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Sample GSM1811028 Query DataSets for GSM1811028
Status Public on Jan 27, 2016
Title T86_P3_C10_ILC1
Sample type SRA
Source name cDNA
Organism Homo sapiens
Characteristics tonsil donor: Donor T86
facs gating: ILC1
cell type: tonsil Innate lymphoid cells
Extracted molecule polyA RNA
Extraction 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)
Library strategy RNA-Seq
Library source transcriptomic
Library selection cDNA
Instrument model Illumina HiSeq 2000
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, 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)
Submission date Jul 07, 2015
Last update date May 07, 2020
Contact name Asa Kristina Bjorklund
Organization name Uppsala University
Department Cell and Molecular Biology
Street address Box 596
City Uppsala
ZIP/Postal code 75124
Country Sweden
Platform ID GPL11154
Series (1)
GSE70580 Single cell RNA-sequencing of human tonsil Innate lymphoid cells (ILCs)
Reanalyzed by GSM4521386
BioSample SAMN03841383
SRA SRX1082556

Supplementary file Size Download File type/resource
GSM1811028_T86_P3_C10_ILC1_expression.txt.gz 1.1 Mb (ftp)(http) TXT
SRA Run SelectorHelp
Raw data are available in SRA
Processed data provided as supplementary file

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