GEO Logo
   NCBI > GEO > Accession DisplayHelp Not logged in | LoginHelp
GEO help: Mouse over screen elements for information.
Series GSE112473 Query DataSets for GSE112473
Status Public on Apr 30, 2018
Title Waveband Specific Transcriptional Control of Select Genetic Pathways in Xiphophorus maculatus Skin
Organism Xiphophorus maculatus
Experiment type Expression profiling by high throughput sequencing
Summary Changes in the transcriptional profiles of Xiphophorus maculatus skin was assessed by RNA-Seq after exposure to fluorescent (i.e., FL, 4,100K or “cool white”), or narrow wavelength regions of light between 300-600 nm (i.e., 50 nm or 10 nm regions, herein termed ”wavebands”). Exposure to varied 50 nm wavebands allowed identification of waveband specific transcriptional modulation within gene sets representing discrete functional pathways within Xiphophorus skin. For example, exposure to either 350-400 or 450-500 nm wavebands resulted in opposite transcriptional effects in necrosis and apoptosis gene sets that predict selective differential suppression or activation of these pathways (i.e., 350-400 nm; necrosis suppression, apoptosis activation, and 450-500 nm; apoptosis suppression, necrosis activation). Further investigation of waveband specific transcription employing successive 10 nm waveband exposures within the genetically responsive 500-550 nm waveband show; (a) greater numbers of genes may be transcriptionally modulated after 10 nm exposures, than observed for either 50 nm or FL exposures. (b) the 10 nm wavebands incite greater functional specificity than either 50 nm or FL exposures. (c) The principal genetic effects of FL are primarily due to the 30 nm between 500 to 530 nm.
Overall design Xiphophorus maculatus fish were exposed to 4,100K fluorescent light, 50 nm wavelength window (waveband) between 300 to 600 nm wavelength region, or 10 nm waveband between 500 and 550 nm wavelength region. Gene expression were profiled by mRNA-Seq following exposure to each type of light exposre and were compared to the baseline gene expression (i.e., no light exposure)
Contributor(s) Walter R, Boswell M, Chang J, Boswell W, Lu Y, Novarro K, Walter S, Walter D, Salinas R, Savage M
Citation(s) 29747585
Submission date Mar 28, 2018
Last update date Feb 12, 2020
Contact name Yuan Lu
Organization name Xiphophorus Genetic Stock Center
Street address university drive
City San Marcos
State/province TX
ZIP/Postal code 78666
Country USA
Platforms (1)
GPL24317 Illumina HiSeq 2000 (Xiphophorus maculatus)
Samples (32)
GSM3070842 50nm_control_1
GSM3070843 50nm_control_2
GSM3070844 300nm-350nm_1
BioProject PRJNA447434
SRA SRP136668

Download family Format
SOFT formatted family file(s) SOFTHelp
MINiML formatted family file(s) MINiMLHelp
Series Matrix File(s) TXTHelp

Supplementary file Size Download File type/resource
GSE112473_all.counts.csv.gz 944.8 Kb (ftp)(http) CSV
SRA Run SelectorHelp
Raw data are available in SRA
Processed data are available on Series record

| NLM | NIH | GEO Help | Disclaimer | Accessibility |
NCBI Home NCBI Search NCBI SiteMap