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GenomicsTOP1M-NM-1 functions on nucleosome density
DNA topoisomerases release supercoils in DNA introduced during replication or transcription. How DNA topoisomerases impact transcription in the context of eukaryotic chromatin is poorly understood. In this study, using a floral stem cell model in Arabidopsis, we uncovered a role of TOP1M-NM-1 in Pol...
ORGANISM(S): Arabidopsis thaliana 
2014-10-14 | E-GEOD-53950 | biostudies-arrayexpress
GenomicsCytoplasmic translocation of tumor suppressor HINT1 and its impact on cell shape during density transition
Cytoplasmic translocation of tumor suppressor HINT1 and its impact on cell shape during density transition
PRJNA1129113 | ENA
ModelsHarish2009 - nuclear–cytoplasmic ERK oscillation model
This model is based on the supplementary material of the publication “Rapid and sustained nuclear–cytoplasmic ERK oscillations induced by epidermal growth factor This model is an Antimony version of the original MATLAB model.
2023-06-19 | MODEL2306170002 | BioModels
MetabolomicsThe Impacts of Sortase A and the 4'-Phosphopantetheinyl Transferase Homolog Sfp on Streptococcus mutans Extracellular Membrane Vesicle Biogenesis

Extracellular membrane vesicles (EMVs) are produced by many Gram-positive organisms, but information regarding vesiculogenesis is incomplete. We used single gene deletions to evaluate the impacts on Streptococcus mutans EMV biogenesis of Sortase A (SrtA), which affects S. mutans...

2021-10-06 | MTBLS1812 | MetaboLights
TranscriptomicsTranscriptome profiling of mouse embryonic fibroblasts upon contact inhibition
Chromatin modifying activities for construction of appropriate epigenetic landscapes by polycomb repressive complex 2 (PRC2) play an essential role in development and tumorigenesis. However, the spatiotemporal mechanisms by which PRC2 achieves diverse epigenomes for specific tissue or cellular conte...
ORGANISM(S): Mus musculus 
2016-07-26 | E-GEOD-63535 | biostudies-arrayexpress
UnknownIn vitro cell cycle oscillations exhibit a robust and hysteretic response to changes in cytoplasmic density.
Not available
S-EPMC8832984 | biostudies-literature
TranscriptomicsAML with mutated NPM1 carrying a normal or aberrant karyotype show overlapping features
AML with mutated NPM1 usually carries normal karyotype (NK) but it may harbor chromosomal aberrations whose significance remains unclear. We addressed this question in 631 AML patients with mutated/cytoplasmic NPM1. An abnormal karyotype (AK) was present in 93/631 cases (14.7%), the most frequent ab...
ORGANISM(S): Homo sapiens 
2009-06-01 | E-GEOD-16015 | biostudies-arrayexpress
TranscriptomicsBenzoate induced transcriptomic response in Bacillus subtilis
Bacillus subtilis strain AG174 was grown in the presence and absence of benzoate (30 mM). Benzoate was used in order to equalize the external and internal pH. The cultures were grown at external pH 7.0, and the addition of benzoate did not change the external pH. Microarray analysis was performed o...
ORGANISM(S): Bacillus subtilis 
2010-05-19 | E-GEOD-12263 | biostudies-arrayexpress
ProteomicsSeparation and Paired Proteome Profiling of Plant Chloroplast and Cytoplasmic Ribosomes
Conventional preparation methods of plant ribosomes fail to resolve non-translating chloroplast or cytoplasmic ribosome subunits from translating fractions. We established preparation of these ribosome complexes from Arabidopsis thaliana leaf, root, and seed tissues by optimized sucrose density grad...
ORGANISM(S): Arabidopsis thaliana (Mouse-ear cress) 
2021-09-09 | PXD019329 | Pride
Plant proteomics Tissue specific separation Ribosome complexes Ribo-proteome In vivo protein complex stabilization 
UnknownCell state-specific cytoplasmic density controls spindle architecture and scaling.
Not available
S-EPMC12173940 | biostudies-literature
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