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Series GSE115861 Query DataSets for GSE115861
Status Public on Feb 13, 2019
Title Comparison of single-cell transcriptomics quality between unfixed cells and cells that were fixed and mock stained according to the RAID procedure
Organism Homo sapiens
Experiment type Expression profiling by high throughput sequencing
Summary Cell fixation, permeabilization and antibody staining of could have adverse effects on the quality of single cell transcriptomics data. To assess the effects of the RAID procedure, which includes such steps, we performed a direct comparison of single cell transcriptomics by CELseq2 using unfixed and RAID-processed cells. Quality measures (gene complexity, gene detection rate, average gene expression) were performed using 40000 samples UMI counts per cell.
Overall design Single cells were sorted in 96, wells plates. Per condition (unfixed or RAID) three sets (A,B,C) of 48 cells were processed with the CELseq2 protocol.
Contributor(s) Gerlach JP, Mulder KW
Citation(s) 30728416
Submission date Jun 15, 2018
Last update date Mar 26, 2019
Contact name Jan Patrick Gerlach
Organization name Radboud Institute for Molecular Life Sciences
Department Molecular Developmental Biology
Street address Geert Grooteplein Zuid 28
City Nijmegen
ZIP/Postal code 6500HB
Country Netherlands
Platforms (1)
GPL18573 Illumina NextSeq 500 (Homo sapiens)
Samples (6)
GSM3191999 Unfixed_SetA
GSM3192000 Unfixed_SetB
GSM3192001 Unfixed_SetC
This SubSeries is part of SuperSeries:
GSE115981 RAID allows multiplexed quantification of intracellular (phospho-)proteins and transcriptomes from fixed single cells
BioProject PRJNA476320
SRA SRP150624

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SOFT formatted family file(s) SOFTHelp
MINiML formatted family file(s) MINiMLHelp
Series Matrix File(s) TXTHelp

Supplementary file Size Download File type/resource
GSE115861_JPGII170_40K_SUB_GEO.csv.gz 910.8 Kb (ftp)(http) CSV 1.7 Mb (ftp)(http) TAB
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Raw data are available in SRA
Processed data are available on Series record

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