| Added by | pcoopman |
|---|---|
| Group name | EquipePC |
| Item Type | Journal Article |
| Title | A computational framework to study sub-cellular RNA localization |
| Creator | Samacoits et al. |
| Author | Aubin Samacoits |
| Author | Racha Chouaib |
| Author | Adham Safieddine |
| Author | Abdel-Meneem Traboulsi |
| Author | Wei Ouyang |
| Author | Christophe Zimmer |
| Author | Marion Peter |
| Author | Edouard Bertrand |
| Author | Thomas Walter |
| Author | Florian Mueller |
| 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. |
| Publication | Nature Communications |
| Volume | 9 |
| Issue | 1 |
| Pages | 4584 |
| Date | 2018-11-02 |
| Journal Abbr | Nat Commun |
| Language | eng |
| DOI | 10.1038/s41467-018-06868-w |
| ISSN | 2041-1723 |
| Library Catalog | PubMed |
| Extra | PMID: 30389932 PMCID: PMC6214940 |
| Tags | Algorithms, Animals, Computer Simulation, HeLa Cells, Humans, Mice, original, RNA, RNA, Messenger, Subcellular Fractions |
| Date Added | 2023/11/15 - 18:38:24 |
| Date Modified | 2023/11/15 - 18:39:18 |
| Notes and Attachments | PubMed entry (Attachment) Texte intégral (Attachment) |
Institut de Recherche en Cancérologie de
