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Series GSE95155 Query DataSets for GSE95155
Status Public on Apr 03, 2018
Title BEARscc: robustness of single-cell clusters determined using simulated technical replicates
Organisms Homo sapiens; other sequences
Experiment type Expression profiling by high throughput sequencing
Summary Technical variance is a major confounding factor in single-cell RNA sequencing, not least because measurements on the same cell are not replicable. We developed BEARscc, a tool that simulates experiment-specific technical replicates based on a probabilistic model of technical variance trained on RNA spike-in measurements. We demonstrate that the tool improves the unsupervised classification of cells and aids the interpretation of single-cell RNA-seq experiments.
 
Overall design scRNA-seq was performed on dilute whole brain tissue and water samples in order to assess BEARscc as cluster robustness tool.
 
Contributor(s) Severson DT, Schuster-Böckler B, Lu X, Owen RP, White MJ
Citation(s) 29567991
Submission date Feb 21, 2017
Last update date May 15, 2019
Contact name Benjamin Schuster-Böckler
E-mail(s) benjamin.schuster-boeckler@ludwig.ox.ac.uk
Phone +44 1865 617481
Organization name University of Oxford
Department Ludwig Institute for Cancer Research
Lab Schuster-Böckler Lab
Street address Old Road Research Campus Building, Roosevelt Drive
City Oxford
State/province Oxfordshire
ZIP/Postal code OX3 7DQ
Country United Kingdom
 
Platforms (2)
GPL20301 Illumina HiSeq 4000 (Homo sapiens)
GPL24839 Illumina HiSeq 4000 (other sequences)
Samples (93)
GSM2497834 Blank - Negative Control 1
GSM2497835 Blank - Negative Control 2
GSM2497836 Blank - Negative Control 3
Relations
BioProject PRJNA376200
SRA SRP100477

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

Supplementary file Size Download File type/resource
GSE95155_brainandblanks_adjustedcpm_counts.tsv.gz 778.5 Kb (ftp)(http) TSV
GSE95155_brainonly_adjustedcpm_counts.tsv.gz 633.4 Kb (ftp)(http) TSV
GSE95155_rawcounts.tsv.gz 609.3 Kb (ftp)(http) TSV
SRA Run SelectorHelp
Raw data are available in SRA
Processed data are available on Series record

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