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Series GSE131486 Query DataSets for GSE131486
Status Public on Nov 12, 2019
Title Effect of acupuncture treatments on retinal transcriptome after optic nerve injury
Organism Mus musculus
Experiment type Expression profiling by high throughput sequencing
Summary Purpose: We used RNA sequencing to investigate the effect of acupuncture treatment on retinal transcritome after optic nerve injury
Methods: Retinal mRNA profiles of 5-week-old wild-type (WT), optic nerve crush injury (ONC), ONC injury with acupuncture treatment at acupoint GB20 (ONC-F) and ONC injury with acupuncture treatment at acupoint BL1 (ONC-J) mice were generated by deep sequencing, in triplicate, using Illumina Hiseq platform. The sequence reads that passed quality filters were analyzed with DESeq2 R package to identify differently expressed genes with padj<0.05. qRT–PCR validation was performed using TaqMan and SYBR Green assays
Results: RNA-seq revealed that 436 genes including 31 transcription factors (TFs) were changed after injury, which include many well-known neural degeneration related TFs such as Jun, Ddit3, Atf3 and Atf4. Interestingly, acupuncture treatment at acupoint GB20 (Fengchi) or BL1(Jingming) after ONC injury both resulted in change of retinal gene expression, compared with ONC injury without treatment; furthermore, acupuncture treatment also reversed several gene expression status induced by axon injury.
Conclusions: Our research first reported that acupuncture treatment after injury can regulated retinal transcriptome and reversed the gene expression level induced after injury, which will provide novel therapeutic targets for treatment of retinopathy diseases.
Overall design Retinal mRNA profiles of 5-week-old mice were generated by deep sequencing, in triplicate, using Illumina Hiseq.
Contributor(s) Miao L
Citation(s) 31680887
Submission date May 20, 2019
Last update date Nov 12, 2019
Contact name Linqing Miao
Phone +8617610065722
Organization name Beijing Institute of Technology
Department Advanced Innovation Center
Street address No.5 Zhongguancun South St, Haidian District
City Beijing
State/province Beijing
ZIP/Postal code 100081
Country China
Platforms (1)
GPL24247 Illumina NovaSeq 6000 (Mus musculus)
Samples (15)
GSM3781533 WT1
GSM3781534 WT2
GSM3781535 WT3
BioProject PRJNA543831
SRA SRP198934

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

Supplementary file Size Download File type/resource
GSE131486_gene_count.xlsx 3.6 Mb (ftp)(http) XLSX
GSE131486_gene_fpkm.xlsx 7.3 Mb (ftp)(http) XLSX
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Raw data are available in SRA
Processed data are available on Series record

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