GSM1283036: NKT-2_2; Mus musculus; RNA-Seq - SRA

SRX389409: GSM1283036: NKT-2_2; Mus musculus; RNA-Seq
1 ILLUMINA (Illumina HiSeq 1000) run: 14.6M spots, 742.6M bases, 460.9Mb downloads

Submitted by: Gene Expression Omnibus (GEO)

Study: RNAseq analysis of mature thymic NKT cells and immature thymic DN1eP cells

PRJNA231006 • SRP033628 • All experiments • All runs

show Abstracthide Abstract

We report the identification of immature thymic CD4(-),CD8(-) double-negative (DN)1e cells with the NKT cell lineage potential. We also analyzed the gene expression profiles of DN1e thymocytes compared with those of mature thymic NKT cell developmental stages termed NKT stage-1, 2, and -3, which are characterized by differential expression levels of NK1.1 and CD44 antigens in C57BL/6J mouse strain. Overall design: Next generation sequencing of total transcriptomes using total RNA isolated from FACS sorted ex vivo thymic DN1eP (Lin-/CD44+/CD25-/CD24low/CD5+/CD27+/Ly108-/CXCR3+) fraction, and mature thymic alphaGalCer-loaded CD1d dimer+TCRbeta+ NKT cell developmental stage-1 (CD44-/NK1.1-), stage-2 (CD44+/NK1.1-), and stage-3 (CD44+/NK1.1+) cells, obtained from C57BL/6J wild-type mice.

Sample: NKT-2_2

SAMN02439423 • SRS513091 • All experiments • All runs

Organism: Mus musculus

Library:

Instrument: Illumina HiSeq 1000

Strategy: RNA-Seq

Source: TRANSCRIPTOMIC

Selection: cDNA

Layout: SINGLE

Construction protocol: Thymocyted were highly purified using standard methods, including MACS sorting followed by FACS sorting, and RNA was prepared using RNeasy Micro Plus kit containing gDNA eliminator columns. RNA was analyzed for quantity and quality using Agilent Bioanalyzer 2100 equipment. and around 10-to-100 ng of total RNA was used with SMARTer Ultra Low Input RNA for Illumina Sequencing kit (Clontech) or Illumina TruSeq RNA Sample Prep Kit v2 for the construction of sequencing libraries. RNA libraries were prepared for sequencing using standard Illumina protocols

Experiment attributes:

GEO Accession: GSM1283036

Links:

External link: GEO Sample GSM1283036

NCBI link: NCBI Entrez (gds)

Runs: 1 run, 14.6M spots, 742.6M bases, 460.9Mb

Run	# of Spots	# of Bases	Size	Published
SRR1046012	14,559,979	742.6M	460.9Mb	2015-12-31

ID:: 559237

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