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 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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