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Journal articles
A computational framework to study sub-cellular RNA localization
Abstract : RNA localization is a crucial process for cellular function and can be quantitatively studied by single molecule FISH (smFISH). Here, we present an integrated analysis framework to analyze sub-cellular RNA localization. Using simulated images, we design and validate a set of features describing different RNA localization patterns including polarized distribution, accumulation in cell extensions or foci, at the cell membrane or nuclear envelope. These features are largely invariant to RNA levels, work in multiple cell lines, and can measure localization strength in perturbation experiments. Most importantly, they allow classification by supervised and unsupervised learning at unprecedented accuracy. We successfully validate our approach on representative experimental data. This analysis reveals a surprisingly high degree of localization heterogeneity at the single cell level, indicating a dynamic and plastic nature of RNA localization.
Cited literature [30 references]
https://hal-mines-paristech.archives-ouvertes.fr/hal-01984014
Contributor : Thomas Walter <>
Submitted on : Thursday, February 27, 2020 - 9:15:01 AM
Last modification on : Wednesday, January 20, 2021 - 2:58:01 PM
Long-term archiving on: : Thursday, May 28, 2020 - 12:54:41 PM
Contributor : Thomas Walter <>
Submitted on : Thursday, February 27, 2020 - 9:15:01 AM
Last modification on : Wednesday, January 20, 2021 - 2:58:01 PM
Long-term archiving on: : Thursday, May 28, 2020 - 12:54:41 PM
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a_computational_framework.pdf
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Distributed under a Creative Commons Attribution 4.0 International License