Lactic acid modifies gene expression and chromatin accessibility of bone marrow-derived macrophages during lipopolysaccharide stimulation (RNA-seq and ATAC-seq)

Lactic acid (LA) has emerged as an important modulator of immune cell function. We performed ATAC-seq to profile the chromatin landscape of bone marrow-derived macrophages (BMDMs) upon lipopolysaccharide (LPS) stimulation with or without LA. Additionally, we also report the genome-wide RNA sequencing analysis in bone marrow-derived macrophages (BMDMs) where LA effect in macrophage inflammatory response was examined in BMDMs upon lipopolysaccharide (LPS) stimulation in the presence or absence of LA. To further examine LA effect due to low pH, hydrochloric acid (HCl) was used to adjust similar pH conditions (i.e. pH 6.5) as in media with LA. Triplicates each of four conditions were subjected to ATAC-seq. Bone marrow derived macrophages (BMDMs) were treated with or without LPS, LPS+LA, LA for 3 hours Duplicates each of five conditions were subjected to RNA-seq. Bone marrow derived macrophages (BMDMs) were treated with or without LPS, LPS+LA, LPS+HCl, LA for 3 hours