|
| Status |
Public on Jul 05, 2022 |
| Title |
H 42 ASO3 rep1 |
| Sample type |
SRA |
| |
|
| Source name |
NCI-H460
|
| Organism |
Homo sapiens |
| Characteristics |
tumor type: non-small cell lung cancer (NSCLC)
cell line: NCI-H460
disease subtype: large cell carcinoma
timepoint: 24h after ASO transfection
treatment: antisense oligonucleotide
dose: 25nM
|
| Extracted molecule |
total RNA |
| Extraction protocol |
RNA was extracted using the Quick-RNA MiniPrep kit (Ref R1055, ZymomResearch) according to manufacturer's protocol.
Libraries were prepared using the NEBNext® Ultra RNA Library Prep Kit.
|
| |
|
| Library strategy |
RNA-Seq |
| Library source |
transcriptomic |
| Library selection |
cDNA |
| Instrument model |
Illumina HiSeq 2000 |
| |
|
| Description |
RNAseq, antisense oligonucleotide targeting candidate42 ("CHiLL1") with ASO 3
ASO_TPM_table.csv
H_42_ASO3_vs_CTR_gene_DE_Table.tsv
|
| Data processing |
Libraries were sequenced in paired-end 150 format to a depth of 30M reads/sample.
Transcript quantification was performed using Kallisto v0.46.0116 against GENCODE v36.
Differential expression analysis was performed using Sleuth v0.30.
Assembly: hg38 (GENCODE release 36)
Supplementary files format and content: gene level expression (TPM)
Supplementary files format and content: differential gene expression
|
| |
|
| Submission date |
Jun 29, 2022 |
| Last update date |
Jul 05, 2022 |
| Contact name |
Rory Johnson |
| E-mail(s) |
rory.johnson@ucd.ie
|
| Phone |
+353851840699
|
| Organization name |
UCD Conway Institute for Biomolecular and Biomedical Research
|
| Street address |
Belfield
|
| City |
Dublin |
| ZIP/Postal code |
D04 V1W8 |
| Country |
Ireland |
| |
|
| Platform ID |
GPL11154 |
| Series (2) |
| GSE207227 |
Multi-hallmark long noncoding RNA maps reveal non-small cell lung cancer vulnerabilities [ASOseries] |
| GSE207229 |
Multi-hallmark long noncoding RNA maps reveal non-small cell lung cancer vulnerabilities. |
|
| Relations |
| BioSample |
SAMN29424100 |
| SRA |
SRX15946395 |
