2025-10-30
ENA first public
ERC000011
ENA-CHECKLIST
Northwestern University
INSDC center name
public
INSDC status
ERS27068133
SRA accession
E-MTAB-15808:Sample 2
Submitter Id
ArrayExpress
broker name
not collected
collection date
human
common name
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
description
adult
developmental stage
HIV infection
disease
not collected
geographic location (country and/or sea)
DONOR 1
individual
not applicable
isolate
Homo sapiens
organism
Homo sapiens
organism
immune system
organism part
Homo sapiens
scientific_name
Sample 2
title