Non-linear mixed-effects pharmacokinetic/pharmacodynamic modelling in NLME using differential equations.

Abstract:

:The standard software for non-linear mixed-effect analysis of pharmacokinetic/pharmacodynamic (PK/PD) data is NONMEM while the non-linear mixed-effects package NLME is an alternative as long as the models are fairly simple. We present the nlmeODE package which combines the ordinary differential equation (ODE) solver package odesolve and the non-linear mixed effects package NLME thereby enabling the analysis of complicated systems of ODEs by non-linear mixed-effects modelling. The pharmacokinetics of the anti-asthmatic drug theophylline is used to illustrate the applicability of the nlmeODE package for population PK/PD analysis using the available data analysis tools in R for model inspection and validation. The nlmeODE package is numerically stable and provides accurate parameter estimates which are consistent with NONMEM estimates.

authors

Tornøe CW,Agersø H,Jonsson EN,Madsen H,Nielsen HA

doi

10.1016/j.cmpb.2004.01.001

subject

Has Abstract

pub_date

2004-10-01 00:00:00

pages

31-40

issue

1

eissn

0169-2607

issn

1872-7565

pii

S0169260704000136

journal_volume

76

pub_type

杂志文章
  • Resolving complex research data management issues in biomedical laboratories: Qualitative study of an industry-academia collaboration.

    abstract::This paper describes a distributed collaborative effort between industry and academia to systematize data management in an academic biomedical laboratory. Heterogeneous and voluminous nature of research data created in biomedical laboratories make information management difficult and research unproductive. One such co...

    journal_title:Computer methods and programs in biomedicine

    pub_type: 杂志文章

    doi:10.1016/j.cmpb.2015.11.001

    authors: Myneni S,Patel VL,Bova GS,Wang J,Ackerman CF,Berlinicke CA,Chen SH,Lindvall M,Zack DJ

    更新日期:2016-04-01 00:00:00

  • An expert system for the nutritional management of the critically ill.

    abstract::While there have been considerable advances in the last several years in the nutritional management of the critically ill, these improvements are not always recognized in intensive care environments. In this paper we describe the development and testing of an expert system, NUTRITIONAL ADVISOR, which would be be an ai...

    journal_title:Computer methods and programs in biomedicine

    pub_type: 杂志文章

    doi:10.1016/0169-2607(90)90040-g

    authors: Fraser RB,Turney SZ

    更新日期:1990-11-01 00:00:00

  • Compressed sampling for heart rate monitoring.

    abstract::For the first time compressed sampling (CS) has been applied to heart rate (HR) measurements. The signals can be reconstructed from samples far below the Nyquist rate with negligible small errors, a sampling reduction of 8 has been demonstrated in the paper. As a result, the bitrate of the CS sampler is half when comp...

    journal_title:Computer methods and programs in biomedicine

    pub_type: 杂志文章

    doi:10.1016/j.cmpb.2012.06.002

    authors: Faust O,Acharya UR,Ma J,Min LC,Tamura T

    更新日期:2012-12-01 00:00:00

  • EEG data classification through signal spatial redistribution and optimized linear discriminants.

    abstract::This paper presents a preprocessing technique for improving the classification of electroencephalographic (EEG) data in brain-computer interfaces (BCI) for the case of realistic measuring conditions, such as low signal-to-noise ratio (SNR), reduced number of measuring electrodes, and reduced amount of data used to tra...

    journal_title:Computer methods and programs in biomedicine

    pub_type: 杂志文章

    doi:10.1016/j.cmpb.2009.05.005

    authors: Gutiérrez D,Escalona-Vargas DI

    更新日期:2010-01-01 00:00:00

  • Assessing erectile neurogenic dysfunction from heart rate variability through a Generalized Linear Mixed Model framework.

    abstract:BACKGROUND:The low (LF) vs. high (HF) frequency energy ratio, computed from the spectral decomposition of heart beat intervals, has become a major tool in cardiac autonomic system control and sympatho-vagal balance studies. The (statistical) distributions of response variables designed from ratios of two quantities, su...

    journal_title:Computer methods and programs in biomedicine

    pub_type: 杂志文章

    doi:10.1016/j.cmpb.2009.11.001

    authors: Fernández EA,Souza Neto EP,Abry P,Macchiavelli R,Balzarini M,Cuzin B,Baude C,Frutoso J,Gharib C

    更新日期:2010-07-01 00:00:00

  • Robust analysis of variance with Turbo Pascal.

    abstract::A program in Turbo Pascal for robust analysis of variance is presented. A typical data file, the Pascal program listing and the corresponding output are given. ...

    journal_title:Computer methods and programs in biomedicine

    pub_type: 杂志文章

    doi:10.1016/0169-2607(90)90074-j

    authors: Reed JF 3rd

    更新日期:1990-12-01 00:00:00

  • Utilization of Discretization method on the diagnosis of optic nerve disease.

    abstract::The optic nerve disease is an important disease that appears commonly in public. In this paper, we propose a hybrid diagnostic system based on discretization (quantization) method and classification algorithms including C4.5 decision tree classifier, artificial neural network (ANN), and least square support vector mac...

    journal_title:Computer methods and programs in biomedicine

    pub_type: 杂志文章

    doi:10.1016/j.cmpb.2008.04.009

    authors: Polat K,Kara S,Güven A,Güneş S

    更新日期:2008-09-01 00:00:00

  • Enhancement of surgical hand gesture recognition using a capsule network for a contactless interface in the operating room.

    abstract:BACKGROUND AND OBJECTIVE:Hand gesture recognition systems in operating rooms (ORs) are crucial for browsing and controlling computer-aided devices, which have been developed to decrease the risk of contamination during surgical procedures. METHODS:We proposed the use of hand gesture recognition to enhance accuracies a...

    journal_title:Computer methods and programs in biomedicine

    pub_type: 杂志文章

    doi:10.1016/j.cmpb.2020.105385

    authors: Lee AR,Cho Y,Jin S,Kim N

    更新日期:2020-07-01 00:00:00

  • Quantile planes without crossing via nonlinear programming.

    abstract:BACKGROUND AND OBJECTIVE:In this note we propose a nonlinear programming approach for simultaneous fitting of quantile regression models for two or more quantiles. The approach is straightforward, flexible and practical. We apply this approach to a dataset of lactic acid values from a screening dataset in childhood mal...

    journal_title:Computer methods and programs in biomedicine

    pub_type: 杂志文章

    doi:10.1016/j.cmpb.2017.10.019

    authors: Hutson AD

    更新日期:2018-01-01 00:00:00

  • Efficient implementation of non-linear valve law and ventricular interaction dynamics in the minimal cardiac model.

    abstract::A minimal model of the cardio-vascular system (CVS) with ventricular interaction and inertial effects that accurately captures the physiological trends of a variety of disease states has been developed. However, the physiologically accurate open on pressure, close on flow valve law is computationally heavy to implemen...

    journal_title:Computer methods and programs in biomedicine

    pub_type: 杂志文章

    doi:10.1016/j.cmpb.2005.06.003

    authors: Hann CE,Chase JG,Shaw GM

    更新日期:2005-10-01 00:00:00

  • Analyzing hedyotis diffusa mechanisms of action from the genomics perspective.

    abstract:BACKGROUND AND OBJECTIVE:Hedyotis diffusa is an herb used for anti-cancer, anti-oxidant, anti-inflammatory, and anti-fibroblast treatment in the clinical practice of Traditional Chinese Medicine. However, its pharmacological mechanisms have not been fully established and there is a lack of modern scientific verificatio...

    journal_title:Computer methods and programs in biomedicine

    pub_type: 杂志文章

    doi:10.1016/j.cmpb.2018.10.019

    authors: Hu CJ,He J,Li GZ,Fang PP,Xie JD,Ding YW,Mao YQ,Hu KF

    更新日期:2019-06-01 00:00:00

  • System approach to modeling of liver glucose metabolism with physiologically interpreted model parameters outgoing from [18F]FDG concentrations measured by PET.

    abstract::New mathematical models from physiologically interpreted parameters capable of evaluating glucose metabolism within the liver and/or the whole body were developed. The group of pigs in a fasting state and the group of pigs with euglycemic supraphysiological hyperinsulinemia were scanned by positron emission tomography...

    journal_title:Computer methods and programs in biomedicine

    pub_type: 杂志文章

    doi:10.1016/j.cmpb.2012.03.005

    authors: Rausova Z,Chrenova J,Nuutila P,Iozzo P,Dedik L

    更新日期:2012-08-01 00:00:00

  • A new microfluidic device for separating circulating tumor cells based on their physical properties by using electrophoresis and dielectrophoresis forces within an electrical field.

    abstract:BACKGROUND AND OBJECTIVE:The presence of circulating tumor cells in the patient's blood is a clinical factor that indicates the initiation of metastasis. METHODS:In this paper, a microfluidic device is designed to separate, enumerate, and to diagnose cancer cells from the patient's blood sample. Here, we present a new...

    journal_title:Computer methods and programs in biomedicine

    pub_type: 杂志文章

    doi:10.1016/j.cmpb.2019.105147

    authors: Dabighi A,Toghraie D

    更新日期:2020-03-01 00:00:00

  • HANOIPC3: a computer program to evaluate executive functions.

    abstract::This article describes a computer program (HANOIPC3) based on the Tower of Hanoi game that, by analyzing a series of parameters during execution, allows a fast and accurate evaluation of data related to certain executive functions, especially planning, organizing and problem-solving. This computerized version has only...

    journal_title:Computer methods and programs in biomedicine

    pub_type: 杂志文章

    doi:10.1016/j.cmpb.2009.02.007

    authors: Guevara MA,Rizo L,Ruiz-Díaz M,Hernández-González M

    更新日期:2009-08-01 00:00:00

  • 3D reconstruction based on hard tissue microtome cross-section pictures in dentistry.

    abstract::The aim of this study was to examine the accuracy of the computerized 3D surface analyzing and volume measuring method in dentistry. Two different types of test objects were used in the first part of the measurements. Each sample of the two groups was cross-sectioned using a hard tissue microtome. The sections were ph...

    journal_title:Computer methods and programs in biomedicine

    pub_type: 杂志文章

    doi:10.1016/s0169-2607(00)00059-6

    authors: Hegedus C,Flóra-Nagy E,Martos R,Juhász A,Fülöp I,Pomaházi S,Nagy IP,Tóth Z,Márton I,Keszthelyi G

    更新日期:2000-10-01 00:00:00

  • Three dimensional imaging of tracheobronchial system using spiral CT.

    abstract::The purpose of this study was to evaluate the clinical efficacy of 3D reconstruction of the tracheobronchial system using spiral CT. A total of 25 patients with tracheobronchial abnormalities, stenosis (n = 21) and fistula with esophagus (n = 4), underwent a single breathhold spiral CT (5 mm collision, 5 mm)/s increme...

    journal_title:Computer methods and programs in biomedicine

    pub_type: 临床试验,杂志文章

    doi:10.1016/s0169-2607(98)00053-4

    authors: Kozuka T,Minaguchi K,Yamaguchi R,Yamaguchi M,Taniguchi Y

    更新日期:1998-08-01 00:00:00

  • Classification of nervous system withdrawn and approved drugs with ToxPrint features via machine learning strategies.

    abstract:BACKGROUND AND OBJECTIVES:Early-phase virtual screening of candidate drug molecules plays a key role in pharmaceutical industry from data mining and machine learning to prevent adverse effects of the drugs. Computational classification methods can distinguish approved drugs from withdrawn ones. We focused on 6 data set...

    journal_title:Computer methods and programs in biomedicine

    pub_type: 杂志文章

    doi:10.1016/j.cmpb.2017.02.004

    authors: Onay A,Onay M,Abul O

    更新日期:2017-04-01 00:00:00

  • PC software library for the production of auditory stimuli in cognitive event-related potential experiments.

    abstract::Software which provides an interface to the features of the Sound Blaster Pro card for the IBM PC using MS-DOS is described. The library may be called from a Turbo Pascal version 6 program. It permits tones of specified frequency (500 Hz-8 kHz in increments of 500Hz) and aversive noise to be turned on and off by a con...

    journal_title:Computer methods and programs in biomedicine

    pub_type: 杂志文章

    doi:10.1016/0169-2607(94)01588-7

    authors: McCullagh PJ,McAllister HG,Armstrong GA,Regan MF

    更新日期:1994-12-01 00:00:00

  • Temporal logics and real time expert systems.

    abstract::This paper introduces temporal logics. Due to the eternal compromise between expressive adequacy and reasoning efficiency that must decided upon in any application, full (first order logic or modal logic based) temporal logics are frequently not suitable. This is especially true in real time expert systems, where a fi...

    journal_title:Computer methods and programs in biomedicine

    pub_type: 杂志文章,评审

    doi:10.1016/0169-2607(96)01761-0

    authors: Blom JA

    更新日期:1996-10-01 00:00:00

  • From floated to conventional confidence intervals for the relative risks based on published dose-response data.

    abstract::A dose-response meta-analysis of epidemiological studies can encounter different types of confidence intervals (floated vs. conventional). This paper illustrates how to back calculate conventional confidence intervals from a set of relative risks reported with floated confidence intervals or floated standard errors. F...

    journal_title:Computer methods and programs in biomedicine

    pub_type: 杂志文章,meta分析

    doi:10.1016/j.cmpb.2009.11.005

    authors: Orsini N

    更新日期:2010-04-01 00:00:00

  • Intelligent classification of electrocardiogram (ECG) signal using extended Kalman Filter (EKF) based neuro fuzzy system.

    abstract::This study presents the development of a hybrid system consisting of an ensemble of Extended Kalman Filter (EKF) based Multi Layer Perceptron Network (MLPN) and a one-pass learning Fuzzy Inference System using Look-up Table Scheme for the recognition of electrocardiogram (ECG) signals. This system can distinguish vari...

    journal_title:Computer methods and programs in biomedicine

    pub_type: 杂志文章

    doi:10.1016/j.cmpb.2006.03.003

    authors: Meau YP,Ibrahim F,Narainasamy SA,Omar R

    更新日期:2006-05-01 00:00:00

  • Using anchors from free text in electronic health records to diagnose postoperative delirium.

    abstract:OBJECTIVES:Postoperative delirium is a common complication after major surgery among the elderly. Despite its potentially serious consequences, the complication often goes undetected and undiagnosed. In order to provide diagnosis support one could potentially exploit the information hidden in free text documents from e...

    journal_title:Computer methods and programs in biomedicine

    pub_type: 杂志文章

    doi:10.1016/j.cmpb.2017.09.014

    authors: Mikalsen KØ,Soguero-Ruiz C,Jensen K,Hindberg K,Gran M,Revhaug A,Lindsetmo RO,Skrøvseth SO,Godtliebsen F,Jenssen R

    更新日期:2017-12-01 00:00:00

  • Vision-based motion detection, analysis and recognition of epileptic seizures--a systematic review.

    abstract::The analysis of human motion from video has been the object of interest for many application areas, these including surveillance, control, biomedical analysis, video annotation etc. This paper addresses the advances within this topic in relation to epilepsy, a domain where human motion is with no doubt one of the most...

    journal_title:Computer methods and programs in biomedicine

    pub_type: 杂志文章,评审

    doi:10.1016/j.cmpb.2012.08.005

    authors: Pediaditis M,Tsiknakis M,Leitgeb N

    更新日期:2012-12-01 00:00:00

  • A state of the art review on intima-media thickness (IMT) measurement and wall segmentation techniques for carotid ultrasound.

    abstract::Last 10 years have witnessed the growth of many computer applications for the segmentation of the vessel wall in ultrasound imaging. Epidemiological studies showed that the thickness of the major arteries is an early and effective marker of onset of cardiovascular diseases. Ultrasound imaging, being real-time, economi...

    journal_title:Computer methods and programs in biomedicine

    pub_type: 杂志文章,评审

    doi:10.1016/j.cmpb.2010.04.007

    authors: Molinari F,Zeng G,Suri JS

    更新日期:2010-12-01 00:00:00

  • Helping doctors hasten COVID-19 treatment: Towards a rescue framework for the transfusion of best convalescent plasma to the most critical patients based on biological requirements via ml and novel MCDM methods.

    abstract:CONTEXT:People who have recently recovered from the threat of deteriorating coronavirus disease-2019 (COVID-19) have antibodies to the coronavirus circulating in their blood. Thus, the transfusion of these antibodies to deteriorating patients could theoretically help boost their immune system. Biologically, two challen...

    journal_title:Computer methods and programs in biomedicine

    pub_type: 杂志文章

    doi:10.1016/j.cmpb.2020.105617

    authors: Albahri OS,Al-Obaidi JR,Zaidan AA,Albahri AS,Zaidan BB,Salih MM,Qays A,Dawood KA,Mohammed RT,Abdulkareem KH,Aleesa AM,Alamoodi AH,Chyad MA,Zulkifli CZ

    更新日期:2020-11-01 00:00:00

  • Visual tests for measuring the picture quality of teleconsultations for medical purposes.

    abstract::Telemedicine provides a new way of delivering medical services. The good quality of the picture is, however, essential for a proper and reliable teleconsultation, especially in the cases when visual information about the patient's physical condition is of great importance as in ophthalmology and dermatology. Therefore...

    journal_title:Computer methods and programs in biomedicine

    pub_type: 杂志文章

    doi:10.1016/s0169-2607(00)00120-6

    authors: Lamminen H,Ruohonen K,Uusitalo H

    更新日期:2001-05-01 00:00:00

  • Information theoretic multiscale truncated SVD for multilead electrocardiogram.

    abstract:BACKGROUND AND OBJECTIVE:In this paper an information theory based multiscale singular value decomposition (SVD) is proposed for multilead electrocardiogram (ECG) signal processing. The shrinkage of singular values for different multivariate multiscale matrices at wavelet scales is based on information content. It aims...

    journal_title:Computer methods and programs in biomedicine

    pub_type: 杂志文章

    doi:10.1016/j.cmpb.2016.01.010

    authors: Sharma LN

    更新日期:2016-06-01 00:00:00

  • Intuitive user interfaces (IUI): a CASE starting point for design and programming.

    abstract::The acceptance of a software product depends to a considerable extent on the user interface. The class of graphic-oriented user interfaces that are called Intuitive User Interfaces (IUI) is described. These interfaces allow the user to learn to operate software programs quickly. In the following the graphical layout p...

    journal_title:Computer methods and programs in biomedicine

    pub_type: 杂志文章

    doi:10.1016/0169-2607(92)90087-n

    authors: Bödi RA,Kaulich TW

    更新日期:1992-03-01 00:00:00

  • Structure of the standardized computerized 24-h diet recall interview used as reference method in the 22 centers participating in the EPIC project. European Prospective Investigation into Cancer and Nutrition.

    abstract::A computerized 24-h diet recall interview program (EPIC-SOFT) was developed for use in a large European multi-center study, namely the European Prospective Investigation into Cancer and Nutrition (EPIC). This program, which was adapted for each participating country and translated into nine languages, was developed to...

    journal_title:Computer methods and programs in biomedicine

    pub_type: 杂志文章,多中心研究

    doi:10.1016/s0169-2607(98)00088-1

    authors: Slimani N,Deharveng G,Charrondière RU,van Kappel AL,Ocké MC,Welch A,Lagiou A,van Liere M,Agudo A,Pala V,Brandstetter B,Andren C,Stripp C,van Staveren WA,Riboli E

    更新日期:1999-03-01 00:00:00

  • Cutting procedures with improved visual effects and haptic interaction for surgical simulation systems.

    abstract:BACKGROUND AND OBJECTIVES:Surface rendering and physical models with constant parameters are often employed for cutting procedures in conventional surgical simulators. As a consequence, the internal structures of soft tissues cannot be rendered properly and haptic interaction is unrealistic. In order to improve both th...

    journal_title:Computer methods and programs in biomedicine

    pub_type: 杂志文章

    doi:10.1016/j.cmpb.2019.105270

    authors: Shi W,Liu PX,Zheng M

    更新日期:2020-02-01 00:00:00