Personal information

United Kingdom

Biography

I am fascinated by the cellular complexity of the brain. I am interested in using large-scale approaches to map brain cell types, to identify how glial cells shape neuronal circuits and to discover cellular pathways affected in neurodevelopmental disorders. My past research has largely focused on nervous system cellular diversity and development. My graduate studies with Dr. Chris Doe were geared towards modeling developmental mechanisms that diversify neuronal and glial progenitors in Drosophila. This work led to the identification of new temporal patterning mechanisms that expand neural cell type diversity. In my postdoctoral studies Dr. David Rowitch, I focused on the diversity of astroglial cells in the brain. I developed a high-content in situ transcriptomic pipeline for mapping large tissue areas. I used this approach to discover the heterogeneity of astroglial cells across the layers and areas of the mammalian cerebral cortex. Surprisingly, I identified that astrocyte layer patterns diverge from classical neuronal laminae, revealing the complex neuroglial architecture of the cerebral cortex

Activities

Employment (4)

Wellcome Sanger Institute: Cambridge, GB

2018 to present | Group Leader (Cellular Genetics)
Employment
Source: Self-asserted source
Omer Bayraktar

University of Cambridge: Cambridge, Cambridgeshire, GB

2017 to 2018 | Postdoctoral Fellow
Employment
Source: Self-asserted source
Omer Bayraktar

University of California San Francisco: San Francisco, CA, US

2013 to 2018 | Postdoctoral Fellow (Department of Pediatrics)
Employment
Source: Self-asserted source
Omer Bayraktar

University of Oregon: Eugene, OR, US

2008 to 2013 | Graduate Student (Institute of Molecular Biology)
Employment
Source: Self-asserted source
Omer Bayraktar

Education and qualifications (2)

University of Oregon: Eugene, OR, US

2008 to 2013 | Ph.D., Biology (Institute of Molecular Biology)
Education
Source: Self-asserted source
Omer Bayraktar

Middle East Technical University: Ankara, Ankara, TR

2004 to 2008 | BS Molecular Biology and Genetics
Education
Source: Self-asserted source
Omer Bayraktar

Professional activities (1)

Neural Development (Biomed Central): USA, US

Reviewer
Service
Source: Self-asserted source
Omer Bayraktar

Funding (2)

Wellcome Sanger Institute Core Funding - Human Brain Cellular Diversity

2018-08 to 2024-08 | Award
Wellcome Trust (London, GB)
Source: Self-asserted source
Omer Bayraktar

Life Sciences Research Foundation Postdoctoral Fellowship

2015 to 2018 | Salary award
LSRF (Oregon, US)
Source: Self-asserted source
Omer Bayraktar

Works (15)

Visualising integrated single cell and spatial transcriptomics datasets

2024-10-09 | Preprint
Contributors: Omer Bayraktar; Aybuke Kupcu Yoldas
Source: check_circle
Crossref

Large-scale characterization of cell niches in spatial atlases using bio-inspired graph learning

2024-02-23 | Preprint
Contributors: Sebastian Birk; Irene Bonafonte-Pardàs; Adib Miraki Feriz; Adam Boxall; Eneritz Agirre; Fani Memi; Anna Maguza; Rong Fan; Gonçalo Castelo-Branco; Omer Bayraktar et al.
Source: check_circle
Crossref

Model-based inference of RNA velocity modules improves cell fate prediction

2023-08-05 | Preprint
Contributors: Alexander Aivazidis; Fani Memi; Vitalii Kleshchevnikov; Brian Clarke; Oliver Stegle; Omer Ali Bayraktar
Source: check_circle
Crossref

PoSTcode: Probabilistic image-based spatial transcriptomics decoder

2021-10-14 | Other
Contributors: Milana Gataric; Jun Sung Park; Tong Li; Vasyl Vaskivskyi; Jessica Svedlund; Carina Strell; Kenny Roberts; Mats Nilsson; Lucy R. Yates; Omer Bayraktar et al.
Source: check_circle
Crossref

Transcriptome-wide spatial RNA profiling maps the cellular architecture of the developing human neocortex

2021-03-20 | Preprint
Contributors: Kenny Roberts; Alexander Aivazidis; Vitalii Kleshchevnikov; Tong Li; Robin Fropf; Michael Rhodes; Joseph M. Beechem; Martin Hemberg; Omer Ali Bayraktar
Source: check_circle
Crossref

Astrocyte layers in the mammalian cerebral cortex revealed by a single-cell in situ transcriptomic map

Nature Neuroscience
2020-04 | Journal article
Contributors: Omer Ali Bayraktar; Theresa Bartels; Staffan Holmqvist; Vitalii Kleshchevnikov; Araks Martirosyan; Damon Polioudakis; Lucile Ben Haim; Adam M. H. Young; Mykhailo Y. Batiuk; Kirti Prakash et al.
Source: check_circle
Crossref

Single-cell in situ transcriptomic map of astrocyte cortical layer diversity

2018-10-03 | Journal article
Source: Self-asserted source
Omer Bayraktar

Sonic Hedgehog Agonist Protects Against Complex Neonatal Cerebellar Injury.

Cerebellum (London, England)
2018-04-01 | Journal article
Source: Self-asserted source
Omer Bayraktar

Aging Neural Progenitors Lose Competence to Respond to Mitogenic Notch Signaling.

Current biology : CB
2015-11-12 | Journal article
Source: Self-asserted source
Omer Bayraktar

Astrocyte development and heterogeneity.

Cold Spring Harbor perspectives in biology
2014-11-20 | Journal article
Source: Self-asserted source
Omer Bayraktar

Combinatorial temporal patterning in progenitors expands neural diversity.

Nature
2013-06-19 | Journal article
Source: Self-asserted source
Omer Bayraktar

Functional genomics identifies neural stem cell sub-type expression profiles and genes regulating neuroblast homeostasis.

Developmental biology
2011-10-25 | Journal article
Source: Self-asserted source
Omer Bayraktar

Drosophila type II neuroblast lineages keep Prospero levels low to generate large clones that contribute to the adult brain central complex.

Neural development
2010-10-01 | Journal article
Source: Self-asserted source
Omer Bayraktar

Site-specific binding of a PPR protein defines and stabilizes 5' and 3' mRNA termini in chloroplasts.

The EMBO journal
2009-05-07 | Journal article
Source: Self-asserted source
Omer Bayraktar

Two CRM protein subfamilies cooperate in the splicing of group IIB introns in chloroplasts.

RNA (New York, N.Y.)
2008-09-17 | Journal article
Source: Self-asserted source
Omer Bayraktar

Peer review (2 reviews for 2 publications/grants)

Review activity for Nature computational science. (1)
Review activity for Nature reviews. (1)