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SUMMARY:Studying human tissues with single-cell RNA-sequencing within the 
 Human Cell Atlas consortium - Dr Elo Madissoon (European Bioinformatics In
 stitute)
DTSTART:20200308T104000Z
DTEND:20200308T110000Z
UID:TALK140848@talks.cam.ac.uk
CONTACT:Trinity College Science Society
DESCRIPTION:The Human Cell Atlas is a large international collaborative ef
 fort to map all cell types of the human body. Single cell RNA sequencing c
 an generate high quality data for the delivery of such an atlas. \n\nWe ob
 tained lung\, oesophagus and spleen samples from 12 healthy organ donors t
 o create single cell RNA sequencing (sc-RNA-seq) dataset of 240\,000 cells
 . This includes the largest published datasets on human oesophagus and spl
 een to date\, which we provide in an easy to browse data portal: www.tissu
 estabilitycellatlas.org. \n\nIn lung\, 57\,020 cells represented 25 cell t
 ypes including ciliated\, alveolar types 1 and 2 cells\, fibroblasts\, mus
 cle and endothelial cells both from blood and lymph vessels\, as well as c
 ell types identified from the immune compartment including NK\, T and B-ce
 lls\, two types of macrophages\, monocytes and dendritic cells. Oesophagus
  yielded 87\,947 cells with over 90% belonging to the four major epithelia
 l cell types: upper\, stratified\, suprabasal and dividing cells of the su
 prabasal layer. We further defined rare cells from the mucous glands and t
 he duct with frequency of <0.3%\, as well as various immune and stromal ce
 ll types. All the 94\,257 cells from spleen were annotated as immune cells
 \, including rare cell types such as innate lymphoid\, plasma cells\, affi
 nity-maturing B and CD34+ progenitor cells.\n\nIn addition to high resolut
 ion map of the cell composition of the three tissues we provide insights i
 nto the tissue architecture and considerations for limitations of the samp
 ling for providing Human Cell Atlas. Furthermore\, we describe both intra 
 and inter-individual variability especially in the immune compartment\, an
 d describe dissociation-related gene expression by comparison to the bulk 
 RNA sequencing.\n\nOverall\, we have generated detailed annotations on thr
 ee primary human tissues: spleen\, oesophagus and lung. This dataset of ov
 er 240\,000 single cells presents a significant resource for further inves
 tigation of the biology of these tissues and contains the largest oesophag
 us and spleen datasets to date.  In addition\, we make available WGS data 
 from thirteen healthy donors including clinical metadata\, allowing for fu
 ture tissue-specific\, single cell eQTL studies.
LOCATION:Winstanley Lecture Hall\, Trinity College
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