|
| Status |
Public on Dec 03, 2024 |
| Title |
Met_1 |
| Sample type |
SRA |
| |
|
| Source name |
MDA-MB-231
|
| Organism |
Homo sapiens |
| Characteristics |
cell line: MDA-MB-231
treatment: metformin
|
| Treatment protocol |
Cells were treated with metformin (5mM) or vehicle control.
|
| Growth protocol |
MDA-MB-231 cell line was from the American Type Culture Collection (ATCC).
|
| Extracted molecule |
total RNA |
| Extraction protocol |
Total RNA was extracted using RNeasy Kit (Qiagen) by the manufacture’s instruction. RNA purity and concentration were measured using Nanodrop.
Preparation of RNA library and transcriptome sequencing was conducted by Novogene Corporation Inc. (Sacramento, CA USA). The datasets were processed and analyzed using Illumina NovaSeq 6000 Sequencing System.
|
| |
|
| Library strategy |
RNA-Seq |
| Library source |
transcriptomic |
| Library selection |
cDNA |
| Instrument model |
Illumina NovaSeq 6000 |
| |
|
| Description |
MDA-MB-231 cells treated with metformin, biological replicate 1
|
| Data processing |
Sequenced reads in FASTQ files were mapped to hg19 whole genome using STAR, and Fragments Per Kilobase of transcript per Million mapped reads (FPKM) were calculated using Cufflinks.
Assembly: hg19
Supplementary files format and content: tab-delimited text files include UCSC transcript id and their FPKM values along with confidence intervals for each sample.
|
| |
|
| Submission date |
Jan 12, 2023 |
| Last update date |
Dec 03, 2024 |
| Contact name |
Chad Creighton |
| E-mail(s) |
creighto@bcm.tmc.edu
|
| Organization name |
Baylor College of Medicine
|
| Department |
Biostatistics, Ducan Cancer Center
|
| Street address |
One Baylor Plaza, Mail Stop: BCM305
|
| City |
Houston |
| State/province |
TX |
| ZIP/Postal code |
77030 |
| Country |
USA |
| |
|
| Platform ID |
GPL24676 |
| Series (1) |
| GSE222767 |
RNA-seq data of metformin treated MDA-MB-231 cells |
|
| Relations |
| BioSample |
SAMN32718496 |
| SRA |
SRX19022715 |
