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| Status |
Public on Sep 13, 2023 |
| Title |
intestinal tissue exosomes,S2(sham),rep1 |
| Sample type |
SRA |
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| Source name |
small intestine
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| Organism |
Mus musculus |
| Characteristics |
tissue: small intestine
genotype: WT
treatment: Sham operation control
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| Extracted molecule |
total RNA |
| Extraction protocol |
The total RNA of exosomes was extracted using the TRIzol method, and the extracted total RNA was sampled for quality inspection. The Agilent 2100 bioanalyzer was used to analyze the concentration and integrity of RNA. After passing the RNA quality inspection, 10 ng to 20 ng of RNA was digested with RNase R to remove linear RNA and used for library preparation.
The RNA was fragmented, the 5' end conversion template was added, and the first strand of cDNA was reverse-transcribed. After the first round of PCR plus the index connector, the ligation product was purified, and the ribosomal cDNA was removed with ZapR and R-probes. The library was amplified by selecting the appropriate number of cycles according to the initial amount. After amplification, the circRNA SEQ library was purified and isolated with magnetic beads. After library quality control, different libraries were pooled according to the requirements for effective concentration and target offline data volume.
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| Library strategy |
ncRNA-Seq |
| Library source |
transcriptomic |
| Library selection |
size fractionation |
| Instrument model |
Illumina NovaSeq 6000 |
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| Data processing |
TMM (trimmed mean of M-values) was used to normalize the gene expression
Sequencedreadsweretrimmedforadaptersequence,andmaskedforlow-complexityorlow-qualitysequence,thenmappedtomm10wholegenomeusingBowtie2v2.1.0
Assembly: mm10
Supplementary files format and content: tab-delimited txt files include TMM values for each Sample ...
Supplementary files format and content: Matrix table with circRNA reads count for every circRNA and every sample
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| Submission date |
Mar 14, 2023 |
| Last update date |
Sep 13, 2023 |
| Contact name |
Wen-Juan Zhang |
| E-mail(s) |
zhangwj319@126.com
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| Phone |
15626220261
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| Organization name |
Nanfang Hospital, Southern Medical University
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| Street address |
Guangzhou, 1838 Guangzhou Avenue North, Guangzhou 510515, China
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| City |
Guangzhou |
| State/province |
Guangdong |
| ZIP/Postal code |
510515 |
| Country |
China |
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| Platform ID |
GPL24247 |
| Series (1) |
| GSE227355 |
Exosomal circEZH2_005, an intestinal injury biomarker, alleviates intestinal ischemia/reperfusion injury by mediating hnRNPA1/Gprc5a signaling |
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| Relations |
| BioSample |
SAMN33759823 |
| SRA |
SRX19676173 |
| Supplementary data files not provided |
SRA Run Selector |
| Raw data are available in SRA |
| Processed data are available on Series record |
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