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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
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
BioProject PRJNA380875
SRA SRP102688

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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 are available on Series record

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