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Expression data changes induced by several rounds of migration through small pores in T-ALL cells

ABSTRACT: Expression data changes induced by several rounds of migration through small pores in T-ALL cells

PROVIDER: PRJNA885075 | ENA |

REPOSITORIES: ENA

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Expression data changes induced by several rounds of migration through small pores in T-ALL cells

Project description:Persistent migration through narrow spaces confers permanent phenotypical and functional consequences to T-ALL cells, influencing the genetic instability and inducing nuclear heterogeneity.

2023-10-12 | GSE214365 | GEO

Expression data changes induced by one round migration through 3 μm pores in T-ALL cells

Project description:One round migration through 3 μm pores promotes changes in transcription of T-ALL cells

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Expression data changes induced by one round migration through 3 μm pores in T-ALL cells

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Migration through a small pore disrupts inactive chromatin organisation in neutrophil-like cells [RNA-seq]

Project description:Background. Mammalian cells are flexible and can rapidly change shape when they contract, adhere, or migrate. Their nucleus must be stiff enough to withstand cytoskeletal forces, but flexible enough to remodel as the cell changes shape. This is particularly important for cells migrating through constricted space, where the nuclear shape must change in order to fit through. This happens many times in the life cycle of a neutrophil, which must protect its chromatin from damage and disruption associated with migration. Results. Total RNA-sequencing identified that neutrophil migration through 5 or 14 µm pores was associated with changes in the transcript levels of inflammation and chemotaxis-related genes, when compared to unmigrated cells. Differentially expressed transcripts specific to migration with constriction were enriched for groups of genes associated with cytoskeleton remodelling. Hi-C was used to capture the genome organisation in control and migrated cells. Chromatin did not switch between the active (A) and inactive (B) compartments after migration. However, global depletion of mid- to long-range contacts was observed following active migration through the 5 µm pores. Chromatin contacts that decreased in frequency were enriched in inactive chromatin. Conclusion. Mid- to long-range contacts are preferentially lost within inactive chromatin, thus protecting transcriptionally active contacts from the disruptive effects of migration with constriction. This is consistent with current hypotheses implicating heterochromatin as the mechanoresponsive form of chromatin. Further investigation concerning the contribution of heterochromatin to stiffness, flexibility, and protection of nuclear function will be important for understanding cell migration in human health and disease.

2018-10-04 | GSE115632 | GEO

Migration through a small pore disrupts inactive chromatin organisation in neutrophil-like cells [Hi-C]

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Nuclear Pores provide a scaffold for induced enhancer promoter contacts

Project description:We found that in addition to promoters, multiple Nups bind enhancers and insulators in the Drosophila genome. We identified a functional role for Nup98 in mediating enhancer-promoter looping at ecdysone-inducible genes. These genes were found to be stably associated with nuclear pores before and after activation. Interestingly, although changing the levels of Nup98 disrupted induced enhancer-promoter contact, it did not affect transcriptional activation. Instead, loss of Nup98-mediated enhancer-promoter contact affected the primed response to subsequent transcriptional activation or transcriptional memory. In support of the enhancer-looping role, we found Nup98 to gain and retain physical interactions with several architectural proteins upon stimulation with ecdysone.

2017-03-30 | GSE94922 | GEO

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