GSM4669695: RRBS_iNSC 2, rep 1, Gibco protocol; Mus musculus; Bisulfi... - SRA

SRX8722972: GSM4669695: RRBS_iNSC 2, rep 1, Gibco protocol; Mus musculus; Bisulfite-Seq
8 ILLUMINA (NextSeq 500) runs: 32.6M spots, 4.9G bases, 1.9Gb downloads

Submitted by: NCBI (GEO)

Study: Comparative analysis of glioblastoma initiating cells and patient-matched EPSC-derived neural stem cells as a discovery tool and drug matching strategy [Seq]

PRJNA645954 • SRP271665 • All experiments • All runs

show Abstracthide Abstract

Malignant gliomas are the most common intrinsic brain tumours in adults and are associated with a very poor prognosis, which has not improved in the last 20 years. We show here that glioblastoma initiating cells (GIC) and syngeneic neural stem cells derived from enhanced pluripotent stem cells (iNSC) are a suitable novel pre-clinical pipeline to discover new patient-specific disease mechanisms and to identify druggable targets for personalised therapy. Overall design: Transcriptomic and DNA methylation analysis of murine eNSC and two classes of induced NSC

Sample: RRBS_iNSC 2, rep 1, Gibco protocol

SAMN15520523 • SRS6998175 • All experiments • All runs

Organism: Mus musculus

Library:

Instrument: NextSeq 500

Strategy: Bisulfite-Seq

Source: GENOMIC

Selection: Reduced Representation

Layout: PAIRED

Construction protocol: RNA and DNA were extracted from cell pellets using the RNA/DNA/Protein Purification Plus kit (NORGEN, #47700), following the manufactured protocol. RNA samples were sequenced on HiSeq4000, at 75 bp PE after polyA selection. For the RRBS library preparation, DNA samples were digested overnight with restriction enzyme Mssp1 (Agilent), then prepared following the manufactured protocol of NEBNext® Ultra™ II DNA Library Prep Kit for Illumina® (Biolab, E7645). Finally, bisulfite conversion following Zimo kit (Qiagen, D5001) run on NextSeq 500 Mid Output Run 150 cycles.

Experiment attributes:

GEO Accession: GSM4669695

Links:

NCBI link: NCBI Entrez (gds)

Runs: 8 runs, 32.6M spots, 4.9G bases, 1.9Gb

Run	# of Spots	# of Bases	Size	Published
SRR12212332	3,937,636	586.2M	237.7Mb	2021-09-18
SRR12212333	3,879,149	577.7M	233.8Mb	2021-09-18
SRR12212334	4,477,235	667.1M	262.9Mb	2021-09-18
SRR12212335	4,140,292	616.7M	249.6Mb	2021-09-18
SRR12212336	4,039,207	602.1M	243.3Mb	2021-09-18
SRR12212337	4,139,936	617.1M	252.7Mb	2021-09-18
SRR12212338	3,986,011	594.1M	244.7Mb	2021-09-18
SRR12212339	3,999,603	596.2M	247.3Mb	2021-09-18

ID:: 11348198

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