Capacity building in single cell inflammation discovery: developing the next generation of scientists

Lead Research Organisation: University of Manchester
Department Name: UNLISTED

Abstract

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Technical Summary

Objective: To advance national and international expertise in human single cell analysis by awarding Discovery Fellowships to early career academics who focus on specific cell subsets in health and disease at mucosal barriers.
Our vision is to become an international leader in understanding cell boundaries in human health and disease, for the benefit of patients in Manchester and beyond. The Fellows will ultimately form part of a wider bid for a Centre of Excellence in inflammation.
Rationale: Cellular heterogeneity leads to variability in response of otherwise identical cells to the same stimulus. Examining a single population of cells using pre-defined criteria essentially averages their true complexity. This impairs an understanding of immune health and disease and strategies to alleviate inflammation. Single cell analysis has emerged as the next frontier, removing pre-conceptions on cell phenotype and allowing unbiased definition and discovery.
There are few early academics in this speciality, particularly in the local area. We are ideally placed to support early career fellows and projects containing high risk basic discovery research that is currently precompetitive for external support. We have precedence in recruiting excellent young investigators that rapidly succeed in developing independence.
Approach: Discovery Fellowships will be advertised and successful applicants provided with competitive start-up funds. A call for projects will be advertised internally. They will be embedded in the MRC-funded single cell research centre and aligned to the Manchester Collaborative Centre for inflammation Research that has strong links with GSK and AZ. Ultimately they will demonstrate success in competitive funding, with the security of institutional commitment for a further 12 months.
This approach will prime novel interactions with existing academics, evolve expertise across the North and transform discovery of new medicines and disease mechanisms.

People

ORCID iD

Publications

10 25 50
 
Description ANTIFUNGAL POTENCY OF THE AIRWAY EPITHELIUM IN HEALTH AND DISEASE
Amount € 20,000 (EUR)
Organisation European Society of Clinical Microbiology and Infectious Diseases (ESCMID) 
Sector Charity/Non Profit
Country Switzerland
Start 04/2019 
End 03/2020
 
Description Antifungal potency of the respiratory epithelium
Amount £12,000 (GBP)
Organisation Fungal Infection Trust 
Sector Charity/Non Profit
Country United Kingdom
Start 01/2017 
End 12/2019
 
Description December 2016 - November 2021. . Senior Investigator Award in Science, "Pathogenic airway macrophage adaptation in the chronically inflamed lung".
Amount £1,728,302 (GBP)
Funding ID 202865/Z/16/Z 
Organisation Wellcome Trust 
Sector Charity/Non Profit
Country United Kingdom
Start 12/2016 
End 11/2021
 
Description Effectors of tissue invasion in Aspergillus fumigatus, the major fungal pathogen of human lungs
Amount £613,140 (GBP)
Funding ID MR/S001824/1 
Organisation Medical Research Council (MRC) 
Sector Public
Country United Kingdom
Start 10/2018 
End 09/2021
 
Description Molecular basis of fungal tissue invasion
Amount £30,000 (GBP)
Organisation Chelsea and Westminster Health Charity 
Sector Charity/Non Profit
Country United Kingdom
Start 07/2017 
End 06/2019
 
Title Isolating rare cells for single cell omics 
Description • New protocols for harvest and culture of primary human pneumocytes for analysis by imaging flow cytometry 
Type Of Material Biological samples 
Year Produced 2017 
Provided To Others? Yes  
Impact In progress 
 
Title Method for separating out Th17 cells from human PBMCs 
Description Method for separating out Th17 cells from human PBMCs 
Type Of Material Biological samples 
Year Produced 2017 
Provided To Others? Yes  
Impact Ability to pull out rare cells for single cell omics 
 
Title Single cell RNA-seq 
Description Single cell RNA-seq libraries for six samples were prepared using the Chromium Single Cell Controller to obtain a target cell recovery of 5,000 cells. Final libraries were sequenced on an Illumina HiSeq 4000 to yield approximately 400 million reads per sample (80,000 reads per cell). Raw sequence reads were aligned against the human reference (GENCODE Human Release 26 (GRCh38.p10)) using the Cell Ranger™ 2.1.0 pipeline (10X Genomics). Further quality control and clustering was performed using Seurat - R toolkit for single cell genomics 2.3.0. 
Type Of Material Biological samples 
Year Produced 2019 
Provided To Others? Yes  
Impact Refinement of a technique that can be more widely used and streamlined for others wishing to do this sort of analysis. 
 
Description Development of targets 
Organisation MRC-Technology
Country United Kingdom 
Sector Private 
PI Contribution Using single cell sequencing technology we discovered potential therapeutic targets on airway macrophages that are of interest to MRCT
Collaborator Contribution The partners will accept an application to take these targets forward
Impact None yet
Start Year 2017
 
Description Inflammation; the good and the bad 
Form Of Engagement Activity Participation in an activity, workshop or similar
Part Of Official Scheme? No
Geographic Reach Local
Primary Audience Public/other audiences
Results and Impact A research activity station explaining how the immune system works to a lay audience - aimed at families. It has been presented at multiple events including Science Spectacular and the Body Experience organised by the University of Manchester.
Year(s) Of Engagement Activity 2017,2018
 
Description Killer Fungus Event at Manchester Science Festival 
Form Of Engagement Activity Participation in an activity, workshop or similar
Part Of Official Scheme? No
Geographic Reach Regional
Primary Audience Public/other audiences
Results and Impact A 40-strong team of clinicians and scientists from the Universities of Aberdeen and Manchester, University Hospital South Manchester, National Aspergillosis Centre and Mycology Reference Laboratory Manchester, delivered the 'Killer Fungus' event at the Manchester Museum of Science and Industry in October. Visited by more than 1300 members of the public in a single day, the exhibit utilised the entirety of the enormous MOSI Power Hall to deliver two parallel events depicting the breadth, wonder and deadly nature of fungal contributions to life, and death, on Earth. New to the Killer Fungus exhibit for 2018, an app-based role playing game 'Outbreak' pitched 38 teams of impromptu scientists against a deadly killer fungus to resolve a mystery illness sweeping Manchester.
Arriving to breaking news from the BBC of a mystery illness causing fatal meningitis amongst the Greater Manchester population, teams were immersed into a battle, alongside real-life clinicians and scientists, to collect field samples, witness the effects of the disease on human patients, and examine clinical data and pathogen genetic code and to work against the clock to crack the source of the Outbreak.
At a complementary Platform for Investigation exhibit, visitors learned about fungi and the diseases they cause by playing computer games, viewed microscopic examples of fungal pathogens colonising agar plates and lung tissue, and made Play Dough models of innate immune cells attacking fungi.
Year(s) Of Engagement Activity 2017
URL http://www.killerfungus.org
 
Description The Beautiful Cure 
Form Of Engagement Activity A magazine, newsletter or online publication
Part Of Official Scheme? No
Geographic Reach International
Primary Audience Public/other audiences
Results and Impact Professor Daniel David published ' the Beautiful Cure'.

This explained Immunology research and the power of the immune system to a lay audience.
Year(s) Of Engagement Activity 2018,2019