|
| Status |
Public on Apr 13, 2021 |
| Title |
ABEmax_invitro_Rep3 |
| Sample type |
SRA |
| |
|
| Source name |
HEK cells
|
| Organism |
Homo sapiens |
| Characteristics |
treatment_method: Lipofection
treatment_type: ABEmax7.10
cell type: HEK cells
|
| Treatment protocol |
in vitro: per 48 well plate: 1 ug total DNA with 1.5 ul Lipofectamine2000; in vivo: LNP- or AAV-mediated delivery
|
| Growth protocol |
for in vitro:DMEM growth medium supplemented with 10% FBS and 1% P/S; in vivo samples were isolated from C58BL/6J animals
|
| Extracted molecule |
total RNA |
| Extraction protocol |
in vitro: Detachment with TryplE, wash with PBS, lysis in RLT buffer and RNA isolation following RNAeasy protocol; in vivo: primary hepatocyte isolation
total RNA
|
| |
|
| Library strategy |
RNA-Seq |
| Library source |
transcriptomic |
| Library selection |
cDNA |
| Instrument model |
Illumina NovaSeq 6000 |
| |
|
| Data processing |
Raw reads were trimmed and filtered using fastp version version 0.20.0
Preprocessed reads were aligned to reference genomes using STAR version 2.7.3
variants were called using HaplotypeCaller (GATK version 4.1.2.0)
Genome_build: Mus musculus Ensembl GRCm38.p5; Homo_sapiens Ensembl GRCh38.p10
Supplementary_files_format_and_content: Variant call format (VCF)
|
| |
|
| Submission date |
Mar 05, 2021 |
| Last update date |
Apr 14, 2021 |
| Contact name |
Tanja Rothgangl |
| E-mail(s) |
tanja.rothgangl@uzh.ch
|
| Organization name |
UZH Zurich
|
| Department |
Pharmacology and Toxicology
|
| Lab |
Schwank
|
| Street address |
Winterthurerstrasse, 190
|
| City |
Zurich |
| ZIP/Postal code |
8057 |
| Country |
Switzerland |
| |
|
| Platform ID |
GPL24676 |
| Series (2) |
| GSE168363 |
In vivo adenine base editing of PCSK9 in mice and macaques reduces LDL-cholesterol levels [RNA-seq] |
| GSE168365 |
In vivo adenine base editing of PCSK9 in mice and macaques reduces LDL-cholesterol levels |
|
| Relations |
| BioSample |
SAMN18163338 |
| SRA |
SRX10245882 |
