GSM2497870: Blank - Negative Control 37; other sequences; RNA-Seq - SRA

SRX2581201: GSM2497870: Blank - Negative Control 37; other sequences; RNA-Seq
1 ILLUMINA (Illumina HiSeq 4000) run: 388,211 spots, 65.3M bases, 33Mb downloads

Submitted by: NCBI (GEO)

Study: BEARscc: robustness of single-cell clusters determined using simulated technical replicates

PRJNA376200 • SRP100477 • All experiments • All runs

show Abstracthide Abstract

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.

Sample: Blank - Negative Control 37

SAMN06365005 • SRS1995258 • All experiments • All runs

Organism: other sequences

Library:

Instrument: Illumina HiSeq 4000

Strategy: RNA-Seq

Source: TRANSCRIPTOMIC

Selection: cDNA

Layout: PAIRED

Construction protocol: ERCC spike-in standards and either water or dilute whole brain total RNA (Agilent Technologies, catalog #540005) were converted to cDNA using Smartseq2 protocol. Libraries were prepared using Fludigm's recommendations for Illumina NexteraXT at ¼ volume with minor modifcations. Single cell RNA-sequencing

Experiment attributes:

GEO Accession: GSM2497870

Links:

NCBI link: NCBI Entrez (gds)

Runs: 1 run, 388,211 spots, 65.3M bases, 33Mb

Run	# of Spots	# of Bases	Size	Published
SRR5277271	388,211	65.3M	33Mb	2018-04-04

ID:: 3738523

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