Linking single-cell measurements of mass, growth rate, and gene expression
Mass and growth rate are highly integrative measures of cell physiology not discernable via genomic measurements. Here, we introduce a microfluidic platform enabling direct measurement of single-cell mass and growth rate upstream of highly multiplexed single-cell profiling such as single-cell RNA se...
| Main Authors: | , , , , , , , , , , , , |
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| Format: | Article |
| Language: | English |
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BioMed Central
2018
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| Online Access: | http://hdl.handle.net/1721.1/119409 https://orcid.org/0000-0001-9939-764X https://orcid.org/0000-0002-5621-8768 https://orcid.org/0000-0002-8541-0919 https://orcid.org/0000-0002-5702-8667 https://orcid.org/0000-0002-6417-1007 https://orcid.org/0000-0001-5277-6060 https://orcid.org/0000-0001-5670-8778 https://orcid.org/0000-0001-5223-9433 |
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| author | Pelton, Kristine De Smet, Frederik Ligon, Keith L. Kimmerling, Robert John Prakadan, Sanjay Gupta, Alejandro J. Calistri, Nicholas L Stevens, Mark M. Olcum, Selim A. Cermak, Nathan Drake, Riley Shalek, Alexander K Manalis, Scott R |
| author2 | Massachusetts Institute of Technology. Institute for Medical Engineering & Science |
| author_facet | Massachusetts Institute of Technology. Institute for Medical Engineering & Science Pelton, Kristine De Smet, Frederik Ligon, Keith L. Kimmerling, Robert John Prakadan, Sanjay Gupta, Alejandro J. Calistri, Nicholas L Stevens, Mark M. Olcum, Selim A. Cermak, Nathan Drake, Riley Shalek, Alexander K Manalis, Scott R |
| author_sort | Pelton, Kristine |
| collection | MIT |
| description | Mass and growth rate are highly integrative measures of cell physiology not discernable via genomic measurements. Here, we introduce a microfluidic platform enabling direct measurement of single-cell mass and growth rate upstream of highly multiplexed single-cell profiling such as single-cell RNA sequencing. We resolve transcriptional signatures associated with single-cell mass and growth rate in L1210 and FL5.12 cell lines and activated CD8+ T cells. Further, we demonstrate a framework using these linked measurements to characterize biophysical heterogeneity in a patient-derived glioblastoma cell line with and without drug treatment. Our results highlight the value of coupled phenotypic metrics in guiding single-cell genomics. Keywords: Single-cell RNA-Seq, Mass, Growth, Serial suspended microchannel resonator, Multi-omics, Single cell, T cell activation, Glioblastoma, GBM, Drug response, Microfluidics, Biophysical properties |
| first_indexed | 2024-09-23T12:17:05Z |
| format | Article |
| id | mit-1721.1/119409 |
| institution | Massachusetts Institute of Technology |
| language | English |
| last_indexed | 2024-09-23T12:17:05Z |
| publishDate | 2018 |
| publisher | BioMed Central |
| record_format | dspace |
| spelling | mit-1721.1/1194092022-10-01T08:53:13Z Linking single-cell measurements of mass, growth rate, and gene expression Pelton, Kristine De Smet, Frederik Ligon, Keith L. Kimmerling, Robert John Prakadan, Sanjay Gupta, Alejandro J. Calistri, Nicholas L Stevens, Mark M. Olcum, Selim A. Cermak, Nathan Drake, Riley Shalek, Alexander K Manalis, Scott R Massachusetts Institute of Technology. Institute for Medical Engineering & Science Massachusetts Institute of Technology. Department of Biological Engineering Massachusetts Institute of Technology. Department of Chemistry Koch Institute for Integrative Cancer Research at MIT Kimmerling, Robert John Prakadan, Sanjay Gupta, Alejandro J. Calistri, Nicholas L Stevens, Mark M. Olcum, Selim A. Cermak, Nathan Drake, Riley Shalek, Alexander K Manalis, Scott R Mass and growth rate are highly integrative measures of cell physiology not discernable via genomic measurements. Here, we introduce a microfluidic platform enabling direct measurement of single-cell mass and growth rate upstream of highly multiplexed single-cell profiling such as single-cell RNA sequencing. We resolve transcriptional signatures associated with single-cell mass and growth rate in L1210 and FL5.12 cell lines and activated CD8+ T cells. Further, we demonstrate a framework using these linked measurements to characterize biophysical heterogeneity in a patient-derived glioblastoma cell line with and without drug treatment. Our results highlight the value of coupled phenotypic metrics in guiding single-cell genomics. Keywords: Single-cell RNA-Seq, Mass, Growth, Serial suspended microchannel resonator, Multi-omics, Single cell, T cell activation, Glioblastoma, GBM, Drug response, Microfluidics, Biophysical properties 2018-12-04T15:51:24Z 2018-12-04T15:51:24Z 2018-11 2018-04 2018-12-02T04:12:06Z Article http://purl.org/eprint/type/JournalArticle 1474-760X http://hdl.handle.net/1721.1/119409 Kimmerling, Robert J., et al. “Linking Single-Cell Measurements of Mass, Growth Rate, and Gene Expression.” Genome Biology, vol. 19, no. 1, Dec. 2018. © 2018 The Authors https://orcid.org/0000-0001-9939-764X https://orcid.org/0000-0002-5621-8768 https://orcid.org/0000-0002-8541-0919 https://orcid.org/0000-0002-5702-8667 https://orcid.org/0000-0002-6417-1007 https://orcid.org/0000-0001-5277-6060 https://orcid.org/0000-0001-5670-8778 https://orcid.org/0000-0001-5223-9433 en https://doi.org/10.1186/s13059-018-1576-0 Genome Biology Creative Commons Attribution http://creativecommons.org/licenses/by/4.0/ The Author(s). application/pdf BioMed Central BioMed Central |
| spellingShingle | Pelton, Kristine De Smet, Frederik Ligon, Keith L. Kimmerling, Robert John Prakadan, Sanjay Gupta, Alejandro J. Calistri, Nicholas L Stevens, Mark M. Olcum, Selim A. Cermak, Nathan Drake, Riley Shalek, Alexander K Manalis, Scott R Linking single-cell measurements of mass, growth rate, and gene expression |
| title | Linking single-cell measurements of mass, growth rate, and gene expression |
| title_full | Linking single-cell measurements of mass, growth rate, and gene expression |
| title_fullStr | Linking single-cell measurements of mass, growth rate, and gene expression |
| title_full_unstemmed | Linking single-cell measurements of mass, growth rate, and gene expression |
| title_short | Linking single-cell measurements of mass, growth rate, and gene expression |
| title_sort | linking single cell measurements of mass growth rate and gene expression |
| url | http://hdl.handle.net/1721.1/119409 https://orcid.org/0000-0001-9939-764X https://orcid.org/0000-0002-5621-8768 https://orcid.org/0000-0002-8541-0919 https://orcid.org/0000-0002-5702-8667 https://orcid.org/0000-0002-6417-1007 https://orcid.org/0000-0001-5277-6060 https://orcid.org/0000-0001-5670-8778 https://orcid.org/0000-0001-5223-9433 |
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