|
| Status |
Public on Sep 11, 2023 |
| Title |
advanced adenoma plasma EV 5 |
| Sample type |
SRA |
| |
|
| Source name |
plasma
|
| Organism |
Homo sapiens |
| Characteristics |
tissue: plasma
disease state: advanced adenoma
|
| Extracted molecule |
total RNA |
| Extraction protocol |
RNA was harvested using Rneasy mini plus kit (Qiagen). 1.3 ug of total RNA was used for the construction of sequencing libraries.
miRNA libraries for miRNA-seq were prepared using SMARTER miRNA-Seq Library Prep Kit following manufacturer's protocols.
|
| |
|
| Library strategy |
miRNA-Seq |
| Library source |
transcriptomic |
| Library selection |
size fractionation |
| Instrument model |
Illumina HiSeq 2500 |
| |
|
| Data processing |
The raw data (raw reads) obtained from Illumina HiSeqTM 2500 sequencing.
The connectors at both ends of the reads, and the reads with fragment length less than 17nt and low-quality read were removed to complete the preliminary filtering of data and obtain high-quality data (clean reads).
C++and R languages were used to control the quality of raw data to obtain clean and high-quality data.
The expression of microRNA was analyzed with Perl software, and the differential expression of microRNA was obtained with edgeR software.
Assembly: mm10
Supplementary files format and content: tab-delimited text files include RPKM values for each Sample
|
| |
|
| Submission date |
Dec 07, 2022 |
| Last update date |
Sep 11, 2023 |
| Contact name |
yunjie shi |
| E-mail(s) |
shiyunpengjie@126.com
|
| Phone |
8613817955053
|
| Organization name |
Naval Medical University
|
| Street address |
No 800，Xiangyin Road
|
| City |
Shanghai |
| ZIP/Postal code |
200433 |
| Country |
China |
| |
|
| Platform ID |
GPL16791 |
| Series (1) |
| GSE220445 |
Discovery of extracellular vesicles derived miR-185-5p in patient’s plasma as an indicator for advanced adenoma and malignant tumor of colon |
|
| Relations |
| BioSample |
SAMN32093393 |
| SRA |
SRX18528170 |
