What Population Reveals about Individual Cell Identity: Single-Cell Parameter Estimation of Models of Gene Expression in Yeast
Publication Date
February 09, 2016
Journal
PLOS Computational Biology
Authors
Artémis Llamosi, Andres M. Gonzalez Vargas, Cristian Versari, Eugenio Cinquemani, et al
Volume
12
Issue
2
Pages
e1004706
DOI
https://dx.plos.org/10.1371/journal.pcbi.1004706
Publisher URL
http://journals.plos.org/ploscompbiol/article?id=10.1371%2Fjournal.pcbi.1004706
Scopus
84959510280
Mendeley
http://www.mendeley.com/research/population-reveals-about-individual-cell-identity-singlecell-parameter-estimation-models-gene-expres
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Mendeley | Further Information

{"title"=>"What Population Reveals about Individual Cell Identity: Single-Cell Parameter Estimation of Models of Gene Expression in Yeast", "type"=>"journal", "authors"=>[{"first_name"=>"Artémis", "last_name"=>"Llamosi", "scopus_author_id"=>"56358082000"}, {"first_name"=>"Andres M.", "last_name"=>"Gonzalez-Vargas", "scopus_author_id"=>"57151254000"}, {"first_name"=>"Cristian", "last_name"=>"Versari", "scopus_author_id"=>"16647629300"}, {"first_name"=>"Eugenio", "last_name"=>"Cinquemani", "scopus_author_id"=>"23569127100"}, {"first_name"=>"Giancarlo", "last_name"=>"Ferrari-Trecate", "scopus_author_id"=>"6603923286"}, {"first_name"=>"Pascal", "last_name"=>"Hersen", "scopus_author_id"=>"6507279731"}, {"first_name"=>"Gregory", "last_name"=>"Batt", "scopus_author_id"=>"21742186600"}], "year"=>2016, "source"=>"PLoS Computational Biology", "identifiers"=>{"pui"=>"608854523", "sgr"=>"84959510280", "issn"=>"15537358", "pmid"=>"26859137", "scopus"=>"2-s2.0-84959510280", "doi"=>"10.1371/journal.pcbi.1004706", "isbn"=>"1553-734x"}, "id"=>"1c1b83e8-9b0a-3930-b3b6-0712b4307b1f", "abstract"=>"Significant cell-to-cell heterogeneity is ubiquitously observed in isogenic cell populations. Consequently, parameters of models of intracellular processes, usually fitted to population-averaged data, should rather be fitted to individual cells to obtain a population of models of similar but non-identical individuals. Here, we propose a quantitative modeling framework that attributes specific parameter values to single cells for a standard model of gene expression. We combine high quality single-cell measurements of the response of yeast cells to repeated hyperosmotic shocks and state-of-the-art statistical inference approaches for mixed-effects models to infer multidimensional parameter distributions describing the population, and then derive specific parameters for individual cells. The analysis of single-cell parameters shows that single-cell identity (e.g. gene expression dynamics, cell size, growth rate, mother-daughter relationships) is, at least partially, captured by the parameter values of gene expression models (e.g. rates of transcription, translation and degradation). Our approach shows how to use the rich information contained into longitudinal single-cell data to infer parameters that can faithfully represent single-cell identity.", "link"=>"http://www.mendeley.com/research/population-reveals-about-individual-cell-identity-singlecell-parameter-estimation-models-gene-expres", "reader_count"=>57, "reader_count_by_academic_status"=>{"Unspecified"=>2, "Professor > Associate Professor"=>4, "Researcher"=>17, "Student > Doctoral Student"=>3, "Student > Ph. D. Student"=>17, "Student > Postgraduate"=>2, "Student > Master"=>6, "Other"=>1, "Student > Bachelor"=>3, "Lecturer"=>2}, "reader_count_by_user_role"=>{"Unspecified"=>2, "Professor > Associate Professor"=>4, "Researcher"=>17, "Student > Doctoral Student"=>3, "Student > Ph. D. Student"=>17, "Student > Postgraduate"=>2, "Student > Master"=>6, "Other"=>1, "Student > Bachelor"=>3, "Lecturer"=>2}, "reader_count_by_subject_area"=>{"Unspecified"=>3, "Agricultural and Biological Sciences"=>23, "Arts and Humanities"=>1, "Chemistry"=>1, "Computer Science"=>2, "Engineering"=>6, "Biochemistry, Genetics and Molecular Biology"=>11, "Materials Science"=>1, "Mathematics"=>3, "Medicine and Dentistry"=>1, "Pharmacology, Toxicology and Pharmaceutical Science"=>1, "Physics and Astronomy"=>1, "Immunology and Microbiology"=>3}, "reader_count_by_subdiscipline"=>{"Materials Science"=>{"Materials Science"=>1}, "Medicine and Dentistry"=>{"Medicine and Dentistry"=>1}, "Physics and Astronomy"=>{"Physics and Astronomy"=>1}, "Mathematics"=>{"Mathematics"=>3}, "Unspecified"=>{"Unspecified"=>3}, "Pharmacology, Toxicology and Pharmaceutical Science"=>{"Pharmacology, Toxicology and Pharmaceutical Science"=>1}, "Arts and Humanities"=>{"Arts and Humanities"=>1}, "Engineering"=>{"Engineering"=>6}, "Chemistry"=>{"Chemistry"=>1}, "Immunology and Microbiology"=>{"Immunology and Microbiology"=>3}, "Agricultural and Biological Sciences"=>{"Agricultural and Biological Sciences"=>23}, "Computer Science"=>{"Computer Science"=>2}, "Biochemistry, Genetics and Molecular Biology"=>{"Biochemistry, Genetics and Molecular Biology"=>11}}, "reader_count_by_country"=>{"Taiwan"=>1, "Chile"=>1}, "group_count"=>5}

Scopus | Further Information

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