Staff scientist - Glioblastoma Spatial Multi-omics

Updated: 2 months ago
Location: Cambridge, ENGLAND
Job Type: FullTime
Deadline: 05 Dec 2021

The opportunity:

The Bayraktar group  is seeking a staff scientist to explore how the tumour microenvironment (TME) drives malignant cell states in glioblastoma (GBM) using large-scale spatial multi-omics. Our exciting “GBM-space” project brings together an international collaboration funded by Wellcome LEAP to integrate single cell transcriptomics, epigenomics and spatial RNA/DNA-sequencing to systematically deconstruct TME-GBM cell interactions and plasticity in situ.

The team:

The Bayraktar group studies the cellular wiring of human tissues using spatial genomics, focusing on brain development and disease. Our highly collaborative and international team has expertise in single cell/spatial genomics, microscopy and multi-modal data analysis. The GBM-space project led by Dr. Bayraktar brings us together with other experts in bioinformatics, cancer and neurodevelopment across Cambridge, DFKZ and the Crick.

About the role/you:

You will coordinate single cell and spatial multi-omic data collection and troubleshooting for the GBM-space project. You will be responsible for optimising nuclei extraction and 10X multi-ome protocols (joint snRNA-ATAC-seq) on human GBM resection tissue samples, including testing automated tissue processing protocols. You will organise paired single cell and spatial transcriptomics experiments, perform snRNA-ATAC-seq and coordinate with staff running Visium spatial transcriptomics. Finally, your future work will involve onboarding new multi-omics technologies such as SNARE-seq2 and CUT&Tag.

You are expected to bring strong single cell transcriptomics/epigenomics, next generation sequencing and R&D skills to this role. You must have strong organisational and interpersonal skills to manage large-scale experiments and closely coordinate with staff members working on the GBM-space project. You will be expected to eventually line manage a research assistant. You will be embedded in a world-leading and multidisciplinary research environment and become a valued member of our team.

Relevant publications of the team:

Cell2location maps fine-grained cell types in spatial transcriptomic data. Kleshchevnikov V,  Shmatko A….Stegle O,  Bayraktar OA. bioRxiv 2020 https://doi.org/10.1101/2020.11.15.378125  (Nature Biotechnology in press).

Transcriptome-wide spatial RNA profiling maps the cellular architecture of the developing human neocortex. Roberts K, Aivazidis A...Hemberg M, Bayraktar OA. bioRxiv 2021 https://doi.org/10.1101/2021.03.20.436265

Astrocyte layers in the mammalian cerebral cortex revealed by a single-cell in situ transcriptomic map. Bayraktar OA*, Bartels T…Geschwind DH, Rowitch DH*. Nature Neuroscience 2020.


Please apply with your CV and a Cover letter outlining your suitability for the role addressing the criteria set out above and in the job description.

 This is a rolling advert, we will consider applications and hold interviews on an ongoing basis so the role may close early if a successful appointment is made.

Please see below for further information about our research.


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