|
| Status |
Public on Sep 01, 2015 |
| Title |
Nt-ERβ_noE2_3 |
| Sample type |
SRA |
| |
|
| Source name |
Breast cancer cells
|
| Organism |
Homo sapiens |
| Characteristics |
cell type: MCF-7_WT
cell cultures: (+EtOH -E2)
cell line: MCF-7
treatment: hormone-starved
|
| Extracted molecule |
total RNA |
| Extraction protocol |
Total RNA was extracted from cell lines using the standard RNA Extraction method with TRI Reagent (Sigma) method
Indexed libraries were prepared from 1 µg/ea. of purified RNA with TruSeq Stranded total RNA Sample Prep Kit (Illumina) according to the manufacturer’s instructions
|
| |
|
| Library strategy |
RNA-Seq |
| Library source |
transcriptomic |
| Library selection |
cDNA |
| Instrument model |
Illumina HiSeq 1500 |
| |
|
| Data processing |
Basecalls was performed using CASAVA version 1.8
Sequenced reads were mapped to hg19 whole genome using Tophat v.2.0.10
Fragments Per Kilobase of exon per Million reads mapped (FPKM) were calculated using Cuffdiff v2.1.1
Genome_build: hg19
Supplementary_files_format_and_content: tab-delimited text files include FPKM values for each Sample
|
| |
|
| Submission date |
Dec 30, 2014 |
| Last update date |
May 15, 2019 |
| Contact name |
Antonio Rinaldi |
| E-mail(s) |
arinaldi@unisa.it
|
| Phone |
3282622631
|
| Organization name |
University of Salerno
|
| Department |
Faculty of Medicine and Surgery
|
| Lab |
Laboratory of Molecular Medicine and Genomics
|
| Street address |
Via Salvatore Allende, 1
|
| City |
Baronissi |
| State/province |
SA |
| ZIP/Postal code |
84081 |
| Country |
Italy |
| |
|
| Platform ID |
GPL18460 |
| Series (1) |
| GSE64590 |
Estrogen Receptor Beta Impacts Hormone-Induced Alternative mRNA Splicing in Breast Cancer Cells |
|
| Relations |
| BioSample |
SAMN03274111 |
| SRA |
SRX825895 |
