Sample 5
Homo sapiens
Protocols: Monocytes co-cultured with autologous HIV-infected CD4+ in the presence of 50 nM isotype control, 10-1074 and 10-1074-SiaD for 16 h were harvested. The RNA-seq data analysis was performed by Bencos Research Solutions Pvt. Ltd., Mumbai, India. For the analysis, the raw data obtained after performing the RNA sequencing were aligned to Reference Human Genome assembly GRCh38 using the salmon (v 1.10.1) software in conjunction with STAR aligner (v 2.7.10a). Raw read counts were used as the input to perform differential gene expression analysis using the R package DESeq2 (v 1.34.0). DESeq2 normalized read counts were used to calculate the log2 fold change and adjusted p-values. P values were adjusted using Benjamini-Hochberg procedure to determine the False Discovery Rate (FDR) and control for multiple testing Raw read counts were used as the input to perform differential gene expression analysis using the R package DESeq2 (v 1.34.0). DESeq2 normalized read counts were used to calculate the log2 fold change and adjusted p-values. P values were adjusted using Benjamini-Hochberg procedure to determine the False Discovery Rate (FDR) and control for multiple testing RNA isolation was performed using the using RNAeasy micro kit (Qiagen, Catalog #74004) with on-column DNA digestion Libraries were constructed on Stranded mRNA Library Prep Kit (Illumina) using 25 ng input RNA
ENA first public
2025-10-30
INSDC center name
Northwestern University
INSDC status
public
Submitter Id
E-MTAB-15808:Sample 5
broker name
ArrayExpress
collection date
not collected
common name
human
developmental stage
adult
disease
HIV infection
geographic location (country and/or sea)
not collected
individual
DONOR 2
isolate
not applicable
organism part
immune system
sample name
E-MTAB-15808:Sample 5
scientific_name
Homo sapiens