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SRX7855148: GSM4384989: 5_CT3; Gallus gallus; RNA-Seq
1 ILLUMINA (Illumina HiSeq 4000) run: 56.4M spots, 5.6G bases, 1.9Gb downloads

Submitted by: NCBI (GEO)
Study: RNA sequencing of Hes5.3+ cells from E5 chick embryonic retinas in control and retinoic acid treated conditions.
show Abstracthide Abstract
Two E5 (HH26) chick embryonic retinas were dissected from two embryos, electroporated with Hes5.3-GFP reporter plasmid, and incubated in 2.5 µM retinoic acid (RA) in culture medium (DMEM, 10% FBS, 1% Penicillin/Streptomycin) for 8 hours. The corresponding opposite retinas from the same embryos were used as controls and incubated in culture medium with DMSO. Cells were dissociated and GFP+ cells were sorted by FACS. RNA was extracted using TRIzol reagent, according to manufacturer's protocol. RNA samples were quantified by Qubit 4 fluorometer (Thermo Fisher), and RNA quality was assessed by BioAnalyzer (Agilent). RNA sequencing was performed. This protocol was done in triplicate for RA and control conditions. Overall design: Gene expresson by RNA-seq in Hes5.3+ cells from two E5 chick embryonic retinas taken from two different embryos and treated with RA, vs two control retinas from the opposite side of the same embryos, in triplicate.
Sample: 5_CT3
SAMN14300066 • SRS6264539 • All experiments • All runs
Organism: Gallus gallus
Library:
Instrument: Illumina HiSeq 4000
Strategy: RNA-Seq
Source: TRANSCRIPTOMIC
Selection: cDNA
Layout: SINGLE
Construction protocol: RNA from FACS sorted cells was extracted using TRIzol reagent according to manufacturer's protocol. The SMARTer™ Ultra Low RNA kit from Clontech was used for the reverse transcription and cDNA amplification according to manufacturer's specifications, starting with 1 ng of total RNA as input. 200 pg of cDNA were used for library preparation using the Nextera XT kit from Illumina. Library molarity and quality was assessed with the Qubit and Tapestation using a DNA High sensitivity chip (Agilent Technologies). Libraries were pooled and loaded at 2 nM for clustering on a Single-read Illumina Flow cell. Reads of 100 bases were generated using the TruSeq SBS chemistry on an Illumina HiSeq 4000 sequencer.
Experiment attributes:
GEO Accession: GSM4384989
Links:
Runs: 1 run, 56.4M spots, 5.6G bases, 1.9Gb
Run# of Spots# of BasesSizePublished
SRR1124355056,377,2525.6G1.9Gb2020-11-02

ID:
10276688

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