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Series GSE97168 Query DataSets for GSE97168
Status Public on May 04, 2017
Title Innate Immune Landscape in Early Lung Adenocarcinoma by Paired Single-Cell Analyses
Organism Homo sapiens
Experiment type Expression profiling by high throughput sequencing
Summary We perform massively parallel single cell RNA-seq (MARS-Seq) on non-lymphocytic immune cells sorted from a human stage IA lung adenocarcinoma lesion and from the adjacent non-involved lung. With an unbiased single cell transcriptomic analysis of non-lymphocyte cells accumulating in these tissues, we sought to capture the heterogeneity of the tumor-infiltrating myeloid (TIM) compartment. Using a previously described unbiased expectation-maximization algorith (Paul et al., 2015), we identified clusters that were then named according to literature-reported marker profiles. This revealed a CD141+ DC subets, a CD1c+ DC subset, and a macrophage subset that clustered separately and was found to be enriched in the lesion as compared to other macrophage subsets.
 
Overall design Using singlet, CD45+ DAPI- CD3- CD19- gating, over 1100 cells from a human stage IA lung adenocarcinoma lesion and over 700 cells from the non-involved lung were sorted into individual wells of a 384-well plate, then processed by MARS-Seq.
 
Contributor(s) Merad M, Amit I
Citation(s) 28475900
Submission date Mar 29, 2017
Last update date May 15, 2019
Contact name Ido Amit
E-mail(s) ido.amit@weizmann.ac.il
Phone 972-8-9343338
Organization name Weizmann Institute of Science
Department Immunology
Street address 234 Herzl st.
City Rehovot
ZIP/Postal code 760001
Country Israel
 
Platforms (1)
GPL18573 Illumina NextSeq 500 (Homo sapiens)
Samples (10)
GSM2553017 AB1235
GSM2553018 AB1236
GSM2553019 AB1237
Relations
BioProject PRJNA380875
SRA SRP102688

Download family Format
SOFT formatted family file(s) SOFTHelp
MINiML formatted family file(s) MINiMLHelp
Series Matrix File(s) TXTHelp

Supplementary file Size Download File type/resource
GSE97168_metadata.txt.gz 16.1 Kb (ftp)(http) TXT
GSE97168_umitab.txt.gz 2.2 Mb (ftp)(http) TXT
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Raw data are available in SRA
Processed data is available on Series record

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