NYU Dataset

Human Hepatoma Huh-7 Cell Culture Models Deficient in Apolipoprotein B Secretion

UID: 10757
* Corresponding Author
Description

Apolipoprotein B (apoB) is an essential structural protein for the assembly and secretion of triglyceride-rich lipoproteins. Inhibition of apoB and microsomal triglyceride transfer protein (MTP) decreases plasma lipid levels but at a risk of lipid accumulation in tissues. To understand the global consequences of APOB gene deficiency, a human hepatoma (Huh-7) cell culture model system deficient in apoB was generated. ApoB deficient Huh-7 cells (Ako-3 cells) were generated using the CRISPR/Cas9 system. Total RNA for transcriptomics and overnight conditioned media for proteomics was obtained from the Ako-3 and Huh-7 cells. In addition, total transcriptome analysis for the MTP deficient Huh-7 cells (Mko-3 cells) was performed, since both APOB and MTP are important part of the lipoprotein assembly and secretion.

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Free to All
Instructions
RNA sequencing data have been deposited in Gene Expression Omnibus (GEO).
Access via GEO

RNA-seq data
Accession #: GSE269949

Associated Publications
Data Type
Equipment Used
Applied Biosystems QuantStudio 3
Illumina NovaSeq X Plus
Nikon Eclipse TE300
Thermo Scientific NanoDrop
Software Used
DESeq2 v1.20.0
edgeR
featureCounts v1.5.0
GraphPad Prism v9.0
HISAT2 v2.0.5
Skyline
SnapGene
Grant Support