|
Status |
Public on Sep 11, 2023 |
Title |
advanced adenoma plasma EV 6 |
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.
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|
|
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
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|
|
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 |
SAMN32093392 |
SRA |
SRX18528171 |