journal
https://read.qxmd.com/read/35502732/multivariate-functional-partial-least-squares-for-classification-using-longitudinal-data
#21
JOURNAL ARTICLE
Sonia Dembowska, Alex Frangi, Jeanine Houwing-Duistermaat, Haiyan Liu
The use of statistical methods to predict outcomes using high dimensional datasets in medicine is becoming increasingly popular for forecasting and monitoring patient health. Our work is motivated by a longitudinal dataset containing 1H NMR spectra of metabolites of 18 patients undergoing a kidney transplant alongside their graft outcomes that fall into one of three categories: acute rejection, delayed graft function and primary function. We proposed a functional partial least squares (FPLS) model that extends existing PLS methods for the analysis of longitudinally measured scalar omics datasets to the case of longitudinally measured functional datasets...
January 1, 2021: Theoretical Biology Forum
https://read.qxmd.com/read/35502731/estimation-of-the-effect-of-surrogate-multi-omic-biomarkers
#22
JOURNAL ARTICLE
Angga M Fuady, Said El Bouhaddani, Hae-Won Uh, Jeanine Houwing-Duistermaat
Multiple technologies which measure the same omics data set but are based on different aspects of the molecules exist. In practice, studies use different technologies and have therefore different biomarkers. An example is the glycan age index, which is constructed by three different ultra-performance liquid chromatography (UPLC) IgG glycans, and is a biomarker for biological age. A second technology is liquid chromatography- mass spectrometry (LCMS). To estimate the effect of a biomarker on an outcome variable, two issues need to be addressed...
January 1, 2021: Theoretical Biology Forum
https://read.qxmd.com/read/35502730/use-of-shared-gamma-frailty-model-in-analysis-of-survival-data-in-twins
#23
JOURNAL ARTICLE
Annah Mwikali Muli, Arief Gusnanto, Jeanine Houwing-Duistermaat
In survival analysis, the effect of a covariate on the outcome is reported in a hazard rate. However, hazards rates are hard to interpret. Here we consider differences in survival probabilities instead. Using data on twins is interesting due to the fact that many observed and unobserved factors are controlled or matched. To model the correlation between twins, some authors have proposed survival models with frailties or random effects. However, there is a potential danger of bias in the estimation if the frailty distribution is misspecified...
January 1, 2021: Theoretical Biology Forum
https://read.qxmd.com/read/35502729/investigating-the-impact-of-down-syndrome-on-methylation-and-glycomics-with-two-stage-po2pls
#24
JOURNAL ARTICLE
Zhujie Gu, Said El Bouhaddani, Jeanine Houwing-Duistermaat, Hae-Won Uh
Down syndrome (DS) is a condition that leads to precocious and accelerated aging in affected subjects. Several alterations in DS cases have been reported at a molecular level, particularly in methylation and glycosylation. Investigating the relation between methylation, glycomics and DS can lead to new insights underlying the atypical aging. We consider a data integration approach, where we investigate how DS affects the parts of glycomics and methylation which are correlated, and which CpG sites and glycans are relevant...
January 1, 2021: Theoretical Biology Forum
https://read.qxmd.com/read/35502728/nonparametric-clustering-for-longitudinal-functional-data-with-the-application-to-h-nmr-spectra-of-kidney-transplant-patients-longitudinal-functional-data-clustering
#25
JOURNAL ARTICLE
Minzhen Xie, Haiyan Liu, Jeanine Houwing-Duistermaat
Longitudinal functional data are increasingly common in the health domain. The motivated dataset for this paper comprises H-NMR spectra of kidney transplant patients [8]. Our aim is to cluster patients into different clinical outcome subgoups to reveal the success of the transplantation. The NMR spectra of each patient at each time point are functional data and the data are longitudinally collected at up to nine different time points. Existing methods are available for functional data collected at one time point, but not for longitudinal functional data collected at a grid of time points subject to missingness...
January 1, 2021: Theoretical Biology Forum
https://read.qxmd.com/read/35502727/editorial
#26
EDITORIAL
David Lambert
No abstract text is available yet for this article.
January 1, 2021: Theoretical Biology Forum
https://read.qxmd.com/read/33929013/hugh-paterson-and-the-origin-of-insect-metamorphosis
#27
JOURNAL ARTICLE
Robert Toms
No abstract text is available yet for this article.
January 1, 2020: Theoretical Biology Forum
https://read.qxmd.com/read/33929012/a-true-liberal
#28
JOURNAL ARTICLE
Charles Parry
No abstract text is available yet for this article.
January 1, 2020: Theoretical Biology Forum
https://read.qxmd.com/read/33929011/the-on-going-problem-of-anopheles-mosquito-species-in-africa
#29
JOURNAL ARTICLE
Maureen Coetzee
No abstract text is available yet for this article.
January 1, 2020: Theoretical Biology Forum
https://read.qxmd.com/read/33929010/the-recognition-concept-and-conservation-management-of-species
#30
JOURNAL ARTICLE
Chris R Pavey
No abstract text is available yet for this article.
January 1, 2020: Theoretical Biology Forum
https://read.qxmd.com/read/33929009/paterson-s-recognition-concept-and-the-practice-of-biological-control
#31
JOURNAL ARTICLE
Michelle A Rafter, S Raghu
No abstract text is available yet for this article.
January 1, 2020: Theoretical Biology Forum
https://read.qxmd.com/read/33929008/the-recognition-concept-idealisms-an-d-ecology
#32
JOURNAL ARTICLE
Gimme H Walter
No abstract text is available yet for this article.
January 1, 2020: Theoretical Biology Forum
https://read.qxmd.com/read/33929007/there-s-no-evolution-without-co-evolution-dialectics-and-dualism-drive-diversity
#33
JOURNAL ARTICLE
Judith C Masters, Fabien GĂ©nin
No abstract text is available yet for this article.
January 1, 2020: Theoretical Biology Forum
https://read.qxmd.com/read/33929006/the-recognition-concept-and-genetic-approaches-to-interpreting-species
#34
JOURNAL ARTICLE
James P Hereward, Dean R Brookes, Gimme H Walter
1. Introduction. 2. The Specific-mate Recognition System (SMRS). 3. The Genetic Change As sociated with Speciation.
January 1, 2020: Theoretical Biology Forum
https://read.qxmd.com/read/33929005/a-further-perspective-on-speciation-by-reinforcement
#35
JOURNAL ARTICLE
Hamish G Spencer
No abstract text is available yet for this article.
January 1, 2020: Theoretical Biology Forum
https://read.qxmd.com/read/33929004/scientific-and-personal-reflections-on-an-iconoclastic-thinker-in-evolutionary-biology-hugh-edward-ha-ldane-paterson
#36
JOURNAL ARTICLE
David Lambert, Craig Millar, Gimme Walter
No abstract text is available yet for this article.
January 1, 2020: Theoretical Biology Forum
https://read.qxmd.com/read/33929003/an-update-on-sars-cov-2-a-review
#37
JOURNAL ARTICLE
Dur E Nishwa, Hafiza Arooba Riaz, Ameer Fatima, Braira Wahid
Sars-CoV-2 is a new global health challenge that was declared a pandemic in March 2020. In just 6 months, the virus had infected more than 7.5 million population worldwide, and in 10 months infected over 40 million. Clinical manifestation of Sars-CoV-2 range from mild symptoms like sneezing, coughing, cold and fever to severe respiratory complications such as pneumonia and acute distress respiratory syndrome, sepsis, and multiple organ failure. The virus is highly contagious and transmits through respiratory droplets...
January 1, 2020: Theoretical Biology Forum
https://read.qxmd.com/read/33929002/a-stochastic-compartmental-model-to-simulate-the-covid-19-epidemic-spread-on-a-simple-network
#38
JOURNAL ARTICLE
Armando Bazzani, Enrico Lunedei, Sandro Rambaldi
The recent Covid-19 epidemic has pointed out the inadequacy of the plans applied by industrial countries to limit the epidemic spread and frailty of the global economy to cope with a pandemic. Many countries were forced to a global lockdown with a great socio-economic impact. In Italy, one of the problems was the complex mobility network structure of the Northern regions that made ineffective the attempts to isolate the initial hotspots. In the paper we study a simple model that simulates the epidemic spread on a community network that may exchange population according to a daily mobility rate...
January 1, 2020: Theoretical Biology Forum
https://read.qxmd.com/read/33929001/a-general-model-for-covid-19-epidemic-kinetics-application-to-italian-and-german-data
#39
JOURNAL ARTICLE
Andrea Amadei, Massimiliano Aschi
In this paper we report the description, implementation and application of a kinetic model designed for describing the Covid-19 epidemic spread in Italy and Germany in the period between February and June 2020 coinciding with the beginning of the statistical regime of the epidemic spread and the application of restrictive government measures aimed at its containment. The model, which makes use of a limited number of parameters, in spite of its simplicity is able of capturing the essential physical features of the epidemic spread highlighting the essential role of the restrictive measures and in particular the timeliness of their application for the containment of the most dramatic consequences...
January 1, 2020: Theoretical Biology Forum
https://read.qxmd.com/read/33929000/a-remark-on-a-dynamical-stochastic-model-in-g-v-schiaparelli-s-evolution-theory
#40
JOURNAL ARTICLE
Francesca Monti
It is well known that Giovanni Virginio Schiaparelli (1834-1910) wrote in 1898 an essay, Forme organiche naturali e forme geometriche pure. Studio comparativo, which was also appreciated by Vito Volterra (1860-1940). Recent studies have revised Schiaparelli's evolutionary ideas with new proposals and from this it is possible to obtain a dynamical (deterministic) model. In this paper I propose a related stochastic model (as toy model): thanks to this tool, we can describe a speciation phenomenology.
January 1, 2020: Theoretical Biology Forum
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