|
| Status |
Public on Aug 19, 2021 |
| Title |
WT_MEFs_w_IL-6_rep1 |
| Sample type |
SRA |
| |
|
| Source name |
WT MEFs with IL-6 treatment
|
| Organism |
Mus musculus |
| Characteristics |
cell line: Mouse Embryonic Fibroblast
|
| Extracted molecule |
total RNA |
| Extraction protocol |
An RNeasy Mini Kit (Qiagen) was used to isolate total RNA.
Library preparation was performed using a TruSeq stranded mRNA sample prep kit (Illumina, San Diego, CA) according to the manufacturer’s instructions.
|
| |
|
| Library strategy |
ncRNA-Seq |
| Library source |
transcriptomic |
| Library selection |
size fractionation |
| Instrument model |
Illumina HiSeq 3000 |
| |
|
| Description |
WT MEFs with IL-6 treatment (100 ng/ml) for 24 h
|
| Data processing |
Sequencing was performed on an Illumina HiSeq3000 platform in a 100-base paired-end mode.
The sequenced reads were mapped to the mouse reference genome sequences (GRCm38.p6) using HISAT2.
The fragments per kilobase of exon per million mapped fragments (FPKMs) were calculated using Cufflinks version 2.2.1.
Genome_build: GRCm38.p6
Supplementary_files_format_and_content: FPKM processed value in csv file
|
| |
|
| Submission date |
Jun 15, 2021 |
| Last update date |
Aug 19, 2021 |
| Contact name |
Daisuke Okuzaki |
| E-mail(s) |
dokuzaki@biken.osaka-u.ac.jp
|
| Phone |
+81-6-6879-4935
|
| Organization name |
Osaka univ.
|
| Department |
Immunology Frontier Research Center
|
| Lab |
Human Immunology （Single Cell Genomics)
|
| Street address |
Yamadaoka 3-1
|
| City |
Suita |
| State/province |
Osaka |
| ZIP/Postal code |
565-0871 |
| Country |
Japan |
| |
|
| Platform ID |
GPL21493 |
| Series (2) |
| GSE178250 |
The novel long noncoding RNA lncRNA-AU021063, induced by IL-6/Arid5a signaling, exacerbates breast cancer invasion and metastasis by stabilizing Trib3 and activating the Mek/Erk pathway (ncRNA-Seq) |
| GSE178252 |
The novel long noncoding RNA lncRNA-AU021063, induced by IL-6/Arid5a signaling, exacerbates breast cancer invasion and metastasis by stabilizing Trib3 and activating the Mek/Erk pathway |
|
| Relations |
| BioSample |
SAMN19713810 |
| SRA |
SRX11149870 |
