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Dataset View [GSE49321]

Series	GSE49321
Title	Improved Smart-Seq for sensitive full-length transcriptome profiling in single cells
Year	2013
Country	Sweden
Article	Sandberg R,Winberg G,Sagasser S,Faridani OR,Björklund ÅK,Picelli S.Smart-seq2 for sensitive full-length transcriptome profiling in single cells.Nature methods.2013 Nov
PMID	24056875
Bio Project	BioProject: http://www.ncbi.nlm.nih.gov/bioproject/PRJNA213629
Sra	SRA: http://www.ncbi.nlm.nih.gov/sra?term=SRP028301
Overall Desgin	Cells of four different origins were profiled using commercial SMARTer and compared to five variants of an improved protocol (Smart-Seq2).
Summary	Improved Smart-Seq for sensitive full-length transcriptome profiling in single cells.
Experimental Protocol	Lysis buffer from the kit 'SMARTer Ultra Low Input RNA for Illumina Sequencing' (Clontech).; We prepared sequencing libraries according to the optimized Smart-Seq2 protocol, variants of Smart-Seq2 and using the standard Smart-Seq procedure ('SMARTer Ultra Low Input RNA for Illumina Sequencing' from Clontech).
Data processing	All reads were aligned to the human (hg19) or mouse (mm10) 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 (Feb 2013).; Genome_build: GRCh37; Supplementary_files_format_and_content: Gene expression values (tab-delimited text file).
Platform	GPL11154;GPL13112
Public On	Public on Sep 01 2013

Cell Groups

Differential Expression Gene List

DG-75_VS_HEK293T

KEGG GO Others  Gene List