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Dataset View [GSE70580]

SeriesGSE70580
TitleSingle cell RNA-sequencing of human tonsil Innate lymphoid cells (ILCs)
Year2016
CountrySweden
ArticleMjösberg J,Sandberg R,Friberg D,Theorell J,Konya V,Picelli S,Forkel M,Björklund ÅK.The heterogeneity of human CD127(+) innate lymphoid cells revealed by single-cell RNA sequencing.Nature immunology.2016 Apr
PMID26878113
Bio ProjectBioProject: http://www.ncbi.nlm.nih.gov/bioproject/PRJNA289086
SraSRA: http://www.ncbi.nlm.nih.gov/sra?term=SRP060416
Overall DesginSequencing libraries were prepared from FACS sorted individual ILCs with the Smart-Seq2 protocol (Picelli et al. Nature Methods 2013)
SummarySingle cell RNA-sequencing of human tonsil Innate lymphoid cells (ILCs) from three independent tonsil donors.
Experimental ProtocolcDNA was generated from FACS sorted cells using to Smart-seq2 (Picelli et al. Nature Methods 2013); Nextera XT DNA Sample Preparation Index Kit (24 index primers, Illumina)
Data processingAll reads were aligned to the human (hg19) genomes using STAR (Dobin et al. 2013); Non-uniquely mapped reads were removed; Rpkmforgenes (available at http://sandberg.cmb.ki.se/rnaseq/), options -readcount -fulltranscript -mRNAnorm -rmnameoverlap -u, was used to generate RPKM values and read counts. We used a file with unique positions from Storvall et al. 2013 PLOS ONE. Gene annotations used were transcripts in RefSeq and Ensembl (Feb 2013) and ERCC-spike in annotations.; Genome_build: hg19; Supplementary_files_format_and_content: gene expression values (tab-delimited text)
PlatformGPL11154
Public OnPublic on Jan 27 2016

Cell Groups

Differential Expression Gene List

KEGG GO Others   

Gene SymbolEnsembl IDFDR
RFXAPENSG000001331110.00842821390738063
MAP3K11ENSG000001733270.00854565624328722
LONRF1ENSG000001543590.00857863345579231
TNFSF8ENSG000001069520.00880423711737425
ACTBP7ENSG000001856070.00888172835050046
DVL2ENSG000000049750.0089599540153717
NAIPENSG000002494370.00896000307070309
SYPL1ENSG000000082820.00896000307070309
PPM1BENSG000001380320.00904843790146143
TIAM2ENSG000001464260.00911121022713888
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