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MetabolomicsControlling mitochondrial membrane architecture via MIC60 determines viral replication to promote anti-viral immunity
Virus-infected cells often exhibit dramatic cellular changes accompanied by altered mitochondrial function. The contribution of factors shaping the inner mitochondrial membrane (IMM) and cristae architecture on viral replication is insufficiently understood. Single cell transcriptomics applying vesi...
2025-06-24 | MTBLS12437 | MetaboLights
MetabolomicsMuscle metabolic resilience and enhanced exercise adaptation by Esr1-induced remodeling of mitochondrial cristae-nucleoid architecture in males

Reduced estrogen action is associated with obesity and insulin resistance. However, the cell and tissue-specific actions of estradiol in maintaining metabolic health remain inadequately understood, especially in men. We observed that skeletal muscle ESR1/Esr1 (encodes estrogen receptor α) is posi...

2025-04-09 | MTBLS914 | MetaboLights
TranscriptomicsTranscriptional Architecture and Chromatin Landscape of the Core Circadian Clock in Mammals
This SuperSeries is composed of the following subset Series: GSE39977: Transcriptional Architecture and Chromatin Landscape of the Core Circadian Clock in Mammals [ChIP-seq] GSE39978: Transcriptional Architecture and Chromatin Landscape of the Core Circadian Clock in Mammals [RNA-seq] Refer to indiv...
ORGANISM(S): Mus musculus 
2012-08-31 | E-GEOD-39860 | biostudies-arrayexpress
GenomicsIn vivo probing of the DNA-binding Architecture by bacterial arginine repressor
Although DNA motifs recognized by the transcription factors (TFs) have been determined, challenges remain in probing in vivo architecture of TF-DNA complexes on a genome-wide scale. Here, we show in vivo architecture of Escherichia coli arginine repressor (ArgR)-DNA complexes using chromatin immunop...
ORGANISM(S): Escherichia coli str. K-12 substr. MG1655 
2015-04-01 | E-GEOD-60546 | biostudies-arrayexpress
TranscriptomicsThe contribution of cohesin-SA1 to chromatin architecture and gene expression in two murine tissues [RNA-seq]
Cohesin, which consists of SMC1, SMC3, Rad21 and either SA1 or SA2, topologically embraces the chromatin fibers to hold sister chromatids together and to stabilize chromatin loops. Increasing evidence indicates that these loops are the organizing principle of higher-order chromatin architecture, whi...
ORGANISM(S): Mus musculus 
2015-04-07 | E-GEOD-59119 | biostudies-arrayexpress
GenomicsThe effect of bound RSC/nucleosome complex on chromatin architecture and gene expression at the GAL genes of yeast
How is chromatin architecture established and what role does it play in activation of transcription? We show that a regulatory locus in yeast (the UASg) bears, in addition to binding sites for the activator Gal4, sites bound by the protein RSC. RSC tightly positions a nucleosome, evidently partial...
ORGANISM(S): Saccharomyces cerevisiae 
2010-05-01 | E-GEOD-20078 | biostudies-arrayexpress
TranscriptomicsThe Nucleosome Landscape of P. falciparum Reveals Chromatin Architecture and Dynamics of Regulatory Sequences
In eukaryotes, the chromatin architecture has a pivotal role in regulating all DNA-related processes. For P. falciparum, the causative agent of human malaria, the nucleosome landscape of the extremely AT-rich intergenic regulatory regions is largely unexplored. With the aid of a highly controlled MN...
ORGANISM(S): Plasmodium falciparum 
2015-11-25 | E-GEOD-66185 | biostudies-arrayexpress
TranscriptomicsRegulation of inflorescence architecture by inter-tissue-layer ligand-receptor communication between endodermis and phloem
Inflorescence architecture of Arabidopsis thaliana is regulated by ER-EPFL4/6 signaling module. To analyze the genes governed by this module, the transcriptional profiles of er-2 (allelic to er-106) mutant and epfl4 epfl6 double mutant were investigated. 9 samples are included in this study. Three b...
ORGANISM(S): Arabidopsis thaliana 
2012-03-27 | E-GEOD-35166 | biostudies-arrayexpress
TranscriptomicsThree-dimensional modeling of the P. falciparum genome during the erythrocytic cycle reveals a strong connection between genome architecture and gene expression
The development of the human malaria parasite Plasmodium falciparum is controlled by coordinated changes in gene expression throughout its complex life cycle, but the corresponding regulatory mechanisms are incompletely understood. To study the relation between genome architecture and gene regulatio...
ORGANISM(S): Plasmodium falciparum 3D7 
2014-01-06 | E-GEOD-50199 | biostudies-arrayexpress
TranscriptomicsInteractions among Polycomb domains are guided by chromosome architecture
Polycomb group (PcG) proteins bind and regulate hundreds of genes. Previous evidence has suggested that long-range chromatin interactions may contribute to the regulation of PcG target genes. Here, we adapted the Chromosome Conformation Capture on Chip (4C) assay to systematically map chromosomal in...
ORGANISM(S): Drosophila melanogaster 
2011-05-09 | E-GEOD-23166 | biostudies-arrayexpress
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