|
Status |
Public on Nov 07, 2022 |
Title |
dCas9-KRAB DF1, CRISPRi IRF7 targted knockdown_B |
Sample type |
SRA |
|
|
Source name |
DF1
|
Organism |
Gallus gallus |
Characteristics |
cell line: DF1 cell type: Embryonic fibroblast genotype: dCas9-KRAB treatment: IRF7 knockdown
|
Extracted molecule |
total RNA |
Extraction protocol |
Total RNA was extracted using Zymo DirectZol mini mRNA library preparation (poly A enrichment)
|
|
|
Library strategy |
RNA-Seq |
Library source |
transcriptomic |
Library selection |
cDNA |
Instrument model |
Illumina NovaSeq 6000 |
|
|
Description |
KRAB_IRF7_B
|
Data processing |
Raw read quailty trimming and adaptor removal: TrimGalore (version 0.6.7) Read alignment against bGalGal1.mat.broiler.GRCg7b (NCBI annotation release 106): STAR (version 2.7.10a) Raw read count extraction from bam files: htseq-count (version 0.13.5) Assembly: bGalGal1.mat.broiler.GRCg7b (NCBI annotation release 106) Supplementary files format and content: csv, raw read counts of annotated genes in matrix format across all samples
|
|
|
Submission date |
Nov 04, 2022 |
Last update date |
Nov 07, 2022 |
Contact name |
Tae Hyun Kim |
E-mail(s) |
tpk5258@psu.edu
|
Organization name |
Penn State University
|
Street address |
317 AVBS
|
City |
University Park |
State/province |
PA |
ZIP/Postal code |
16802 |
Country |
USA |
|
|
Platform ID |
GPL26853 |
Series (1) |
GSE217310 |
Targeted modulation of chicken genes in vitro using CRISPRa and CRISPRi toolkit |
|
Relations |
BioSample |
SAMN31610276 |
SRA |
SRX18173619 |