|
| Status |
Public on Feb 20, 2019 |
| Title |
Pat27T |
| Sample type |
SRA |
| |
|
| Source name |
lung adenocarcinoma tumor
|
| Organism |
Homo sapiens |
| Characteristics |
patient id: Pat27
disease: lung adenocarcinoma
age: 50
gender: Female
smoking_status: never smoker
molecule subtype: microRNA
tumor stage: 1A
|
| Extracted molecule |
total RNA |
| Extraction protocol |
cDNA size selection was carried out with the Sage Science’s Pippin prep electrophoresis platform. Sequencing of pooled libraries were performed on HiSeq 2000 sequencing system (Illumina) with the single end read of 50 bp length.
Small RNA sequencing libraries were prepared according to the manufacturer’s instructions using the Illumina Small RNA Prep kit.
|
| |
|
| Library strategy |
miRNA-Seq |
| Library source |
transcriptomic |
| Library selection |
size fractionation |
| Instrument model |
Illumina HiSeq 2000 |
| |
|
| Data processing |
miRNA sequencing was performed on Illumina HiSeq 2000 platform using 1X50bp single-end runs.
For miRNA-Seq data, sequencing reads were mapped to the miRBase release 19 using Bowtie V.0.12.9 with the perfect match option after removing adapter sequences.
Genome_build: miRBase v19
Supplementary_files_format_and_content: Tab-delimited text files include read count values for each sample
|
| |
|
| Submission date |
Feb 20, 2018 |
| Last update date |
Feb 20, 2019 |
| Contact name |
Jihae Seo |
| E-mail(s) |
jihae.seo83@gmail.com
|
| Organization name |
Ewha Womans University
|
| Department |
Ewha Research Center for Systems BIology
|
| Street address |
52 Ewhayeodae-gil, Seodaemun-Gu
|
| City |
Seoul |
| ZIP/Postal code |
03760 |
| Country |
South Korea |
| |
|
| Platform ID |
GPL11154 |
| Series (1) |
| GSE110907 |
Identification of tumor suppressor microRNAs by integrative miRNA and mRNA sequencing of matched tumor normal pairs in lung adenocarcinoma |
|
| Relations |
| BioSample |
SAMN08578759 |
| SRA |
SRX3729899 |
