SPOCK, an R based package for high-throughput analysis of growth rate, survival, and chronological lifespan in yeast
Plate-reader based methods for high-throughput measurement of growth rate, cellular survival, and chronological lifespan are a compelling addition to the already powerful toolbox of budding yeast Saccharomyces cerevisiae genetics. These methods have overcome many of the limits of traditional yeast b...
| Main Authors: | , , , , , , |
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| Format: | Article |
| Language: | English |
| Published: |
KeAi Communications Co., Ltd.
2020-01-01
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| Series: | Translational Medicine of Aging |
| Subjects: | |
| Online Access: | http://www.sciencedirect.com/science/article/pii/S2468501120300201 |
| _version_ | 1818453604285022208 |
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| author | Eric M. Small Daniel P. Felker Olivia C. Heath Ryla J. Cantergiani Christine E. Robbins Mary Ann Osley Mark A. McCormick |
| author_facet | Eric M. Small Daniel P. Felker Olivia C. Heath Ryla J. Cantergiani Christine E. Robbins Mary Ann Osley Mark A. McCormick |
| author_sort | Eric M. Small |
| collection | DOAJ |
| description | Plate-reader based methods for high-throughput measurement of growth rate, cellular survival, and chronological lifespan are a compelling addition to the already powerful toolbox of budding yeast Saccharomyces cerevisiae genetics. These methods have overcome many of the limits of traditional yeast biology techniques, but also present a new bottleneck at the point of data-analysis. Herein, we describe SPOCK (Survival Percentage and Outgrowth Collection Kit), an R-based package for the analysis of data created by high-throughput plate reader based methods. This package allows for the determination of chronological lifespan, cellular growth rate, and survival in an efficient, robust, and reproducible fashion. |
| first_indexed | 2024-12-14T21:41:37Z |
| format | Article |
| id | doaj.art-174db934262e4138bde6cd328b3ae2d3 |
| institution | Directory Open Access Journal |
| issn | 2468-5011 |
| language | English |
| last_indexed | 2024-12-14T21:41:37Z |
| publishDate | 2020-01-01 |
| publisher | KeAi Communications Co., Ltd. |
| record_format | Article |
| series | Translational Medicine of Aging |
| spelling | doaj.art-174db934262e4138bde6cd328b3ae2d32022-12-21T22:46:26ZengKeAi Communications Co., Ltd.Translational Medicine of Aging2468-50112020-01-014141148SPOCK, an R based package for high-throughput analysis of growth rate, survival, and chronological lifespan in yeastEric M. Small0Daniel P. Felker1Olivia C. Heath2Ryla J. Cantergiani3Christine E. Robbins4Mary Ann Osley5Mark A. McCormick6Department of Molecular Genetics and Microbiology, University of New Mexico Health Sciences Center, Albuquerque, NM, 87131, USADepartment of Biochemistry and Molecular Biology, School of Medicine, University of New Mexico Health Sciences Center, Albuquerque, NM, 87131, USADepartment of Biochemistry and Molecular Biology, School of Medicine, University of New Mexico Health Sciences Center, Albuquerque, NM, 87131, USADepartment of Biochemistry and Molecular Biology, School of Medicine, University of New Mexico Health Sciences Center, Albuquerque, NM, 87131, USADepartment of Biochemistry and Molecular Biology, School of Medicine, University of New Mexico Health Sciences Center, Albuquerque, NM, 87131, USADepartment of Molecular Genetics and Microbiology, University of New Mexico Health Sciences Center, Albuquerque, NM, 87131, USADepartment of Biochemistry and Molecular Biology, School of Medicine, University of New Mexico Health Sciences Center, Albuquerque, NM, 87131, USA; Autophagy Inflammation and Metabolism Center of Biomedical Research Excellence, USA; Corresponding author. Department of Biochemistry and Molecular Biology, School of Medicine, University of New Mexico Health Sciences Center, Albuquerque, NM, 87131, USA.Plate-reader based methods for high-throughput measurement of growth rate, cellular survival, and chronological lifespan are a compelling addition to the already powerful toolbox of budding yeast Saccharomyces cerevisiae genetics. These methods have overcome many of the limits of traditional yeast biology techniques, but also present a new bottleneck at the point of data-analysis. Herein, we describe SPOCK (Survival Percentage and Outgrowth Collection Kit), an R-based package for the analysis of data created by high-throughput plate reader based methods. This package allows for the determination of chronological lifespan, cellular growth rate, and survival in an efficient, robust, and reproducible fashion.http://www.sciencedirect.com/science/article/pii/S2468501120300201Chronological lifespanSurvivalGrowth rateBudding yeastData-analysisSoftware |
| spellingShingle | Eric M. Small Daniel P. Felker Olivia C. Heath Ryla J. Cantergiani Christine E. Robbins Mary Ann Osley Mark A. McCormick SPOCK, an R based package for high-throughput analysis of growth rate, survival, and chronological lifespan in yeast Translational Medicine of Aging Chronological lifespan Survival Growth rate Budding yeast Data-analysis Software |
| title | SPOCK, an R based package for high-throughput analysis of growth rate, survival, and chronological lifespan in yeast |
| title_full | SPOCK, an R based package for high-throughput analysis of growth rate, survival, and chronological lifespan in yeast |
| title_fullStr | SPOCK, an R based package for high-throughput analysis of growth rate, survival, and chronological lifespan in yeast |
| title_full_unstemmed | SPOCK, an R based package for high-throughput analysis of growth rate, survival, and chronological lifespan in yeast |
| title_short | SPOCK, an R based package for high-throughput analysis of growth rate, survival, and chronological lifespan in yeast |
| title_sort | spock an r based package for high throughput analysis of growth rate survival and chronological lifespan in yeast |
| topic | Chronological lifespan Survival Growth rate Budding yeast Data-analysis Software |
| url | http://www.sciencedirect.com/science/article/pii/S2468501120300201 |
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