NCBI Logo
GEO Logo
   NCBI > GEO > Accession DisplayHelp Not logged in | LoginHelp
GEO help: Mouse over screen elements for information.
          Go
Sample GSM6690303 Query DataSets for GSM6690303
Status Public on Oct 03, 2023
Title Pt2_saliva-postope1
Sample type SRA
 
Source name saliva
Organism Homo sapiens
Characteristics type: EV
treatment: post-operation
Extracted molecule total RNA
Extraction protocol The EV sheet was fabricated from cellulose nanofibers. The EV capture process from moistened organs using the EV sheet consists of the following steps: EV capture by absorption of ascites on organs, EV storage by drying, washing, and EV release. Then, total RNA was extracted using RNA purification kit (Norgen Biotek Corp, Thorold, Canada). To obtain tissue RNA, tissues were shredded using the gentleMACS Dissociator (Miltenyi Biotec, Bergisch Gladbach, Germany) and total RNAs was extracted by using the miRNeasy Plus Mini Kit (QIAGEN, Hilden, Germany).
Small RNA libraries were prepared using the NEBNext Multiplex Small RNA Library Prep Set for Illumina (New England Biolabs, Ipswich, MA). Then, PCR products were separated by electrophoresis (120 V, 60 min), and DNA fragments corresponding to 140–160 bp (the length of small non-coding RNA plus the adaptors) were recovered.
 
Library strategy miRNA-Seq
Library source transcriptomic
Library selection size fractionation
Instrument model NextSeq 550
 
Description ICA001-00169A-001-E01-C01-NGS001_S17_L001_R1_001
Pt2_data file(RPM).xlsx
Data processing CLC Genomics Workbench version 9.5.3 program
Sequence reads were trimmed and mapped to the miRbase 21 database allowing up to two mismatches
Reads per million mapped reads (RPM) method was used for normalization.
Assembly: miRbase 21
 
Submission date Oct 27, 2022
Last update date Oct 03, 2023
Contact name Kosuke Yoshida
E-mail(s) yoshida.kousuke@med.nagoya-u.ac.jp
Organization name Nagoya University
Street address 65 Tsuruma-cho
City Nagoya
State/province Aichi
ZIP/Postal code 466-8550
Country Japan
 
Platform ID GPL21697
Series (1)
GSE216745 Spatial extracellular vesicle microRNA profiles in ovarian cancer
Relations
BioSample SAMN31493556
SRA SRX18050795

Supplementary data files not provided
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