soybean organism, or alternative binding modes of known TFs. They may also suggest a requirement for co-factors in TF binding. Additionally, it is possible that these motifs exhibit similarity to other TF motifs, as previously observed in ChIP-seq data, where sequences enriched do not always d...
Furthermore, the transcription factors whose binding sites are perturbed by genetic variants tend to have higher expression levels in the cell types where the variants exert their effects, compared to the cell types where the variants have no impact. We further validate our findings with high-...
Germinal center (GC) B cells undergo proliferation at very high rates in a hypoxic microenvironment but the cellular processes driving this are incompletely understood. Here we show that the mitochondria of GC B cells are highly dynamic, with significantly upregulated transcription and translation rates...
7b). We also observed an increase in the levels of many OXPHOS complex assembly factors (Extended Data Fig. 7c). Levels of most of the mitochondrial ribosomal proteins were drastically decreased (Extended Data Fig. 8a) because IMT treatment decreases the 12S and 16S rRNA ...
We further screened 10 hub genes through regulatory network (Fig.5E, F; Additional file1: Fig. S10 and S11). Many of these hub genes are related to hormones. Examples include ethylene response factors (ERF9, ERF4, and RAP2-12), and abscisic acid insensitivity factors (ABF3). In additio...
(especially transcription factors, TFs) of the anchor genes that showed increased interaction degree and enhanced expression level (Fig.3k, l) with the information of TF footprints revealed by ATAC-seq in V28N6 plants (Additional file 2: Table S5). We constructed a gene regulatory network, and...
ArticleThe Transcription Factors TFEB and TFE3 Link the FLCN-AMPK Signaling Axis to Innate Immune Response and Pathogen Resistance Author links open overlay panelLeeanna El-Houjeiri 1 2 5, Elite Possik 1 2 5, Tarika Vijayaraghavan 1 2, Mathieu Paquette 1 2, José A. Martina 3, Jalal M....
The transcription factor hepatocyte nuclear factor 4 A (HNF4A) controls the metabolic features of several endodermal epithelia. Both HNF4A and HNF4G are redundant in the intestine and it remains unclear whether HNF4A alone controls intestinal lipid me
(especially transcription factors, TFs) of the anchor genes that showed increased interaction degree and enhanced expression level (Fig.3k, l) with the information of TF footprints revealed by ATAC-seq in V28N6 plants (Additional file 2: Table S5). We constructed a gene regulatory network, and...
7b). We also observed an increase in the levels of many OXPHOS complex assembly factors (Extended Data Fig. 7c). Levels of most of the mitochondrial ribosomal proteins were drastically decreased (Extended Data Fig. 8a) because IMT treatment decreases the 12S and 16S rRNA levels (Extended Data...