|
| Status |
Public on Sep 06, 2017 |
| Title |
HER2_2_RNA-Seq |
| Sample type |
SRA |
| |
|
| Source name |
HER2 positive breast cancer
|
| Organism |
Homo sapiens |
| Characteristics |
tissue: cancer
subtype: HER2 positive
|
| Extracted molecule |
total RNA |
| Extraction protocol |
RNA was harvested using Trizol reagent, Ribo-Zero™ Gold Kits(Human). Illumina TruSeq RNA Sample Prep Kit (Cat#FC-122-1001) was used with 1 ug of total RNA for the construction of sequencing libraries.
RNA libraries were prepared for sequencing using standard Illumina protocols
|
| |
|
| Library strategy |
RNA-Seq |
| Library source |
transcriptomic |
| Library selection |
cDNA |
| Instrument model |
Illumina Genome Analyzer II |
| |
|
| Data processing |
Sequenced reads mapped to hg19 whole genome using tophat version 2.0.9 with parameters by default to get bam files
Cullinks-2.1.1 was used to get the file includes FPKM
Genome_build: hg19
Supplementary_files_format_and_content: txt file includes FPKM about isoforms
|
| |
|
| Submission date |
Aug 06, 2015 |
| Last update date |
May 15, 2019 |
| Contact name |
shipeng shang |
| E-mail(s) |
bio_shangsp@163.com
|
| Organization name |
Department of Breast Surgery, Harbin Medical University Cancer Hospital
|
| Street address |
XueFu Road 194, NanGang District
|
| City |
Harbin |
| ZIP/Postal code |
150081 |
| Country |
China |
| |
|
| Platform ID |
GPL9115 |
| Series (1) |
| GSE71651 |
Next Generation Sequencing Transcriptomes of breast cancer |
|
| Relations |
| SRA |
SRX1135939 |
| BioSample |
SAMN03979322 |
