| Series | GSE70580 |
| Title | Single cell RNA-sequencing of human tonsil Innate lymphoid cells (ILCs) |
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| Year | 2016 |
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| Country | Sweden |
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| Article | Mjösberg 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 |
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| PMID | 26878113 |
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| Bio Project | BioProject: http://www.ncbi.nlm.nih.gov/bioproject/PRJNA289086 |
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| Sra | SRA: http://www.ncbi.nlm.nih.gov/sra?term=SRP060416 |
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| Overall Desgin | Sequencing libraries were prepared from FACS sorted individual ILCs with the Smart-Seq2 protocol (Picelli et al. Nature Methods 2013) |
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| Summary | Single cell RNA-sequencing of human tonsil Innate lymphoid cells (ILCs) from three independent tonsil donors. |
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| Experimental Protocol | cDNA 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)
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| Data processing | All 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)
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| Platform | GPL11154 |
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| Public On | Public on Jan 27 2016 |
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