian Genome Centre and 3 Centres of Excellence (Genomics, Translational Medicine and Computer Science) Research being undertaken in the ERA Chair lab will be integrated into course work as much as possible and students will be given opportunities to conduct ’hands on’ research

Statement on Publications introduced in the reporting tool

D1.2 Statement on Publications introduced in the reporting tool by month 2

At least 20 scientific articles published in peer review journals

The ERA Chair holder will produce peer-reviewed journal articles based upon the results of its research activity. Whenever appropriate, co-authorship with other researchers within the team or with affiliated UT departments will occur. Also, when appropriate, PhD students writing dissertations on related research will be encouraged and given guidance in publishing their work. Both ‘gold’ and ‘green’ open access approaches will be taken, depending on the circumstances

Materials for 25 international scientific presentations

The ERA Chair holder and other members of the research team will attend various international conferences to network and negotiate additional collaborative scientific projects and partnerships. They will promote the methods used and the ultimate findings of the research as both can be important for other researchers in their work. Examples of conferences that will be attended include the European Human Genetics Conference (European Society of Human Genetics); the Estonian Society of Human Genetics annual conference; the International Gene Forum; the Human Variome project meeting; the International Collaboration for Clinical Genomics, Eurobioforum and the PHG Foundation’s P3G annual conferences. During the project, presentations will also be made about the ERA Chair concept and how the University has developed its capacity in translational/clinical genomics as a result.

ERA Chair job description

the ERA Chair position will be advertised according to Estonian Law, the EU Code of Conduct for the recruitment of researchers. DRAFT TEXT: Professional level. The candidate should have experience in a R&D institution for at least 5 years postdoctoral period and produced at least 20 papers during the last 5 years. We seek candidates with the following expertise: - genetics of complex diseases; - genetic epidemiology; - analysis of animal models for complex diseases; - experience in eQTL mapping; Experience in managing a lab, budgeting and a successful track record in project writing are valuable. The successful candidate should set up own research group for the translational genomics focusing of chronic inflammatory epithelial disorders and with major focus on psoriasis, Crohn’s disease and psoriatic arthritis. The candidates’ background does not need to be clinical, major focus should be on the experience on genomics and the analysis of genomics data (family studies, case-control studies, quantitative trait analysis and multifactorial inheritance). Experience in the use and analysis of NGS technologies is necessary. The successful candidate is responsible for setting up the group of translational genomics and will work to turn fundamental genomics into practically applicable solutions, such as in personalized medicine. The Chair is responsible for the generation and leading of the research group of chronic inflammatory epithelial diseases. This task needs collaboration with clinical departments. The Chair will also lead the development of a PhD curriculum in the topic and will undertake teaching and PhD supervision duties. The successful candidate will also be counted on to meet with business clusters, medical doctors, policy makers and other stakeholders to contribute to the advocacy of genomics and its applications in the health and biotechnology sector in Estonia Candidates will be informed about the recruitment process and the selection criteria and be made aware of both the specific responsibilities of this position as well as the general requirements called for by the European Charter for Researchers. We shall target both R3 and R4 level researchers to ensure that an adequate number of applicants apply. Posting the advertisement - The advertisement will be posted in various locations to ensure that a wide range of candidates can be considered. These sources include: • Internationally through publications such as Nature Magazine and on the Euraxxes website • Internationally via our scientific network (i.e. international research partners and members of the international advisory boards that exist for several UT units including the Estonian Genome Centre and the Centre of Translational Genomics). • Locally in Estonian public newspapers and within the Estonian Research Information System (ETIS) - a national register of R&D institutions, researchers, projects and research results. • We also intend to contact higher level researchers from other top Translational Genomics Centres in Europe - including the San Raffaele Institute, the European Centre for Public Health Genomics and the European Infrastructure for Translational Medicine.

Science Museum Exhibit on Genomics

Youth presentations on genomics – Researchers in the ERA Chair team will receive training on presentation skills, specifically for non-expert audiences. Under the supervision of the ERA Chair, researchers will also prepare short presentations and present them in Estonian high schools. The purpose is to promote science and genetics to future university students. AHHAA Exhibit – The ERA Chair will also work with staff from the local science centre in Tartu to create an interactive exhibit that will present genetics in a fun way that addresses both its potential importance and ethical factors.

At least 10 Newspaper articles

We will build up a constructive relationship with Estonian/European journalists interested in scientific and ethical issues raised by the project. Staff will coordinate press releases to disseminate new activities, achieved milestones and important discoveries during the course of the project on a global and local scale.

Materials for 10 presentations to relevant business clusters

The ERA Chair will hold seminars with firms interested in research conducted on personalized medicine and the potential products that might result. Feedback from these meetings will further help the ERA Chair holder in research and product development. These sessions will be organized in particular via the various business clusters that have been formed by Enterprise Estonia as described above. They include the Estonian HealthTech Cluster, the Estonian Health Tourism Cluster, the Estonian Cell Therapy Cluster, the Estonian Sports Medicine Cluster SportEST and the Competence Centre for Cancer Research (CCCR).

Materials for at least 12 workshops held with hospitals, medical students, clinicians and specialists

The ERA Chair will create specialized training for primary care (general practitioners), specialists in genetics, endocrinology, cardiology, oncology and residency students on personalized medicine and based upon the database developed. Workshops will also educate dermatologists, rheumatologists and orthopedic surgeons with up to date information about their specialty and how to put the ERA Chair’s scientific results in clinical practice. Similar trainings will also be held at other hospitals throughout Estonia. These will be organized via the UT Hospital internal training program (Tartu Ülikooli Kliinikum Koolituskeskus) and by collaborating with the Estonian Medical Association (Eesti Arstide Liit).

Re-designed CTG Website

The CTG website will be updated to include information in Estonian and English. News and information about the ERA Chair will be updated regularly. This includes information about workshops and events he/she is participating in, pages introducing the topics of translational genomics and personalized medicine to non-researchers and other relevant information.

Database with 300 animal samples

data from mouse studies (QTL mappings, knockout mice, etc.) as a translational solution for these complex diseases (at least 300 samples).

Database with 1,000 human samples clinical and laboratory data

A comprehensive database and integrative analytical platform employing translational genomics for chronic inflammatory epithelial diseases (CIEDs, psoriasis and Crohn’s disease) with at least 1,000 human samples.

New markers and eQTL loci

Clinical data will be combined with genetic variation, genome transcription and epigenetic alterations are described in great detail (association analysis, gene expression profiling, eQTL mapping, linear modeling, DNA methylation analysis etc.) together with the characterization of metabolomes (final products of the metabolism).

Searching for OpenAIRE data...

Publications

Enhanced Expression of Genes Related to Xenobiotic Metabolism in the Skin of Patients with Atopic Dermatitis but Not with Ichthyosis Vulgaris

Author(s): Stefan Blunder, Sulev Kõks, Gea Kõks, Ene Reimann, Hubert Hackl, Robert Gruber, Verena Moosbrugger-Martinz, Matthias Schmuth, Sandrine Dubrac
Published in: Journal of Investigative Dermatology, 138/1, 2018, Page(s) 98-108, ISSN 0022-202X
Publisher: Blackwell Publishing Inc.
DOI: 10.1016/j.jid.2017.08.036

Mutational analysis of COL1A1 and COL1A2 genes among Estonian osteogenesis imperfecta patients

Author(s): Lidiia Zhytnik, Katre Maasalu, Ene Reimann, Ele Prans, Sulev Kõks, Aare Märtson
Published in: Human Genomics, 11/1, 2017, ISSN 1479-7364
Publisher: Human Genome Organization
DOI: 10.1186/s40246-017-0115-5

Looking beyond the brain to improve the pathogenic understanding of Parkinson’s disease: implications of whole transcriptome profiling of Patients’ skin

Author(s): Anu Planken, Lille Kurvits, Ene Reimann, Liis Kadastik-Eerme, Külli Kingo, Sulev Kõks, Pille Taba
Published in: BMC Neurology, 17/1, 2017, ISSN 1471-2377
Publisher: BioMed Central
DOI: 10.1186/s12883-016-0784-z

Comparison of the Metabolic Syndrome Risk in Valproate-Treated Patients with Epilepsy and the General Population in Estonia

Author(s): Aleksei Rakitin, Triin Eglit, Sulev Kõks, Margus Lember, Sulev Haldre
Published in: PLoS ONE, 19326203, 2014, Page(s) e103856, ISSN 1932-6203
Publisher: Public Library of Science
DOI: 10.1371/journal.pone.0103856

Bovine sperm plasma membrane proteomics through biotinylation and subcellular enrichment

Author(s): Sergo Kasvandik, Gerly Sillaste, Agne Velthut-Meikas, Aavo-Valdur Mikelsaar, Triin Hallap, Peeter Padrik, Tanel Tenson, Ülle Jaakma, Sulev Kõks, Andres Salumets
Published in: PROTEOMICS, 16159853, 2015, Page(s) 1906-1920, ISSN 1615-9853
Publisher: John Wiley & Sons Ltd.
DOI: 10.1002/pmic.201400297

Silencing of the WFS1 gene in HEK cells induces pathways related to neurodegeneration and mitochondrial damage

Author(s): S. Koks, R. W. Overall, M. Ivask, U. Soomets, M. Guha, E. Vasar, C. Fernandes, L. C. Schalkwyk
Published in: Physiological Genomics, 10948341, 2013, Page(s) 182-190, ISSN 1094-8341
Publisher: American Physiological Society
DOI: 10.1152/physiolgenomics.00122.2012

Analysis of genetic variants of class II cytokine and their receptor genes in psoriasis patients of two ethnic groups from the Volga-Ural region of Russia

Author(s): Elvira Galimova, Vita Akhmetova, Boris Latipov, Külli Kingo, Ranno Rätsep, Tanel Traks, Sulev Kõks, Elza Khusnutdinova
Published in: Journal of Dermatological Science, 09231811, 2012, Page(s) 9-18, ISSN 0923-1811
Publisher: Elsevier BV
DOI: 10.1016/j.jdermsci.2012.07.002

MicroRNA-146a alleviates chronic skin inflammation in atopic dermatitis through suppression of innate immune responses in keratinocytes

Author(s): Ana Rebane, Toomas Runnel, Alar Aab, Julia Maslovskaja, Beate Rückert, Maya Zimmermann, Mario Plaas, Jaanika Kärner, Angela Treis, Maire Pihlap, Uku Haljasorg, Helen Hermann, Nikoletta Nagy, Lajos Kemeny, Triin Erm, Külli Kingo, Mei Li, Mark P. Boldin, Cezmi A. Akdis
Published in: Journal of Allergy and Clinical Immunology, 00916749, 2014, Page(s) 836-847.e11, ISSN 0091-6749
Publisher: Mosby Inc.
DOI: 10.1016/j.jaci.2014.05.022

Quality of Life and Emotional State in Vitiligo in an Estonian Sample: Comparison with Psoriasis and Healthy Controls

Author(s): M Karelson, H Silm, K Kingo
Published in: Acta Dermato Venereologica, 00015555, 2013, Page(s) 446-450, ISSN 0001-5555
Publisher: Taylor & Francis
DOI: 10.2340/00015555-1520

85 LOW-MOLECULAR-WEIGHT METABOLITES IN BOVINE IN VITRO PRODUCTION CULTURE MEDIA AS EMBRYO QUALITY MARKERS

Author(s): M. N�mm, E. Mark, K. Kilk, S. K�ks, �. Jaakma
Published in: Reproduction, Fertility and Development, 10313613, 2015, Page(s) 135, ISSN 1031-3613
Publisher: Commonwealth Scientific and Industrial Research Organization Publishing
DOI: 10.1071/RDv27n1Ab85

Enhanced meta-analysis and replication studies identify five new psoriasis susceptibility loci

Author(s): Lam C. Tsoi, Sarah L. Spain, Eva Ellinghaus, Philip E. Stuart, Francesca Capon, Jo Knight, Trilokraj Tejasvi, Hyun M. Kang, Michael H. Allen, Sylviane Lambert, Stefan W. Stoll, Stephan Weidinger, Johann E. Gudjonsson, Sulev Koks, Külli Kingo, Tonu Esko, Sayantan Das, Andres Metspalu, Michael Weichenthal, Charlotta Enerback, Gerald G. Krueger, John J. Voorhees, Vinod Chandran, Cheryl F. Rosen, Proton Rahman, Dafna D. Gladman, Andre Reis, Rajan P. Nair, Andre Franke, Jonathan N.W.N. Barker, Goncalo R. Abecasis, Richard C. Trembath, James T. Elder
Published in: Nature Communications, 20411723, 2015, Page(s) 7001, ISSN 2041-1723
Publisher: Nature Publishing Group
DOI: 10.1038/ncomms8001

Genome-Wide Meta-Analysis of Psoriatic Arthritis Identifies Susceptibility Locus at REL

Author(s): Eva Ellinghaus, Philip E. Stuart, David Ellinghaus, Rajan P. Nair, Sophie Debrus, John V. Raelson, Majid Belouchi, Trilokraj Tejasvi, Yanming Li, Lam C. Tsoi, Anna T. Onken, Tonu Esko, Andres Metspalu, Proton Rahman, Dafna D. Gladman, Anne M. Bowcock, Cynthia Helms, Gerald G. Krueger, Sulev Koks, Külli Kingo, Christian Gieger, H. Erich Wichmann, Ulrich Mrowietz, Stephan Weidinger, Stefan Schreiber, Gonçalo R. Abecasis, James T. Elder, Michael Weichenthal, Andre Franke
Published in: Journal of Investigative Dermatology, 0022202X, 2012, Page(s) 1133-1140, ISSN 0022-202X
Publisher: Blackwell Publishing Inc.
DOI: 10.1038/jid.2011.415

Expression Profile of Genes Associated with the Dopamine Pathway in Vitiligo Skin Biopsies and Blood Sera

Author(s): Ene Reimann, Külli Kingo, Maire Karelson, Paula Reemann, Ulvi Loite, Maris Keermann, Kristi Abram, Eero Vasar, Helgi Silm, Sulev Kõks
Published in: Dermatology, 10188665, 2012, Page(s) 168-176, ISSN 1018-8665
Publisher: S. Karger AG
DOI: 10.1159/000338023

Transcriptome analysis of osteosarcoma identifies suppression of wnt pathway and up-regulation of adiponectin as potential biomarker

Author(s): Aare Märtson, Sulev Kõks, Ene Reimann, Ele Prans, Triin Erm, Katre Maasalu
Published in: Genomics Discovery, 20527993, 2013, Page(s) 3, ISSN 2052-7993
Publisher: Herbert Open Access Journals
DOI: 10.7243/2052-7993-1-3

Transcriptional landscape of psoriasis identifies the involvement of IL36 and IL36RN

Author(s): Maris Keermann, Sulev Kõks, Ene Reimann, Ele Prans, Kristi Abram, Külli Kingo
Published in: BMC Genomics, 14712164, 2015, ISSN 1471-2164
Publisher: BioMed Central
DOI: 10.1186/s12864-015-1508-2

Effect of glucose content on thermally cross-linked fibrous gelatin scaffolds for tissue engineering

Author(s): Kaido Siimon, Paula Reemann, Annika Põder, Martin Pook, Triin Kangur, Külli Kingo, Viljar Jaks, Uno Mäeorg, Martin Järvekülg
Published in: Materials Science and Engineering: C, 09284931, 2014, Page(s) 538-545, ISSN 0928-4931
Publisher: Elsevier BV
DOI: 10.1016/j.msec.2014.05.075

Fibroblast growth on micro- and nanopatterned surfaces prepared by a novel sol–gel phase separation method

Author(s): Paula Reemann, Triin Kangur, Martin Pook, Madis Paalo, Liis Nurmis, Ilmar Kink, Orm Porosaar, Külli Kingo, Eero Vasar, Sulev Kõks, Viljar Jaks, Martin Järvekülg
Published in: Journal of Materials Science: Materials in Medicine, 09574530, 2013, Page(s) 783-792, ISSN 0957-4530
Publisher: Kluwer Academic Publishers
DOI: 10.1007/s10856-012-4829-6

WITHDRAWN: TNF-Related Apoptosis-Inducing Ligand TRAIL as a Potential Biomarker for Early Pregnancy Complications

Author(s): K. Rull, K. Tomberg, S. Koks, J. Mannik, M. Mols, M. Sirotkina, S. Varv, M. Laan
Published in: Journal of Clinical Endocrinology & Metabolism, 0021972X, 2012, ISSN 0021-972X
Publisher: The Endocrine Society
DOI: 10.1210/jc.2011-3192

Gene Expression Analysis of the Corticotrophin-releasing Hormone-proopiomelanocortin System in Psoriasis Skin Biopsies

Author(s): U Loite, K Kingo, E Reimann, P Reemann, E Vasar, H Silm, S Kõks
Published in: Acta Dermato Venereologica, 00015555, 2013, Page(s) 400-405, ISSN 0001-5555
Publisher: Taylor & Francis
DOI: 10.2340/00015555-1524

The broad spectrum of interepithelial junctions in skin and lung

Author(s): Jeannette I. Kast, Kerstin Wanke, Michael B. Soyka, Paulina Wawrzyniak, Deniz Akdis, Külli Kingo, Ana Rebane, Cezmi A. Akdis
Published in: Journal of Allergy and Clinical Immunology, 00916749, 2012, Page(s) 544-547.e4, ISSN 0091-6749
Publisher: Mosby Inc.
DOI: 10.1016/j.jaci.2012.04.044

Deletion of the Lsamp gene lowers sensitivity to stressful environmental manipulations in mice

Author(s): Jürgen Innos, Mari-Anne Philips, Sirli Raud, Kersti Lilleväli, Sulev Kõks, Eero Vasar
Published in: Behavioural Brain Research, 01664328, 2012, Page(s) 74-81, ISSN 0166-4328
Publisher: Elsevier BV
DOI: 10.1016/j.bbr.2011.11.033

Sequencing and annotated analysis of full genome of Holstein breed bull

Author(s): Sulev Kõks, Ene Reimann, Rutt Lilleoja, Freddy Lättekivi, Andres Salumets, Paula Reemann, Ülle Jaakma
Published in: Mammalian Genome, 09388990, 2014, Page(s) 363-373, ISSN 0938-8990
Publisher: Springer Verlag
DOI: 10.1007/s00335-014-9511-5

Polymorphisms in the ATG16L1 Gene are Associated with Psoriasis Vulgaris

Author(s): K Douroudis, K Kingo, T Traks, E Reimann, K Raud, R Rätsep, R Mössner, H Silm, E Vasar, S Kõks
Published in: Acta Dermato Venereologica, 00015555, 2012, Page(s) 85-87, ISSN 0001-5555
Publisher: Taylor & Francis
DOI: 10.2340/00015555-1183

The mRNA expression profile of cytokines connected to the regulation of melanocyte functioning in vitiligo skin biopsy samples and peripheral blood mononuclear cells

Author(s): Ene Reimann, Külli Kingo, Maire Karelson, Paula Reemann, Ulvi Loite, Helen Sulakatko, Maris Keermann, Kristi Raud, Kristi Abram, Eero Vasar, Helgi Silm, Sulev Kõks
Published in: Human Immunology, 01988859, 2012, Page(s) 393-398, ISSN 0198-8859
Publisher: Elsevier BV
DOI: 10.1016/j.humimm.2012.01.011

Energy Metabolism and Thyroid Function of Mice with Deleted Wolframin (Wfs1) Gene

Author(s): K. Noormets, S. Kõks, M. Ivask, M. Aunapuu, A. Arend, E. Vasar, V. Tillmann
Published in: Experimental and Clinical Endocrinology & Diabetes, 09477349, 2014, Page(s) 281-286, ISSN 0947-7349
Publisher: Johann Ambrosius Barth
DOI: 10.1055/s-0034-1372582

Associations between LSAMP gene polymorphisms and major depressive disorder and panic disorder

Author(s): K Koido, T Traks, R Balõtšev, T Eller, A Must, S Koks, E Maron, I Tõru, J Shlik, V Vasar, E Vasar
Published in: Translational Psychiatry, 21583188, 2012, Page(s) e152, ISSN 2158-3188
Publisher: Nature Publishing Group
DOI: 10.1038/tp.2012.74

Wfs1-deficient mice display altered function of serotonergic system and increased behavioral response to antidepressants

Author(s): Tanel Visnapuu, Sirli Raud, Maarja Loomets, Riin Reimets, Silva Sütt, Hendrik Luuk, Mario Plaas, Sulev Kõks, Vallo Volke, Aet Alttoa, Jaanus Harro, Eero Vasar
Published in: Frontiers in Neuroscience, 1662453X, 2013, ISSN 1662-453X
Publisher: Frontiers
DOI: 10.3389/fnins.2013.00132

Lsamp–/– mice display lower sensitivity to amphetamine and have elevated 5-HT turnover

Author(s): Jürgen Innos, Este Leidmaa, Mari-Anne Philips, Silva Sütt, Aet Alttoa, Jaanus Harro, Sulev Kõks, Eero Vasar
Published in: Biochemical and Biophysical Research Communications, 0006291X, 2013, Page(s) 413-418, ISSN 0006-291X
Publisher: Academic Press
DOI: 10.1016/j.bbrc.2012.11.077

Evidence for impaired function of dopaminergic system in Wfs1-deficient mice

Author(s): Tanel Visnapuu, Mario Plaas, Riin Reimets, Sirli Raud, Anton Terasmaa, Sulev Kõks, Silva Sütt, Hendrik Luuk, Christian Ansgar Hundahl, Kattri-Liis Eskla, Alina Altpere, Aet Alttoa, Jaanus Harro, Eero Vasar
Published in: Behavioural Brain Research, 01664328, 2013, Page(s) 90-99, ISSN 0166-4328
Publisher: Elsevier BV
DOI: 10.1016/j.bbr.2013.01.046

Rimonabant attenuates amphetamine sensitisation in a CCK2 receptor-dependent manner

Author(s): Kertu Rünkorg, Laura Orav, Sulev Kõks, Toshimitsu Matsui, Vallo Volke, Eero Vasar
Published in: Behavioural Brain Research, 01664328, 2012, Page(s) 335-339, ISSN 0166-4328
Publisher: Elsevier BV
DOI: 10.1016/j.bbr.2011.09.005

Quality of Life and Emotional State in Chronic Skin Disease

Author(s): E Pärna, A Aluoja, K Kingo
Published in: Acta Dermato Venereologica, 00015555, 2015, Page(s) 312-316, ISSN 0001-5555
Publisher: Taylor & Francis
DOI: 10.2340/00015555-1920

Whole Transcriptome Analysis (RNA Sequencing) of Peripheral Blood Mononuclear Cells of Vitiligo Patients

Author(s): E. Reimann, K. Kingo, M. Karelson, P. Reemann, E. Vasar, H. Silm, S. Kõks
Published in: Dermatopathology, 22963529, 2014, Page(s) 11-23, ISSN 2296-3529
Publisher: Karger
DOI: 10.1159/000357402

Peripheral blood RNA gene expression profiling in patients with bacterial meningitis

Author(s): Margit Lill, Sulev Kõks, Ursel Soomets, Leonard C. Schalkwyk, Cathy Fernandes, Irja Lutsar, Pille Taba
Published in: Frontiers in Neuroscience, 16624548, 2013, ISSN 1662-4548
Publisher: Frontiers Research Foundation
DOI: 10.3389/fnins.2013.00033

Trib3 Is Developmentally and Nutritionally Regulated in the Brain but Is Dispensable for Spatial Memory, Fear Conditioning and Sensing of Amino Acid-Imbalanced Diet

Author(s): Tiit Örd, Jürgen Innos, Kersti Lilleväli, Triin Tekko, Silva Sütt, Daima Örd, Sulev Kõks, Eero Vasar, Tõnis Örd
Published in: PLoS ONE, 19326203, 2014, Page(s) e94691, ISSN 1932-6203
Publisher: Public Library of Science
DOI: 10.1371/journal.pone.0094691

Differences between familial and sporadic cases of vitiligo

Author(s): M. Karelson, H. Silm, T. Salum, S. Kõks, K. Kingo
Published in: Journal of the European Academy of Dermatology and Venereology, 09269959, 2012, Page(s) 915-918, ISSN 0926-9959
Publisher: Elsevier BV
DOI: 10.1111/j.1468-3083.2011.04131.x

Mechanisms of IFN-γ–induced apoptosis of human skin keratinocytes in patients with atopic dermatitis

Author(s): Ana Rebane, Maya Zimmermann, Alar Aab, Hansjörg Baurecht, Andrea Koreck, Maire Karelson, Kristi Abram, Tauno Metsalu, Maire Pihlap, Norbert Meyer, Regina Fölster-Holst, Nikoletta Nagy, Lajos Kemeny, Külli Kingo, Jaak Vilo, Thomas Illig, Mübeccel Akdis, Andre Franke, Natalija Novak, Stephan Weidinger, Cezmi A. Akdis
Published in: Journal of Allergy and Clinical Immunology, 00916749, 2012, Page(s) 1297-1306, ISSN 0091-6749
Publisher: Mosby Inc.
DOI: 10.1016/j.jaci.2012.02.020

Sequencing and annotated analysis of an Estonian human genome

Author(s): Rutt Lilleoja, Aili Sarapik, Ene Reimann, Paula Reemann, Ülle Jaakma, Eero Vasar, Sulev Kõks
Published in: Gene, 03781119, 2012, Page(s) 69-76, ISSN 0378-1119
Publisher: Elsevier BV
DOI: 10.1016/j.gene.2011.11.022

Whole exome sequencing of a single osteosarcoma case—integrative analysis with whole transcriptome RNA-seq data

Author(s): Ene Reimann, Sulev Kõks, Xuan Dung Ho, Katre Maasalu, Aare Märtson
Published in: Human Genomics, 14797364, 2014, ISSN 1479-7364
Publisher: BioMed Central Ltd
DOI: 10.1186/s40246-014-0020-0

Identification of 15 new psoriasis susceptibility loci highlights the role of innate immunity

Author(s): Lam C Tsoi, Sarah L Spain, Jo Knight, Eva Ellinghaus, Philip E Stuart, Francesca Capon, Jun Ding, Yanming Li, Trilokraj Tejasvi, Johann E Gudjonsson, Hyun M Kang, Michael H Allen, Ross McManus, Giuseppe Novelli, Lena Samuelsson, Joost Schalkwijk, Mona Ståhle, A David Burden, Catherine H Smith, Michael J Cork, Xavier Estivill, Anne M Bowcock, Gerald G Krueger, Wolfgang Weger, Jane Worthington, Rachid Tazi-Ahnini, Frank O Nestle, Adrian Hayday, Per Hoffmann, Juliane Winkelmann, Cisca Wijmenga, Cordelia Langford, Sarah Edkins, Robert Andrews, Hannah Blackburn, Amy Strange, Gavin Band, Richard D Pearson, Damjan Vukcevic, Chris C A Spencer, Panos Deloukas, Ulrich Mrowietz, Stefan Schreiber, Stephan Weidinger, Sulev Koks, Külli Kingo, Tonu Esko, Andres Metspalu, Henry W Lim, John J Voorhees, Michael Weichenthal, H Erich Wichmann, Vinod Chandran, Cheryl F Rosen, Proton Rahman, Dafna D Gladman, Christopher E M Griffiths, Andre Reis, Juha Kere, Kristina Callis Duffin, Cindy Helms, David Goldgar, Yun Li, Justin Paschall, Mary J Malloy, Clive R Pullinger, John P Kane, Jennifer Gardner, Amy Perlmutter, Andrew Miner, Bing Jian Feng, Ravi Hiremagalore, Robert W Ike, Enno Christophers, Tilo Henseler, Andreas Ruether, Steven J Schrodi, Sampath Prahalad, Stephen L Guthery, Judith Fischer, Wilson Liao, Pui Kwok, Alan Menter, G Mark Lathrop, C Wise, Ann B Begovich, Alexandros Onoufriadis, Michael E Weale, Angelika Hofer, Wolfgang Salmhofer, Peter Wolf, Kati Kainu, Ulpu Saarialho-Kere, Sari Suomela, Petra Badorf, Ulrike Hüffmeier, Werner Kurrat, Wolfgang Küster, Jesús Lascorz, Rotraut Mössner, Funda Schürmeier-Horst, Markward Ständer, Heiko Traupe, Judith G M Bergboer, Martin den Heijer, Peter C van de Kerkhof, Patrick L J M Zeeuwen, Louise Barnes, Linda E Campbell, Caitriona Cusack, Ciara Coleman, Judith Conroy, Sean Ennis, Oliver Fitzgerald, Phil Gallagher, Alan D Irvine, Brian Kirby, Trevor Markham, W H Irwin McLean, Joe McPartlin, Sarah F Rogers, Anthony W Ryan, Agnieszka Zawirska, Emiliano Giardina, Tiziana Lepre, Carlo Perricone, Gemma Martín-Ezquerra, Ramon M Pujol, Eva Riveira-Munoz, Annica Inerot, Åsa T Naluai, Lotus Mallbris, Katarina Wolk, Joyce Leman, Anne Barton, Richard B Warren, Helen S Young, Isis Ricano-Ponce, Gosia Trynka, Fawnda J Pellett, Andrew Henschel, Marin Aurand, Bruce Bebo, Christian Gieger, Thomas Illig, Susanne Moebus, Karl-Heinz Jöckel, Raimund Erbel, Peter Donnelly, Leena Peltonen, Jenefer M Blackwell, Elvira Bramon, Matthew A Brown, Juan P Casas, Aiden Corvin, Nicholas Craddock, Audrey Duncanson, Janusz Jankowski, Hugh S Markus, Christopher G Mathew, Mark I McCarthy, Colin N A Palmer, Robert Plomin, Anna Rautanen, Stephen J Sawcer, Nilesh Samani, Ananth C Viswanathan, Nicholas W Wood, Céline Bellenguez, Colin Freeman, Garrett Hellenthal, Eleni Giannoulatou, Matti Pirinen, Zhan Su, Sarah E Hunt, Rhian Gwilliam, Suzannah J Bumpstead, Serge Dronov, Matthew Gillman, Emma Gray, Naomi Hammond, Alagurevathi Jayakumar, Owen T McCann, Jennifer Liddle, Marc L Perez, Simon C Potter, Radhi Ravindrarajah, Michelle Ricketts, Matthew Waller, Paul Weston, Sara Widaa, Pamela Whittaker, Rajan P Nair, Andre Franke, Jonathan N W N Barker, Goncalo R Abecasis, James T Elder, Richard C Trembath
Published in: Nature Genetics, 10614036, 2012, Page(s) 1341-1348, ISSN 1061-4036
Publisher: Nature Publishing Group
DOI: 10.1038/ng.2467

The incidence-based and pathogen-based disability-adjusted life-years approach for measuring infectious disease burden in Europe: the Burden of Communicable Diseases in Europe (BCoDE) project

Author(s): Dietrich Plass, Marie-Josée J Mangen, Arie H Havelaar, Cheryl Gibbons, Juanita Haagsma, Beate Jahn, Taavi Lai, Alies van Lier, Silvia Longhi, Scott A McDonald, Alexander Kraemer, Piotr Kramarz, Alessandro Cassini, Mirjam E Kretzschmar
Published in: The Lancet, 01406736, 2013, Page(s) S114, ISSN 0140-6736
Publisher: The Lancet Publishing Group
DOI: 10.1016/S0140-6736(13)61368-9

Copy number variations in IL22 gene are associated with Psoriasis vulgaris

Author(s): Ele Prans, Külli Kingo, Tanel Traks, Helgi Silm, Eero Vasar, Sulev Kõks
Published in: Human Immunology, 01988859, 2013, Page(s) 792-795, ISSN 0198-8859
Publisher: Elsevier BV
DOI: 10.1016/j.humimm.2013.01.006

Melanocytes in the Skin – Comparative Whole Transcriptome Analysis of Main Skin Cell Types

Author(s): Paula Reemann, Ene Reimann, Sten Ilmjärv, Orm Porosaar, Helgi Silm, Viljar Jaks, Eero Vasar, Külli Kingo, Sulev Kõks
Published in: PLoS ONE, 19326203, 2014, Page(s) e115717, ISSN 1932-6203
Publisher: Public Library of Science
DOI: 10.1371/journal.pone.0115717

Mid-Gestational Gene Expression Profile in Placenta and Link to Pregnancy Complications

Author(s): Liis Uusküla, Jaana Männik, Kristiina Rull, Ave Minajeva, Sulev Kõks, Pille Vaas, Pille Teesalu, Jüri Reimand, Maris Laan
Published in: PLoS ONE, 19326203, 2012, Page(s) e49248, ISSN 1932-6203
Publisher: Public Library of Science
DOI: 10.1371/journal.pone.0049248

Combined Analysis of Genome-wide Association Studies for Crohn Disease and Psoriasis Identifies Seven Shared Susceptibility Loci

Author(s): David Ellinghaus, Eva Ellinghaus, Rajan P. Nair, Philip E. Stuart, Tõnu Esko, Andres Metspalu, Sophie Debrus, John V. Raelson, Trilokraj Tejasvi, Majid Belouchi, Sarah L. West, Jonathan N. Barker, Sulev Kõks, Külli Kingo, Tobias Balschun, Orazio Palmieri, Vito Annese, Christian Gieger, H. Erich Wichmann, Michael Kabesch, Richard C. Trembath, Christopher G. Mathew, Gonçalo R. Abecasis, Stephan Weidinger, Susanna Nikolaus, Stefan Schreiber, James T. Elder, Michael Weichenthal, Michael Nothnagel, Andre Franke
Published in: The American Journal of Human Genetics, 00029297, 2012, Page(s) 636-647, ISSN 0002-9297
Publisher: University of Chicago Press
DOI: 10.1016/j.ajhg.2012.02.020

Expression of Class II Cytokine Genes in Children’s Skin

Author(s): P Reemann, E Reimann, S Suutre, M Paavo, U Loite, O Porosaar, K Abram, H Silm, E Vasar, S Kõks, K Kingo
Published in: Acta Dermato Venereologica, 00015555, 2014, Page(s) 386-392, ISSN 0001-5555
Publisher: Taylor & Francis
DOI: 10.2340/00015555-1717

Parkinson's disease in GTP cyclohydrolase 1 mutation carriers

Author(s): N. E. Mencacci, I. U. Isaias, M. M. Reich, C. Ganos, V. Plagnol, J. M. Polke, J. Bras, J. Hersheson, M. Stamelou, A. M. Pittman, A. J. Noyce, K. Y. Mok, T. Opladen, E. Kunstmann, S. Hodecker, A. Munchau, J. Volkmann, S. Samnick, K. Sidle, T. Nanji, M. G. Sweeney, H. Houlden, A. Batla, A. L. Zecchinelli, G. Pezzoli, G. Marotta, A. Lees, P. Alegria, P. Krack, F. Cormier-Dequaire, S. Lesage, A. Brice, P. Heutink, T. Gasser, S. J. Lubbe, H. R. Morris, P. Taba, S. Koks, E. Majounie, J. Raphael Gibbs, A. Singleton, J. Hardy, S. Klebe, K. P. Bhatia, N. W. Wood
Published in: Brain, 00068950, 2014, Page(s) 2480-2492, ISSN 0006-8950
Publisher: Oxford University Press
DOI: 10.1093/brain/awu179

Using RNA sequencing for identifying gene imprinting and random monoallelic expression in human placenta

Author(s): Tauno Metsalu, Triin Viltrop, Airi Tiirats, Balaji Rajashekar, Ene Reimann, Sulev Kõks, Kristiina Rull, Lili Milani, Ganesh Acharya, Purusotam Basnet, Jaak Vilo, Reedik Mägi, Andres Metspalu, Maire Peters, Kadri Haller-Kikkatalo, Andres Salumets
Published in: Epigenetics, 15592294, 2014, Page(s) 1397-1409, ISSN 1559-2294
Publisher: Landes Bioscience
DOI: 10.4161/15592294.2014.970052

Effect of Chronic Valproic Acid Treatment on Hepatic Gene Expression Profile in Wfs1 Knockout Mouse

Author(s): Marite Punapart, Mall Eltermaa, Julia Oflijan, Silva Sütt, Anne Must, Sulev Kõks, Leonard C. Schalkwyk, Catherine Fernandes, Eero Vasar, Ursel Soomets, Anton Terasmaa
Published in: PPAR Research, 16874757, 2014, Page(s) 1-11, ISSN 1687-4757
Publisher: Hindawi Publishing Corporation
DOI: 10.1155/2014/349525

49 EFFECTS OF CULTURE CONDITIONS AND GENE TRANSFECTION ON THE DEVELOPMENT OF BOVINE SOMATIC CELL NUCLEAR TRANSFER EMBRYOS

Author(s): P. Pärn, M. Plaas, M. Nõmm, Ü. Jaakma, S. Kõks
Published in: Reproduction, Fertility and Development, 10313613, 2013, Page(s) 172, ISSN 1031-3613
Publisher: Commonwealth Scientific and Industrial Research Organization Publishing
DOI: 10.1071/RDv25n1Ab49

Increased placental expression and maternal serum levels of apoptosis-inducing TRAIL in recurrent miscarriage

Author(s): K. Rull, K. Tomberg, S. Kõks, J. Männik, M. Möls, M. Sirotkina, S. Värv, M. Laan
Published in: Placenta, 01434004, 2013, Page(s) 141-148, ISSN 0143-4004
Publisher: W. B. Saunders Co., Ltd.
DOI: 10.1016/j.placenta.2012.11.032

COST-Action GEMINI and EPICONCEPT: what we learned after 8 years?

Author(s): A. Van Soom, A. Fazeli
Published in: Animal Reproduction, 14/3, 2017, Page(s) 630-634, ISSN 1984-3143
Publisher: European Embryo Transfer Association (AETE);
DOI: 10.21451/1984-3143-AR1007

Long-Term Effects of the Periconception Period on Embryo Epigenetic Profile and Phenotype: The Role of Stress and How This Effect Is Mediated

Author(s): James Ord, Alireza Fazeli, Penelope J. Watt
Published in: Periconception in Physiology and Medicine, 2017, Page(s) 117-135, ISBN 978-3-319-62414-3
Publisher: Springer International Publishing
DOI: 10.1007/978-3-319-62414-3_7