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Space - BioRxiv

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Last Updated: 21 August 2022

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Visualizing Amino Acid Substitutions in a Physicochemical Vector Space

This research examines the non-arbitrary benefits of evolvability that may have influenced the creation of the development standard genetic code in order to raise the likelihood of adaptive point mutations being generated. Illustrations illustrating the usefulness of visualizing amino acid substitutions in a 3D physicochemical space are shown in this series based on recent reports relating to the SARS-CoV-2 receptor binding domain. As plotted with this strategy, it is shown that assays of ACE2 binding by sarbecovirus variants, including the viruses responsible for SARS and COVID-19, are more recognizable.

Source link: https://doi.org/10.1101/2021.07.15.452549


Intra-tumor heterogeneity, turnover rate and karyotype space shape susceptibility to missegregation-induced extinction

Their frequency per base pair of the genome changes are orders of magnitudes greater than that of point mutations, which is phenotypic efficacy of somatic copy number alterations. One mitotic event stands out in the ability to significantly alter a cells' SCNA burden, a chromosome missegregation event. The majority of tumors of all cancer types had missedegregation and turnover rates that were within acceptable boundaries of the parameter space. When a reliance on a karyotype were introduced, karyotypes associated with low missegregation rates functioned as a stabilizing refuge, making MIE impossible if turnover rates are very high. Author Summary: While dividing, a cell's chance is high that its two daughter cells will be drastically different from each other and from their parent cell. The model helps determine how genotype affects cells with variable chromosome compositions as a tool for genotype-to-phenotype mapping in a variety of microenvironments. As a first application example, we used the model to see if there is upper limit on missegregation rate, which is beyond what cancer populations can be affected. They occur in normal cells [1] and in cancer cells [1] and their incidence is between one and two orders of magnitudes higher [2]. The model revealed that the upper limit of missegregation rate is a result of the tumors' turnover rate. Cells with low missegregation rates, on the other hand, help save the population from depopulation in heterogenous populations.

Source link: https://doi.org/10.1101/2021.11.03.466486

* Please keep in mind that all text is summarized by machine, we do not bear any responsibility, and you should always check original source before taking any actions

* Please keep in mind that all text is summarized by machine, we do not bear any responsibility, and you should always check original source before taking any actions