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Series GSE221820 Query DataSets for GSE221820
Status Public on Mar 27, 2024
Title Gene expression profile at single cell level of Paneth cells from the small intestine upon genetic targeting and in inflammatory conditions
Organism Mus musculus
Experiment type Expression profiling by high throughput sequencing
Summary We combined lineage tracing with single cell RNA sequencing (scRNA-seq) to study the mechanisms underlying the conversion of Paneth cells into bona fide tumor cells.
 
Overall design Crypts were purified from the small intestine, and enzymatically dissociated with TryplE to obtain a single cell suspension. Cells were stained with fluorescent antibodies (Cd24, cKit) and with Hashing antibodies. Paneth cells were enriched by Fluorescence-activated cell sorting (FACS) according to the SSChiCD24hicKithi gate or by the presence of Yfp/td-Tomato signal. Sorted cells from several mice (controls + genetic targeting) were mixed and processed as Paneth Pool (PP) with 10X Gene expression profiling technology with feature barcoding).
Web link https://www.nature.com/articles/s41588-024-01801-y
 
Contributor(s) Verhagen MP, Joosten R, Sacchetti A, Fodde R
Citation(s) 38902475
Submission date Dec 27, 2022
Last update date Jun 24, 2024
Contact name Mathijs Verhagen
E-mail(s) m.p.verhagen@erasmusmc.nl
Organization name Erasmus Medical Center
Street address Doctor Molewaterplein 40
City Rotterdam
ZIP/Postal code 3015 GD
Country Netherlands
 
Platforms (1)
GPL24247 Illumina NovaSeq 6000 (Mus musculus)
Samples (5)
GSM6900207 PP1
GSM6900208 PP2
GSM6900209 PP3
Relations
BioProject PRJNA916251

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
GSE221820_PP_counts.tsv.gz 34.9 Mb (ftp)(http) TSV
GSE221820_PP_metadata.tsv.gz 627.4 Kb (ftp)(http) TSV
GSE221820_RAW.tar 176.0 Mb (http)(custom) TAR (of MTX, TSV)
SRA Run SelectorHelp
Raw data are available in SRA
Processed data provided as supplementary file
Processed data are available on Series record

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