|
| Status |
Public on Jan 20, 2023 |
| Title |
TmR_sh64_s1_S02: DLL1 KD1-repeat1 |
| Sample type |
SRA |
| |
|
| Source name |
tamoxifen resistant breast tumor cells
|
| Organism |
Homo sapiens |
| Characteristics |
tissue: tamoxifen resistant breast tumor cells
condition: DLL1-KD1
|
| Treatment protocol |
Cells were treated with trypsin for single cell isolation. DLL1 KD was made using lentivius mediated shRNAs from Sigma
|
| Growth protocol |
Cells were grown in Iscoves media usings erum and Pen/Strep
|
| Extracted molecule |
total RNA |
| Extraction protocol |
Cells were trypsinized and then single cells were lysed using lysis buffer from Invitrogen RNA extration kit. Total RNA was isolated using standarad procedure following manufacture's protocol.
Library construction protocol was using standard protocol from Illumina
|
| |
|
| Library strategy |
RNA-Seq |
| Library source |
transcriptomic |
| Library selection |
cDNA |
| Instrument model |
Illumina HiSeq 2500 |
| |
|
| Description |
cell lines were made using lentivirus
|
| Data processing |
Reads were counted against gencode v29 transcripts and summarized to the gene level with tximport in R
Genome_build: GRh38.p12
Genome_build: Gencode version 29
Supplementary_files_format_and_content: raw counts per gene, ensembl gene IDs, comma-separated values
|
| |
|
| Submission date |
Jan 21, 2020 |
| Last update date |
Jan 20, 2023 |
| Contact name |
Rumela Chakrabarti |
| E-mail(s) |
rumela@vet.upenn.edu
|
| Organization name |
University of Pennsylvania School of Veterinary Medicine
|
| Street address |
380 S University Ave
|
| City |
Philadelphia |
| State/province |
PA |
| ZIP/Postal code |
19104 |
| Country |
USA |
| |
|
| Platform ID |
GPL16791 |
| Series (1) |
| GSE143989 |
RNA sequence analysis to compare MCF7 Tamoxifen resistant cells with and without DLL1 |
|
| Relations |
| BioSample |
SAMN13895655 |
| SRA |
SRX7586075 |
