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SRX10830912: GSM5288902: Survivor 1 (Irradiated) (E1); Macaca mulatta; RNA-Seq
4 ILLUMINA (NextSeq 500) runs: 24M spots, 1.7G bases, 715.9Mb downloads

Submitted by: NCBI (GEO)
Study: RNA sequencing analysis of lung samples of control and irradiated animals
show Abstracthide Abstract
Purpose: Radiation-induced lung injury (RILI) is a progressive condition, with an early phase, radiation pneumonitis (RP), and a late phase, lung fibrosis (LF). RILI may occur after partial body ionizing radiation exposures or by internal radioisotope exposure, with wide individual variability in timing and extent of lung injury. This study aims to provide new insights into the pathogenesis and progression of RILI in the non-human primate (NHP) rhesus macaque model. Methods:We used an integrative approach to understand RILI and its evolution at clinical and molecular levels in seventeen NHPs exposed to10 Gy of whole thorax irradiation in comparison to three sham-irradiated control NHPs. Lung samples were collected at necropsy for molecular and histopathological analyses using RNA sequencing and immunohistochemistry Results: Our data enhances understanding of RILI in non-survivors and survivors in a NHP model. RNA sequencing highlighted the role of SERPINA3, ATP12A, GJB2, CLDN10, TOX3, LPA as possible biomarkers and potential therapeutic targets of RILI. Their differential expression in nonsurvivors and survivors correlated with the severity of the disease. Overall design: Snap frozen lung samples were selected from 3 lung regions (per animal) from 4 irradiated non-survivor animals (total 12 samples), 4 irradiated survivor animals (total 12 samples) and 2 regions (per animal) from 3 control animals (total 6 samples) for RNA extraction and sequencing.
Sample: Survivor 1 (Irradiated) (E1)
SAMN19101940 • SRS8915045 • All experiments • All runs
Organism: Macaca mulatta
Library:
Instrument: NextSeq 500
Strategy: RNA-Seq
Source: TRANSCRIPTOMIC
Selection: cDNA
Layout: SINGLE
Construction protocol: Total RNA was extracted from 40-80 mg frozen lung tissues from three different affected regions of the lung from eight irradiated animals (4 non-survivors and 4 survivors) and from two different randomly selected regions from three unirradiated control animals. Tissue was placed into a 1.4 mm ceramic bead tube with 1 ml QIAzol lysis reagent and homogenized using a bead mill (Bead Ruptor 24, Omni International, Kennesaw, GA). The tissue sample tube was processed on the Bead Ruptor for 1 cycle at a speed of 5.5 m/s for 20 sec; and repeated up to six times until the sample was completely homogenized. All homogenized lysates were extracted for total RNA using the RNeasy Microarray Tissue Mini kit (Qiagen, Germantown, MD). Extracted RNA was DNase-treated and purified using the RNA Clean and Concentrator-5 kit (Zymo Research, Irvine, CA), then assessed for RNA quality using an Agilent 2100 Bioanalyzer and the RNA 6000 Nano Kit (Agilent Technologies, Santa Clara, CA) RNA libraries were prepared for sequencing using standard Illumina protocols
Experiment attributes:
GEO Accession: GSM5288902
Links:
Runs: 4 runs, 24M spots, 1.7G bases, 715.9Mb
Run# of Spots# of BasesSizePublished
SRR144833215,955,957431.5M178Mb2021-05-11
SRR144833225,903,859428.5M177.3Mb2021-05-11
SRR144833236,092,191442.1M180.8Mb2021-05-11
SRR144833246,035,795438.4M179.8Mb2021-05-11

ID:
14370406

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