Genetics of Individuality

Project Information

IndiGene

Grant agreement ID: 810172

DOI

10.3030/810172

Project closed

EC signature date 18 January 2019

Start date 1 February 2019

End date 31 July 2025

Funded under

• EXCELLENT SCIENCE - European Research Council (ERC)

Total cost

€ 6 272 613,00

EU contribution

€ 6 272 613,00

Coordinated by

EUROPEAN MOLECULAR BIOLOGY LABORATORY
Germany

CORDIS provides links to public deliverables and publications of HORIZON projects.

Links to deliverables and publications from FP7 projects, as well as links to some specific result types such as dataset and software, are dynamically retrieved from OpenAIRE .

Deliverables

Open Research Data Pilot (1)

Data Management Plan

Data Management Plan for the Open Research Data Pilot

Publications

Peer reviewed articles (17)

Characterizing medaka visual features using a high-throughput optomotor response assay

Author(s): Risa Suzuki, Jia Zheng Woo, Thomas Thumberger, Gero Hofmann, Joachim Wittbrodt, Tinatini Tavhelidse-Suck
Published in: PLOS ONE, Issue 19, 2024, Page(s) e0302092, ISSN 1932-6203
Publisher: Public Library of Science
DOI: 10.1371/journal.pone.0302092

Genomic variations and epigenomic landscape of the Medaka Inbred Kiyosu-Karlsruhe (MIKK) panel

Author(s): Adrien Leger, Ian Brettell, Jack Monahan, Carl Barton, Nadeshda Wolf, Natalja Kusminski, Cathrin Herder, Narendar Aadepu, Clara Becker, Jakob Gierten, Omar T. Hammouda, Eva Hasel, Colin Lischik, Katharina Lust, Natalia Sokolova, Risa Suzuki, Tinatini Tavhelidse, Thomas Thumberger, Erika Tsingos, Philip Watson, Bettina Welz, Kiyoshi Naruse, Felix Loosli, Joachim Wittbrodt, Ewan Birney & Tomas Fitzg
Published in: Genome Biology, Issue 23, Article number: 58, 2022, ISSN 1474-760X
Publisher: Springer Nature
DOI: 10.1186/s13059-022-02602-4

Fish primary embryonic pluripotent cells assemble into retinal tissue mirroring in vivo early eye development

Author(s): Lucie Zilova, Venera Weinhardt, Tinatini Tavhelidse, Christina Schlagheck, Thomas Thumberger, Joachim Wittbrodt
Published in: eLife, Issue 10, 2021, ISSN 2050-084X
Publisher: eLife Sciences Publications
DOI: 10.7554/elife.66998

Boosting targeted genome editing using the hei-tag

Author(s): Thomas ThumbergerTinatini Tavhelidse-SuckJose Arturo Gutierrez-TrianaAlex CorneanRebekka MedertBettina WelzMarc FreichelJoachim Wittbrodt
Published in: eLife, 2022, ISSN 2050-084X
Publisher: eLife Sciences Publications
DOI: 10.7554/elife.70558

FlexLMM: a Nextflow linear mixed model framework for GWAS

Author(s): Saul Pierotti, Tomas Fitzgerald, Ewan Birney
Published in: Bioinformatics, Issue 41, 2025, ISSN 1367-4811
Publisher: Oxford University Press (OUP)
DOI: 10.1093/bioinformatics/btaf021

The Medaka Inbred Kiyosu-Karlsruhe (MIKK) panel

Author(s): Tomas Fitzgerald, Ian Brettell, Adrien Leger, Nadeshda Wolf, Natalja Kusminski, Jack Monahan, Carl Barton, Cathrin Herder, Narendar Aadepu, Jakob Gierten, Clara Becker, Omar T. Hammouda, Eva Hasel, Colin Lischik, Katharina Lust, Natalia Sokolova, Risa Suzuki, Erika Tsingos, Tinatini Tavhelidse, Thomas Thumberger, Philip Watson, Bettina Welz, Nadia Khouja, Kiyoshi Naruse, Ewan Birney, Joachim Wittb
Published in: Genome Biology, Issue 23, Article number: 59, 2022, ISSN 1474-760X
Publisher: Springer Nature
DOI: 10.1186/s13059-022-02623-z

Genotype imputation in F2 crosses of inbred lines

Author(s): Saul Pierotti, Bettina Welz, Mireia Osuna-López, Tomas Fitzgerald, Joachim Wittbrodt, Ewan Birney
Published in: Bioinformatics Advances, Issue 4, 2024, ISSN 2635-0041
Publisher: Oxford University Press
DOI: 10.1093/bioadv/vbae107

Natural genetic variation quantitatively regulates heart rate and dimension

Author(s): Jakob Gierten, Bettina Welz, Tomas Fitzgerald, Thomas Thumberger, Rashi Agarwal, Oliver Hummel, Adrien Leger, Philipp Weber, Kiyoshi Naruse, David Hassel, Norbert Hübner, Ewan Birney, Joachim Wittbro
Published in: Nature Communications, Issue 16, 2025, ISSN 2041-1723
Publisher: Nature Publishing Group
DOI: 10.1038/s41467-025-59425-7

Measurement and classification of bold–shy behaviours in medaka fish

Author(s): Saul Pierotti, Ian Brettell, Tomas Fitzgerald, Cathrin Herder, Narendar Aadepu, Christian Pylatiuk, Joachim Wittbrodt, Ewan Birney, Felix Loosli
Published in: Bioinformatics, Issue 41, 2025, ISSN 1367-4811
Publisher: Oxford University Press (OUP)
DOI: 10.1093/bioinformatics/btaf342

Establishing an auxin-inducible GFP nanobody-based acute protein knockdown system to mimic hypomorphic mutations during early medaka embryogenesis

Author(s): Kaisa Pakari, Sevinç Jakab, Johanna Rasch, Encarnación Sánchez Salvador, Beate Wittbrodt, Christian Thiel, Joachim Wittbrodt, Thomas Thumberger
Published in: Biology Open, Issue 14, 2025, ISSN 2046-6390
Publisher: The Company of Biologists
DOI: 10.1242/bio.062081

FEHAT: efficient, large scale and automated heartbeat detection in Medaka fish embryos

Author(s): Marcio Soares Ferreira, Sebastian Stricker, Tomas Fitzgerald, Jack Monahan, Fanny Defranoux, Philip Watson, Bettina Welz, Omar Hammouda, Joachim Wittbrodt, Ewan Birney
Published in: Bioinformatics, Issue 40, 2024, ISSN 1367-4811
Publisher: Oxford University Press (OUP)
DOI: 10.1093/bioinformatics/btae664

Automated high-throughput heartbeat quantification in medaka and zebrafish embryos under physiological conditions

Author(s): Jakob Gierten, Christian Pylatiuk, Omar T. Hammouda, Christian Schock, Johannes Stegmaier, Joachim Wittbrodt, Jochen Gehrig, Felix Loosli
Published in: Scientific Reports, Issue 10/1, 2020, ISSN 2045-2322
Publisher: Nature Publishing Group
DOI: 10.1038/s41598-020-58563-w

De novo PAM generation to reach initially inaccessible target sites for base editing

Author(s): Kaisa Pakari, Joachim Wittbrodt, Joachim Wittbrodt
Published in: Development, 2023, ISSN 0950-1991
Publisher: The Company of Biologists Ltd.
DOI: 10.1242/dev.201115

Soft X-ray Tomography Reveals HSV-1-Induced Remodeling of Human B Cells

Author(s): Jian-Hua Chen, Bieke Vanslembrouck, Axel Ekman, Vesa Aho, Carolyn A. Larabell, Mark A. Le Gros, Maija Vihinen-Ranta, Venera Weinhardt
Published in: Viruses, Issue 14, 2025, Page(s) 2651, ISSN 1999-4915
Publisher: Multidisciplinary Digital Publishing Institute (MDPI)
DOI: 10.3390/v14122651

CRISPR-based knockout and base editing confirm the role of MYRF in heart development and congenital heart disease

Author(s): Lino Doering, Alex Cornean, Thomas Thumberger, Joergen Benjaminsen, Beate Wittbrodt, Tanja Kellner, Omar T. Hammouda, Matthias Gorenflo, Joachim Wittbrodt and Jakob Gierten
Published in: | Disease Models & Mechanisms, 2023, ISSN 1754-8403
Publisher: The Company of Biologists Ltd.
DOI: 10.1242/dmm.049811

Precise in vivo functional analysis of DNA variants with base editing using ACEofBASEs target prediction

Author(s): Alex Cornean, Jakob Gierten, Bettina Welz, Juan Luis Mateo, Thomas Thumberger, Joachim Wittbrodt
Published in: eLife, 2022, ISSN 2050-084X
Publisher: eLife Sciences Publications
DOI: 10.7554/elife.72124

Visualisation of gene expression within the context of tissues using an X-ray computed tomography-based multimodal approach

Author(s): Kristaps Kairišs, Natalia Sokolova, Lucie Zilova, Christina Schlagheck, Robert Reinhardt, Tilo Baumbach, Tomáš Faragó, Thomas van de Kamp, Joachim Wittbrodt, Venera Weinhardt
Published in: Scientific Reports, Issue 14, 2024, ISSN 2045-2322
Publisher: Nature Publishing Group
DOI: 10.1038/s41598-024-58766-5