Making sense of fragmentation and merging in lineage tracing experiments
Lineage tracing experiments give dynamic information on the functional behaviour of dividing cells. These experiments therefore have become an important tool for studying stem and progenitor cell fate behavior in vivo. When cell proliferation is high or the frequency of induced clones cannot be prec...
| Main Authors: | , |
|---|---|
| Format: | Article |
| Language: | English |
| Published: |
Frontiers Media S.A.
2022-12-01
|
| Series: | Frontiers in Cell and Developmental Biology |
| Subjects: | |
| Online Access: | https://www.frontiersin.org/articles/10.3389/fcell.2022.1054476/full |
| _version_ | 1811178172867149824 |
|---|---|
| author | Yiteng Dang Yiteng Dang Yiteng Dang Steffen Rulands Steffen Rulands Steffen Rulands |
| author_facet | Yiteng Dang Yiteng Dang Yiteng Dang Steffen Rulands Steffen Rulands Steffen Rulands |
| author_sort | Yiteng Dang |
| collection | DOAJ |
| description | Lineage tracing experiments give dynamic information on the functional behaviour of dividing cells. These experiments therefore have become an important tool for studying stem and progenitor cell fate behavior in vivo. When cell proliferation is high or the frequency of induced clones cannot be precisely controlled, the merging and fragmentation of clones renders the retrospective interpretation of clonal fate data highly ambiguous, potentially leading to unguarded interpretations about lineage relationships and fate behaviour. Here, we discuss and generalize statistical strategies to detect, resolve and make use of clonal fragmentation and merging. We first explain how to detect the rates of clonal fragmentation and merging using simple statistical estimates. We then discuss ways to restore the clonal provenance of labelled cells algorithmically and statistically and elaborate on how the process of clonal fragmentation can indirectly inform about cell fate. We generalize and extend results from the context of their original publication. |
| first_indexed | 2024-04-11T06:15:10Z |
| format | Article |
| id | doaj.art-45af0ebf0d6f4de9941bca053babfbc6 |
| institution | Directory Open Access Journal |
| issn | 2296-634X |
| language | English |
| last_indexed | 2024-04-11T06:15:10Z |
| publishDate | 2022-12-01 |
| publisher | Frontiers Media S.A. |
| record_format | Article |
| series | Frontiers in Cell and Developmental Biology |
| spelling | doaj.art-45af0ebf0d6f4de9941bca053babfbc62022-12-22T04:41:06ZengFrontiers Media S.A.Frontiers in Cell and Developmental Biology2296-634X2022-12-011010.3389/fcell.2022.10544761054476Making sense of fragmentation and merging in lineage tracing experimentsYiteng Dang0Yiteng Dang1Yiteng Dang2Steffen Rulands3Steffen Rulands4Steffen Rulands5Max-Planck-Institute for the Physics of Complex Systems, Dresden, GermanyCenter for Systems Biology Dresden, Dresden, GermanyMax-Planck-Institute for Molecular Cell Biology and Genetics, Dresden, GermanyMax-Planck-Institute for the Physics of Complex Systems, Dresden, GermanyCenter for Systems Biology Dresden, Dresden, GermanyArnold-Sommerfeld-Center for Theoretical Physics, Ludwig-Maximilians-Universität München, München, GermanyLineage tracing experiments give dynamic information on the functional behaviour of dividing cells. These experiments therefore have become an important tool for studying stem and progenitor cell fate behavior in vivo. When cell proliferation is high or the frequency of induced clones cannot be precisely controlled, the merging and fragmentation of clones renders the retrospective interpretation of clonal fate data highly ambiguous, potentially leading to unguarded interpretations about lineage relationships and fate behaviour. Here, we discuss and generalize statistical strategies to detect, resolve and make use of clonal fragmentation and merging. We first explain how to detect the rates of clonal fragmentation and merging using simple statistical estimates. We then discuss ways to restore the clonal provenance of labelled cells algorithmically and statistically and elaborate on how the process of clonal fragmentation can indirectly inform about cell fate. We generalize and extend results from the context of their original publication.https://www.frontiersin.org/articles/10.3389/fcell.2022.1054476/fulllineage tracingstem cellsdevelopmentwound healingcancerstochastic modelling |
| spellingShingle | Yiteng Dang Yiteng Dang Yiteng Dang Steffen Rulands Steffen Rulands Steffen Rulands Making sense of fragmentation and merging in lineage tracing experiments Frontiers in Cell and Developmental Biology lineage tracing stem cells development wound healing cancer stochastic modelling |
| title | Making sense of fragmentation and merging in lineage tracing experiments |
| title_full | Making sense of fragmentation and merging in lineage tracing experiments |
| title_fullStr | Making sense of fragmentation and merging in lineage tracing experiments |
| title_full_unstemmed | Making sense of fragmentation and merging in lineage tracing experiments |
| title_short | Making sense of fragmentation and merging in lineage tracing experiments |
| title_sort | making sense of fragmentation and merging in lineage tracing experiments |
| topic | lineage tracing stem cells development wound healing cancer stochastic modelling |
| url | https://www.frontiersin.org/articles/10.3389/fcell.2022.1054476/full |
| work_keys_str_mv | AT yitengdang makingsenseoffragmentationandmerginginlineagetracingexperiments AT yitengdang makingsenseoffragmentationandmerginginlineagetracingexperiments AT yitengdang makingsenseoffragmentationandmerginginlineagetracingexperiments AT steffenrulands makingsenseoffragmentationandmerginginlineagetracingexperiments AT steffenrulands makingsenseoffragmentationandmerginginlineagetracingexperiments AT steffenrulands makingsenseoffragmentationandmerginginlineagetracingexperiments |