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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
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
TranscriptomicsHigh resolution Hi-C analysis in S. pombe reveals fundamental elements of genome architecture [ChIP-chip]
ChIP-chip analyses of Psc3 in wild-type and mutant fission yeast cells. Eukaryotic genomes are folded into three-dimensional structures that govern diverse hromosomal procsses. Studeis in Drosophila and mammals have revealed large self-associating tomological domains whose borders are enriched in c...
ORGANISM(S): Schizosaccharomyces pombe 
2014-10-22 | E-GEOD-56848 | biostudies-arrayexpress
TranscriptomicsHigh resolution Hi-C analysis in S. pombe reveals fundamental elements of genome architecture [Expression Array]
Eukaryotic genomes are folded into three-dimensional structures that govern diverse hromosomal procsses. Studeis in Drosophila and mammals have revealed large self-associating tomological domains whose borders are enriched in cohesin/CTCF factors that are required for long-range intrations. Howeve...
ORGANISM(S): Schizosaccharomyces pombe 
2014-10-22 | E-GEOD-57159 | biostudies-arrayexpress
TranscriptomicsHigh resolution Hi-C analysis in S. pombe reveals fundamental elements of genome architecture [microarray CGH]
Eukaryotic genomes are folded into three-dimensional structures that govern diverse hromosomal procsses. Studeis in Drosophila and mammals have revealed large self-associating tomological domains whose borders are enriched in cohesin/CTCF factors that are required for long-range intrations. Howeve...
ORGANISM(S): Schizosaccharomyces pombe 
2014-10-22 | E-GEOD-56847 | biostudies-arrayexpress
ProteomicsThe proteome landscape of genome-wide genetic perturbations
Despite the massive research efforts of the post-genomics era, a significant fraction of genes remain without functional annotation. Proteomics holds the promise to close significant gaps, but has only recently reached the scalability and precision of genome-scale studies. Here we combine large-scal...
ORGANISM(S): Saccharomyces Cerevisiae (ncbitaxon:4932) 
2022-08-15 | MSV000090136 | MassIVE
TranscriptomicsHigh resolution Hi-C analysis in S. pombe reveals fundamental elements of genome architecture (NGS)
Eukaryotic genomes are folded into a hierarchy of three-dimensional structures that impact nuclear functions, including transcription, replication, and repair1-3. Studies in Drosophila and mammals have revealed megabase-sized topologically associated domains (TADs) within chromosomes, which in turn ...
ORGANISM(S): Schizosaccharomyces pombe 
2014-10-22 | E-GEOD-57316 | 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
ProteomicsPhage Phix174 - Wildtype and engineered proteome
Sequence overlap between two genes is common across all genomes, with viruses having particularly high proportions of these gene overlaps. The natural biological function and effects on fitness of gene overlaps are not fully understood and their effects on gene cluster and genome-level refactoring a...
ORGANISM(S): Escherichia Virus Phix174 Synthetic Enterobacteria Phage Phix174.1f 
2021-06-15 | PXD019681 | panorama
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
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