We are looking to appoint a highly motivated bioinformatician to manage the submission and distribution of data generated as part of the international Human Cell Atlas project.
Recent advances in the area of single cell genomics have facilitated the possibility of generating a Human Cell Atlas, where cutting-edge molecular biology techniques can be used to refine our understanding of cell types within the human body, thereby building a platform for future transformative research in understanding tissue homeostasis and, ultimately, disease1-3.
The Marioni group is a world leader in computational biology, with a particular focus on developing methods for data generated using single cell genomics technologies4-8.
The HCA DCP team at EMBL-EBI is leading efforts to build the ingestion service enabling submission of data to the DCP and validating these datasets meet HCA standards. This team also works with biologists and bioinformaticians to under the different HCA data types. 1. Young et al., Science, 2018.
2. Hagai et al., Nature (in press)
3. Gomes et al., BiorXiv, www.biorxiv.org/content/early/2017/11/22/217489
4. Haghverdi et al., Nature Biotechnology, 2018
5. Lun et al., Nature Methods, 2017
6. Vallejos et al., Nature Methods, 2017
7. Achim et al., Nature Biotechnology, 2015
8. Buettner et al., Nature Biotechnology, 2015
You will be a key link between data generators, based primarily within the UK, the Human Cell Atlas Data Coordination Platform (DCP), and downstream visualisation and analysis portals such as the Single Cell Expression Atlas (LINK). You will interact closely with all three of these groups to facilitate smooth upload, processing and dissemination of the data generated as part of this project.
You will be based within the HCA DCP team at Hinxton led by Laura Clarke and work closely with the EMBL-EBI based groups of John Marioni, Irene Papatheodorou and will collaborate with the group of Sarah Teichmann at the Wellcome Sanger Institute.
Your role will include the following tasks:
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Recent advances in the area of single cell genomics have facilitated the possibility of generating a Human Cell Atlas, where cutting-edge molecular biology techniques can be used to refine our understanding of cell types within the human body, thereby building a platform for future transformative research in understanding tissue homeostasis and, ultimately, disease1-3.
The Marioni group is a world leader in computational biology, with a particular focus on developing methods for data generated using single cell genomics technologies4-8.
The HCA DCP team at EMBL-EBI is leading efforts to build the ingestion service enabling submission of data to the DCP and validating these datasets meet HCA standards. This team also works with biologists and bioinformaticians to under the different HCA data types. 1. Young et al., Science, 2018.
2. Hagai et al., Nature (in press)
3. Gomes et al., BiorXiv, www.biorxiv.org/content/early/2017/11/22/217489
4. Haghverdi et al., Nature Biotechnology, 2018
5. Lun et al., Nature Methods, 2017
6. Vallejos et al., Nature Methods, 2017
7. Achim et al., Nature Biotechnology, 2015
8. Buettner et al., Nature Biotechnology, 2015
Your role
You will be a key link between data generators, based primarily within the UK, the Human Cell Atlas Data Coordination Platform (DCP), and downstream visualisation and analysis portals such as the Single Cell Expression Atlas (LINK). You will interact closely with all three of these groups to facilitate smooth upload, processing and dissemination of the data generated as part of this project.
You will be based within the HCA DCP team at Hinxton led by Laura Clarke and work closely with the EMBL-EBI based groups of John Marioni, Irene Papatheodorou and will collaborate with the group of Sarah Teichmann at the Wellcome Sanger Institute.
Your role will include the following tasks:
- Designing and extending services to ensure the HCA is collecting high quality metadata to support and enable discovery and integration operations on its data
- Supporting the data flow into the HCA and EMBL-EBI archives from project contributors
- Collaborating with expert biologists and external collaborators to define and extend the minimum standards for the various HCA data types
- Working with biologists and other collaborators to define requirements for HCA services
- Running training courses on how to submit data to the HCA project
- Working with other teams across EMBL-EBI to deliver our components of the HCA Data Coordination Platform
- Representing the team and the institute at HCA project meetings and international scientific conferences.
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