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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
TOX2ENSG000001241915.76109324347405e-07
AC004744.36.54613578208366e-07
IQCCENSG000001600517.32248796533622e-07
MPP6ENSG000001059267.45904121422041e-07
ZFRENSG000000560977.45904121422041e-07
YWHAHENSG000001282451.05179171555426e-06
TNFRSF25ENSG000002157881.22527357427144e-06
SYPL1ENSG000000082821.23787921183267e-06
GRNENSG000000305821.23946804678066e-06
ETFBENSG000001053791.26697009996901e-06
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