Determining Lineage Pathways from Cellular Barcoding Experiments
Cellular barcoding and other single-cell lineage-tracing strategies form experimental methodologies for analysis of in vivo cell fate that have been instrumental in several significant recent discoveries. Due to the highly nonlinear nature of proliferation and differentiation, interrogation of the r...
| Main Authors: | , , , , , |
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| Format: | Article |
| Language: | English |
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Elsevier
2014-02-01
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| Series: | Cell Reports |
| Online Access: | http://www.sciencedirect.com/science/article/pii/S2211124714000333 |
| _version_ | 1818143075658104832 |
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| author | Leïla Perié Philip D. Hodgkin Shalin H. Naik Ton N. Schumacher Rob J. de Boer Ken R. Duffy |
| author_facet | Leïla Perié Philip D. Hodgkin Shalin H. Naik Ton N. Schumacher Rob J. de Boer Ken R. Duffy |
| author_sort | Leïla Perié |
| collection | DOAJ |
| description | Cellular barcoding and other single-cell lineage-tracing strategies form experimental methodologies for analysis of in vivo cell fate that have been instrumental in several significant recent discoveries. Due to the highly nonlinear nature of proliferation and differentiation, interrogation of the resulting data for evaluation of potential lineage pathways requires a new quantitative framework complete with appropriate statistical tests. Here, we develop such a framework, illustrating its utility by analyzing data from barcoded multipotent cells of the blood system. This application demonstrates that the data require additional paths beyond those found in the classical model, which leads us to propose that hematopoietic differentiation follows a loss of potential mechanism and to suggest further experiments to test this deduction. Our quantitative framework can evaluate the compatibility of lineage trees with barcoded data from any proliferating and differentiating cell system. |
| first_indexed | 2024-12-11T11:25:54Z |
| format | Article |
| id | doaj.art-08b350161e884bbd993683efcae3dbb9 |
| institution | Directory Open Access Journal |
| issn | 2211-1247 |
| language | English |
| last_indexed | 2024-12-11T11:25:54Z |
| publishDate | 2014-02-01 |
| publisher | Elsevier |
| record_format | Article |
| series | Cell Reports |
| spelling | doaj.art-08b350161e884bbd993683efcae3dbb92022-12-22T01:09:00ZengElsevierCell Reports2211-12472014-02-016461762410.1016/j.celrep.2014.01.016Determining Lineage Pathways from Cellular Barcoding ExperimentsLeïla Perié0Philip D. Hodgkin1Shalin H. Naik2Ton N. Schumacher3Rob J. de Boer4Ken R. Duffy5Division of Immunology, Netherlands Cancer Institute, 1066 CX Amsterdam, the NetherlandsWalter and Eliza Hall Institute of Medical Research, 1G Royal Parade, Parkville, VIC 3052, AustraliaWalter and Eliza Hall Institute of Medical Research, 1G Royal Parade, Parkville, VIC 3052, AustraliaDivision of Immunology, Netherlands Cancer Institute, 1066 CX Amsterdam, the NetherlandsTheoretical Biology and Bioinformatics, Utrecht University, 3584 CH Utrecht, the NetherlandsHamilton Institute, National University of Ireland, Maynooth, IrelandCellular barcoding and other single-cell lineage-tracing strategies form experimental methodologies for analysis of in vivo cell fate that have been instrumental in several significant recent discoveries. Due to the highly nonlinear nature of proliferation and differentiation, interrogation of the resulting data for evaluation of potential lineage pathways requires a new quantitative framework complete with appropriate statistical tests. Here, we develop such a framework, illustrating its utility by analyzing data from barcoded multipotent cells of the blood system. This application demonstrates that the data require additional paths beyond those found in the classical model, which leads us to propose that hematopoietic differentiation follows a loss of potential mechanism and to suggest further experiments to test this deduction. Our quantitative framework can evaluate the compatibility of lineage trees with barcoded data from any proliferating and differentiating cell system.http://www.sciencedirect.com/science/article/pii/S2211124714000333 |
| spellingShingle | Leïla Perié Philip D. Hodgkin Shalin H. Naik Ton N. Schumacher Rob J. de Boer Ken R. Duffy Determining Lineage Pathways from Cellular Barcoding Experiments Cell Reports |
| title | Determining Lineage Pathways from Cellular Barcoding Experiments |
| title_full | Determining Lineage Pathways from Cellular Barcoding Experiments |
| title_fullStr | Determining Lineage Pathways from Cellular Barcoding Experiments |
| title_full_unstemmed | Determining Lineage Pathways from Cellular Barcoding Experiments |
| title_short | Determining Lineage Pathways from Cellular Barcoding Experiments |
| title_sort | determining lineage pathways from cellular barcoding experiments |
| url | http://www.sciencedirect.com/science/article/pii/S2211124714000333 |
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