Integration of functional mapping and delay differential equations to map the genes that regulate circadian rhythms

Yunmei Chen, Guifang Fu, Rongling Wu

Research output: Chapter in Book/Report/Conference proceedingConference contribution

Abstract

Most living organisms develop the capacity of generating autonomously sustained oscillations with a period close to 24h. Genes have been thought to play a central role in the regulation of this process, but the detection of these genes (or quantitative trait loci, QTLs) has been made possible with a newly developed functional mapping model. Functional mapping is the integration between genetic mapping and biological principles through mathematical equations. In this article, we equip functional mapping with a biologically meaningful delay differential equations (DDEs) to model circadian rhythms measured in terms of mRNA and protein abundance in time course. The integrative model provides a quantitative framework for assessing the interplay between genetic effects of QTLs and rhythmic responses. By embedding Runge-Kutta forth order algorithm within the likelihood-based context, we obtained estimates of genetic parameters including QTL allele frequency, QTL effects, and the linkage disequilibrium of the QTL and a marker. The potential implications of the new model are discussed.

Original languageEnglish (US)
Title of host publicationInternational Conference on Bioinformatics, Computational Biology, Genomics and Chemoinformatics 2008, BCBGC 2008
Pages118-125
Number of pages8
StatePublished - Dec 1 2008
Event2008 International Conference on Bioinformatics, Computational Biology, Genomics and Chemoinformatics, BCBGC 2008 - Orlando, FL, United States
Duration: Jul 7 2008Jul 10 2008

Publication series

NameInternational Conference on Bioinformatics, Computational Biology, Genomics and Chemoinformatics 2008, BCBGC 2008

Other

Other2008 International Conference on Bioinformatics, Computational Biology, Genomics and Chemoinformatics, BCBGC 2008
CountryUnited States
CityOrlando, FL
Period7/7/087/10/08

Fingerprint

Quantitative Trait Loci
Circadian Rhythm
Genes
Linkage Disequilibrium
Gene Frequency
Messenger RNA
Proteins

All Science Journal Classification (ASJC) codes

  • Biotechnology
  • Genetics

Cite this

Chen, Y., Fu, G., & Wu, R. (2008). Integration of functional mapping and delay differential equations to map the genes that regulate circadian rhythms. In International Conference on Bioinformatics, Computational Biology, Genomics and Chemoinformatics 2008, BCBGC 2008 (pp. 118-125). (International Conference on Bioinformatics, Computational Biology, Genomics and Chemoinformatics 2008, BCBGC 2008).
Chen, Yunmei ; Fu, Guifang ; Wu, Rongling. / Integration of functional mapping and delay differential equations to map the genes that regulate circadian rhythms. International Conference on Bioinformatics, Computational Biology, Genomics and Chemoinformatics 2008, BCBGC 2008. 2008. pp. 118-125 (International Conference on Bioinformatics, Computational Biology, Genomics and Chemoinformatics 2008, BCBGC 2008).
@inproceedings{5e128a86a4304cc28816414baff07363,
title = "Integration of functional mapping and delay differential equations to map the genes that regulate circadian rhythms",
abstract = "Most living organisms develop the capacity of generating autonomously sustained oscillations with a period close to 24h. Genes have been thought to play a central role in the regulation of this process, but the detection of these genes (or quantitative trait loci, QTLs) has been made possible with a newly developed functional mapping model. Functional mapping is the integration between genetic mapping and biological principles through mathematical equations. In this article, we equip functional mapping with a biologically meaningful delay differential equations (DDEs) to model circadian rhythms measured in terms of mRNA and protein abundance in time course. The integrative model provides a quantitative framework for assessing the interplay between genetic effects of QTLs and rhythmic responses. By embedding Runge-Kutta forth order algorithm within the likelihood-based context, we obtained estimates of genetic parameters including QTL allele frequency, QTL effects, and the linkage disequilibrium of the QTL and a marker. The potential implications of the new model are discussed.",
author = "Yunmei Chen and Guifang Fu and Rongling Wu",
year = "2008",
month = "12",
day = "1",
language = "English (US)",
isbn = "9781615677153",
series = "International Conference on Bioinformatics, Computational Biology, Genomics and Chemoinformatics 2008, BCBGC 2008",
pages = "118--125",
booktitle = "International Conference on Bioinformatics, Computational Biology, Genomics and Chemoinformatics 2008, BCBGC 2008",

}

Chen, Y, Fu, G & Wu, R 2008, Integration of functional mapping and delay differential equations to map the genes that regulate circadian rhythms. in International Conference on Bioinformatics, Computational Biology, Genomics and Chemoinformatics 2008, BCBGC 2008. International Conference on Bioinformatics, Computational Biology, Genomics and Chemoinformatics 2008, BCBGC 2008, pp. 118-125, 2008 International Conference on Bioinformatics, Computational Biology, Genomics and Chemoinformatics, BCBGC 2008, Orlando, FL, United States, 7/7/08.

Integration of functional mapping and delay differential equations to map the genes that regulate circadian rhythms. / Chen, Yunmei; Fu, Guifang; Wu, Rongling.

International Conference on Bioinformatics, Computational Biology, Genomics and Chemoinformatics 2008, BCBGC 2008. 2008. p. 118-125 (International Conference on Bioinformatics, Computational Biology, Genomics and Chemoinformatics 2008, BCBGC 2008).

Research output: Chapter in Book/Report/Conference proceedingConference contribution

TY - GEN

T1 - Integration of functional mapping and delay differential equations to map the genes that regulate circadian rhythms

AU - Chen, Yunmei

AU - Fu, Guifang

AU - Wu, Rongling

PY - 2008/12/1

Y1 - 2008/12/1

N2 - Most living organisms develop the capacity of generating autonomously sustained oscillations with a period close to 24h. Genes have been thought to play a central role in the regulation of this process, but the detection of these genes (or quantitative trait loci, QTLs) has been made possible with a newly developed functional mapping model. Functional mapping is the integration between genetic mapping and biological principles through mathematical equations. In this article, we equip functional mapping with a biologically meaningful delay differential equations (DDEs) to model circadian rhythms measured in terms of mRNA and protein abundance in time course. The integrative model provides a quantitative framework for assessing the interplay between genetic effects of QTLs and rhythmic responses. By embedding Runge-Kutta forth order algorithm within the likelihood-based context, we obtained estimates of genetic parameters including QTL allele frequency, QTL effects, and the linkage disequilibrium of the QTL and a marker. The potential implications of the new model are discussed.

AB - Most living organisms develop the capacity of generating autonomously sustained oscillations with a period close to 24h. Genes have been thought to play a central role in the regulation of this process, but the detection of these genes (or quantitative trait loci, QTLs) has been made possible with a newly developed functional mapping model. Functional mapping is the integration between genetic mapping and biological principles through mathematical equations. In this article, we equip functional mapping with a biologically meaningful delay differential equations (DDEs) to model circadian rhythms measured in terms of mRNA and protein abundance in time course. The integrative model provides a quantitative framework for assessing the interplay between genetic effects of QTLs and rhythmic responses. By embedding Runge-Kutta forth order algorithm within the likelihood-based context, we obtained estimates of genetic parameters including QTL allele frequency, QTL effects, and the linkage disequilibrium of the QTL and a marker. The potential implications of the new model are discussed.

UR - http://www.scopus.com/inward/record.url?scp=84878151966&partnerID=8YFLogxK

UR - http://www.scopus.com/inward/citedby.url?scp=84878151966&partnerID=8YFLogxK

M3 - Conference contribution

AN - SCOPUS:84878151966

SN - 9781615677153

T3 - International Conference on Bioinformatics, Computational Biology, Genomics and Chemoinformatics 2008, BCBGC 2008

SP - 118

EP - 125

BT - International Conference on Bioinformatics, Computational Biology, Genomics and Chemoinformatics 2008, BCBGC 2008

ER -

Chen Y, Fu G, Wu R. Integration of functional mapping and delay differential equations to map the genes that regulate circadian rhythms. In International Conference on Bioinformatics, Computational Biology, Genomics and Chemoinformatics 2008, BCBGC 2008. 2008. p. 118-125. (International Conference on Bioinformatics, Computational Biology, Genomics and Chemoinformatics 2008, BCBGC 2008).