Dose Response Analysis Using R

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Dose-Response Analysis Using R

Christian Ritz,Signe Marie Jensen,Daniel Gerhard,Jens Carl Streibig
Dose Response Analysis Using R Book PDF

Author : Christian Ritz,Signe Marie Jensen,Daniel Gerhard,Jens Carl Streibig
Publisher : CRC Press
Page : 227 pages
File Size : 45,8 Mb
Release : 2019-07-19
Category : Mathematics
ISBN : 9781351981040

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Dose-Response Analysis Using R by Christian Ritz,Signe Marie Jensen,Daniel Gerhard,Jens Carl Streibig Pdf

Nowadays the term dose-response is used in many different contexts and many different scientific disciplines including agriculture, biochemistry, chemistry, environmental sciences, genetics, pharmacology, plant sciences, toxicology, and zoology. In the 1940 and 1950s, dose-response analysis was intimately linked to evaluation of toxicity in terms of binary responses, such as immobility and mortality, with a limited number of doses of a toxic compound being compared to a control group (dose 0). Later, dose-response analysis has been extended to other types of data and to more complex experimental designs. Moreover, estimation of model parameters has undergone a dramatic change, from struggling with cumbersome manual operations and transformations with pen and paper to rapid calculations on any laptop. Advances in statistical software have fueled this development. Key Features: Provides a practical and comprehensive overview of dose-response analysis. Includes numerous real data examples to illustrate the methodology. R code is integrated into the text to give guidance on applying the methods. Written with minimal mathematics to be suitable for practitioners. Includes code and datasets on the book’s GitHub: https://github.com/DoseResponse. This book focuses on estimation and interpretation of entirely parametric nonlinear dose-response models using the powerful statistical environment R. Specifically, this book introduces dose-response analysis of continuous, binomial, count, multinomial, and event-time dose-response data. The statistical models used are partly special cases, partly extensions of nonlinear regression models, generalized linear and nonlinear regression models, and nonlinear mixed-effects models (for hierarchical dose-response data). Both simple and complex dose-response experiments will be analyzed.

Nonlinear Regression with R

Christian Ritz,Jens Carl Streibig
Nonlinear Regression with R Book PDF

Author : Christian Ritz,Jens Carl Streibig
Publisher : Springer Science & Business Media
Page : 151 pages
File Size : 51,7 Mb
Release : 2008-12-11
Category : Mathematics
ISBN : 9780387096162

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Nonlinear Regression with R by Christian Ritz,Jens Carl Streibig Pdf

- Coherent and unified treatment of nonlinear regression with R. - Example-based approach. - Wide area of application.

Modeling Dose-Response Microarray Data in Early Drug Development Experiments Using R

Dan Lin,Ziv Shkedy,Daniel Yekutieli,Dhammika Amaratunga,Luc Bijnens
Modeling Dose Response Microarray Data in Early Drug Development Experiments Using R Book PDF

Author : Dan Lin,Ziv Shkedy,Daniel Yekutieli,Dhammika Amaratunga,Luc Bijnens
Publisher : Springer Science & Business Media
Page : 282 pages
File Size : 47,6 Mb
Release : 2012-08-27
Category : Mathematics
ISBN : 9783642240072

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Modeling Dose-Response Microarray Data in Early Drug Development Experiments Using R by Dan Lin,Ziv Shkedy,Daniel Yekutieli,Dhammika Amaratunga,Luc Bijnens Pdf

This book focuses on the analysis of dose-response microarray data in pharmaceutical settings, the goal being to cover this important topic for early drug development experiments and to provide user-friendly R packages that can be used to analyze this data. It is intended for biostatisticians and bioinformaticians in the pharmaceutical industry, biologists, and biostatistics/bioinformatics graduate students. Part I of the book is an introduction, in which we discuss the dose-response setting and the problem of estimating normal means under order restrictions. In particular, we discuss the pooled-adjacent-violator (PAV) algorithm and isotonic regression, as well as inference under order restrictions and non-linear parametric models, which are used in the second part of the book. Part II is the core of the book, in which we focus on the analysis of dose-response microarray data. Methodological topics discussed include: • Multiplicity adjustment • Test statistics and procedures for the analysis of dose-response microarray data • Resampling-based inference and use of the SAM method for small-variance genes in the data • Identification and classification of dose-response curve shapes • Clustering of order-restricted (but not necessarily monotone) dose-response profiles • Gene set analysis to facilitate the interpretation of microarray results • Hierarchical Bayesian models and Bayesian variable selection • Non-linear models for dose-response microarray data • Multiple contrast tests • Multiple confidence intervals for selected parameters adjusted for the false coverage-statement rate All methodological issues in the book are illustrated using real-world examples of dose-response microarray datasets from early drug development experiments.

Modeling Dose-Response Microarray Data in Early Drug Development Experiments Using R

Dan Lin,Ziv Shkedy,Daniel Yekutieli,Dhammika Amaratunga,Luc Bijnens
Modeling Dose Response Microarray Data in Early Drug Development Experiments Using R Book PDF

Author : Dan Lin,Ziv Shkedy,Daniel Yekutieli,Dhammika Amaratunga,Luc Bijnens
Publisher : Springer Science & Business Media
Page : 282 pages
File Size : 46,6 Mb
Release : 2012-08-27
Category : Mathematics
ISBN : 9783642240072

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Modeling Dose-Response Microarray Data in Early Drug Development Experiments Using R by Dan Lin,Ziv Shkedy,Daniel Yekutieli,Dhammika Amaratunga,Luc Bijnens Pdf

This book focuses on the analysis of dose-response microarray data in pharmaceutical settings, the goal being to cover this important topic for early drug development experiments and to provide user-friendly R packages that can be used to analyze this data. It is intended for biostatisticians and bioinformaticians in the pharmaceutical industry, biologists, and biostatistics/bioinformatics graduate students. Part I of the book is an introduction, in which we discuss the dose-response setting and the problem of estimating normal means under order restrictions. In particular, we discuss the pooled-adjacent-violator (PAV) algorithm and isotonic regression, as well as inference under order restrictions and non-linear parametric models, which are used in the second part of the book. Part II is the core of the book, in which we focus on the analysis of dose-response microarray data. Methodological topics discussed include: • Multiplicity adjustment • Test statistics and procedures for the analysis of dose-response microarray data • Resampling-based inference and use of the SAM method for small-variance genes in the data • Identification and classification of dose-response curve shapes • Clustering of order-restricted (but not necessarily monotone) dose-response profiles • Gene set analysis to facilitate the interpretation of microarray results • Hierarchical Bayesian models and Bayesian variable selection • Non-linear models for dose-response microarray data • Multiple contrast tests • Multiple confidence intervals for selected parameters adjusted for the false coverage-statement rate All methodological issues in the book are illustrated using real-world examples of dose-response microarray datasets from early drug development experiments.

Science and Decisions

National Research Council,Division on Earth and Life Studies,Board on Environmental Studies and Toxicology,Committee on Improving Risk Analysis Approaches Used by the U.S. EPA
Science and Decisions Book PDF

Author : National Research Council,Division on Earth and Life Studies,Board on Environmental Studies and Toxicology,Committee on Improving Risk Analysis Approaches Used by the U.S. EPA
Publisher : National Academies Press
Page : 422 pages
File Size : 47,6 Mb
Release : 2009-03-24
Category : Political Science
ISBN : 9780309120463

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Science and Decisions by National Research Council,Division on Earth and Life Studies,Board on Environmental Studies and Toxicology,Committee on Improving Risk Analysis Approaches Used by the U.S. EPA Pdf

Risk assessment has become a dominant public policy tool for making choices, based on limited resources, to protect public health and the environment. It has been instrumental to the mission of the U.S. Environmental Protection Agency (EPA) as well as other federal agencies in evaluating public health concerns, informing regulatory and technological decisions, prioritizing research needs and funding, and in developing approaches for cost-benefit analysis. However, risk assessment is at a crossroads. Despite advances in the field, risk assessment faces a number of significant challenges including lengthy delays in making complex decisions; lack of data leading to significant uncertainty in risk assessments; and many chemicals in the marketplace that have not been evaluated and emerging agents requiring assessment. Science and Decisions makes practical scientific and technical recommendations to address these challenges. This book is a complement to the widely used 1983 National Academies book, Risk Assessment in the Federal Government (also known as the Red Book). The earlier book established a framework for the concepts and conduct of risk assessment that has been adopted by numerous expert committees, regulatory agencies, and public health institutions. The new book embeds these concepts within a broader framework for risk-based decision-making. Together, these are essential references for those working in the regulatory and public health fields.

10 Steps to Develop Great Learners

John Hattie,Kyle Hattie
10 Steps to Develop Great Learners Book PDF

Author : John Hattie,Kyle Hattie
Publisher : Routledge
Page : 168 pages
File Size : 44,5 Mb
Release : 2022-04-07
Category : Education
ISBN : 9781000574166

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10 Steps to Develop Great Learners by John Hattie,Kyle Hattie Pdf

What can concerned parents and carers do to ensure their children, of all ages, develop great learning habits which will help them achieve their maximum at school and in life? This is probably one of the most important questions any parent can ask and now John Hattie, one of the most respected and renowned Education researchers in the world draws on his globally famous Visible Learning research to provide some answers. Writing this book with his own son Kyle, himself a respected teacher, the Hatties offer a 10-step plan to nurturing curiosity and intellectual ambition and providing a home environment that encourages and values learning. These simple steps based on the strongest of research evidence and packed full of practical advice can be followed by any parent or carer to support and enhance learning and maximize the potential of their children. Areas covered include: Communicating effectively with teachers Being the ‘first learner’ and demonstrating openness to new ideas and thinking Choosing the right school for your child Promoting the ‘language of learning’ Having appropriately high expectations and understanding the power of feedback Anyone concerned about the education and development of our children should read this book. For parents it is an essential guide that could make a vital difference to your child's life. For schools, school leaders and education authorities this is a book you should be encouraging every parent to read to support learning and maximize opportunities for all.

Drug Synergism and Dose-Effect Data Analysis

Ronald J. Tallarida
Drug Synergism and Dose Effect Data Analysis Book PDF

Author : Ronald J. Tallarida
Publisher : CRC Press
Page : 268 pages
File Size : 47,8 Mb
Release : 2000-07-21
Category : Mathematics
ISBN : 9781420036107

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Drug Synergism and Dose-Effect Data Analysis by Ronald J. Tallarida Pdf

Not since this author's bestselling Manual of Pharmacologic Calculation-long out of print-has there been a reference available for drug data analysis, and even that work did not deal with drug combinations. Although pharmacologists and most other scientists know what synergism is, mainstream textbooks tend to neglect it as a quantitative topic. Few

Dose Finding in Drug Development

Naitee Ting
Dose Finding in Drug Development Book PDF

Author : Naitee Ting
Publisher : Springer Science & Business Media
Page : 262 pages
File Size : 50,6 Mb
Release : 2006-12-29
Category : Medical
ISBN : 9780387337067

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Dose Finding in Drug Development by Naitee Ting Pdf

If you have ever wondered when visiting the pharmacy how the dosage of your prescription is determined this book will answer your questions. Dosing information on drug labels is based on discussion between the pharmaceutical manufacturer and the drug regulatory agency, and the label is a summary of results obtained from many scientific experiments. The book introduces the drug development process, the design and the analysis of clinical trials. Many of the discussions are based on applications of statistical methods in the design and analysis of dose response studies. Important procedural steps from a pharmaceutical industry perspective are also examined.

Applied Multivariate Statistics with R

Daniel Zelterman
Applied Multivariate Statistics with R Book PDF

Author : Daniel Zelterman
Publisher : Springer Nature
Page : 469 pages
File Size : 40,6 Mb
Release : 2023-01-20
Category : Medical
ISBN : 9783031130052

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Applied Multivariate Statistics with R by Daniel Zelterman Pdf

Now in its second edition, this book brings multivariate statistics to graduate-level practitioners, making these analytical methods accessible without lengthy mathematical derivations. Using the open source shareware program R, Dr. Zelterman demonstrates the process and outcomes for a wide array of multivariate statistical applications. Chapters cover graphical displays; linear algebra; univariate, bivariate and multivariate normal distributions; factor methods; linear regression; discrimination and classification; clustering; time series models; and additional methods. He uses practical examples from diverse disciplines, to welcome readers from a variety of academic specialties. Each chapter includes exercises, real data sets, and R implementations. The book avoids theoretical derivations beyond those needed to fully appreciate the methods. Prior experience with R is not necessary. New to this edition are chapters devoted to longitudinal studies and the clustering of large data. It is an excellent resource for students of multivariate statistics, as well as practitioners in the health and life sciences who are looking to integrate statistics into their work.

Toxicological Effects of Methylmercury

National Research Council,Commission on Life Sciences,Board on Environmental Studies and Toxicology,Committee on the Toxicological Effects of Methylmercury
Toxicological Effects of Methylmercury Book PDF

Author : National Research Council,Commission on Life Sciences,Board on Environmental Studies and Toxicology,Committee on the Toxicological Effects of Methylmercury
Publisher : National Academies Press
Page : 364 pages
File Size : 41,8 Mb
Release : 2000-09-27
Category : Nature
ISBN : 9780309171717

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Toxicological Effects of Methylmercury by National Research Council,Commission on Life Sciences,Board on Environmental Studies and Toxicology,Committee on the Toxicological Effects of Methylmercury Pdf

Mercury is widespread in our environment. Methylmercury, one organic form of mercury, can accumulate up the aquatic food chain and lead to high concentrations in predatory fish. When consumed by humans, contaminated fish represent a public health risk. Combustion processes, especially coal-fired power plants, are major sources of mercury contamination in the environment. The U.S. Environmental Protection Agency (EPA) is considering regulating mercury emissions from those plants. Toxicological Effects of Methylmercury reviews the health effects of methylmercury and discusses the estimation of mercury exposure from measured biomarkers, how differences between individuals affect mercury toxicity, and appropriate statistical methods for analysis of the data and thoroughly compares the epidemiological studies available on methylmercury. Included are discussions of current mercury levels on public health and a delineation of the scientific aspects and policy decisions involved in the regulation of mercury. This report is a valuable resource for individuals interested in the public health effects and regulation of mercury. The report also provides an excellent example of the implications of decisions in the risk assessment process for a larger audience.

Handbook of Meta-Analysis

Christopher H. Schmid,Theo Stijnen,Ian White
Handbook of Meta Analysis Book PDF

Author : Christopher H. Schmid,Theo Stijnen,Ian White
Publisher : CRC Press
Page : 570 pages
File Size : 41,9 Mb
Release : 2020-09-07
Category : Mathematics
ISBN : 9781498703994

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Handbook of Meta-Analysis by Christopher H. Schmid,Theo Stijnen,Ian White Pdf

1. Provides a comprehensive overview of meta-analysis methods and applications. 2. Divided into four major sub-topics, covering univariate meta-analysis, multivariate, applications and policy. 3. Designed to be suitable for graduate students and researchers new to the field. 4. Includes lots of real examples, with data and software code made available. 5. Chapters written by the leading researchers in the field.

Health Risks from Dioxin and Related Compounds

National Research Council,Division on Earth and Life Studies,Board on Environmental Studies and Toxicology,Committee on EPA's Exposure and Human Health Reassessment of TCDD and Related Compounds
Health Risks from Dioxin and Related Compounds Book PDF

Author : National Research Council,Division on Earth and Life Studies,Board on Environmental Studies and Toxicology,Committee on EPA's Exposure and Human Health Reassessment of TCDD and Related Compounds
Publisher : National Academies Press
Page : 269 pages
File Size : 41,8 Mb
Release : 2006-10-20
Category : Science
ISBN : 9780309133883

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Health Risks from Dioxin and Related Compounds by National Research Council,Division on Earth and Life Studies,Board on Environmental Studies and Toxicology,Committee on EPA's Exposure and Human Health Reassessment of TCDD and Related Compounds Pdf

Although the U.S. Environmental Protection Agency presented a comprehensive review of the scientific literature in its 2003 draft reassessment of the risks of dioxin, the agency did not sufficiently quantify the uncertainties and variabilities associated with the risks, nor did it adequately justify the assumptions used to estimate them, according to this new report from the National Academies' National Research Council. The committee that wrote the report recommended that EPA re-estimate the risks using several different assumptions and better communicate the uncertainties in those estimates. The agency also should explain more clearly how it selects both the data upon which the reassessment is based and the methods used to analyze them.

Bayesian Methods in Pharmaceutical Research

Emmanuel Lesaffre,Gianluca Baio,Bruno Boulanger
Bayesian Methods in Pharmaceutical Research Book PDF

Author : Emmanuel Lesaffre,Gianluca Baio,Bruno Boulanger
Publisher : CRC Press
Page : 547 pages
File Size : 44,5 Mb
Release : 2020-04-15
Category : Medical
ISBN : 9781351718677

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Bayesian Methods in Pharmaceutical Research by Emmanuel Lesaffre,Gianluca Baio,Bruno Boulanger Pdf

Since the early 2000s, there has been increasing interest within the pharmaceutical industry in the application of Bayesian methods at various stages of the research, development, manufacturing, and health economic evaluation of new health care interventions. In 2010, the first Applied Bayesian Biostatistics conference was held, with the primary objective to stimulate the practical implementation of Bayesian statistics, and to promote the added-value for accelerating the discovery and the delivery of new cures to patients. This book is a synthesis of the conferences and debates, providing an overview of Bayesian methods applied to nearly all stages of research and development, from early discovery to portfolio management. It highlights the value associated with sharing a vision with the regulatory authorities, academia, and pharmaceutical industry, with a view to setting up a common strategy for the appropriate use of Bayesian statistics for the benefit of patients. The book covers: Theory, methods, applications, and computing Bayesian biostatistics for clinical innovative designs Adding value with Real World Evidence Opportunities for rare, orphan diseases, and pediatric development Applied Bayesian biostatistics in manufacturing Decision making and Portfolio management Regulatory perspective and public health policies Statisticians and data scientists involved in the research, development, and approval of new cures will be inspired by the possible applications of Bayesian methods covered in the book. The methods, applications, and computational guidance will enable the reader to apply Bayesian methods in their own pharmaceutical research.

Statistical Models in Toxicology

Mehdi Razzaghi
Statistical Models in Toxicology Book PDF

Author : Mehdi Razzaghi
Publisher : CRC Press
Page : 162 pages
File Size : 47,7 Mb
Release : 2020-05-21
Category : Mathematics
ISBN : 9780429532351

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Statistical Models in Toxicology by Mehdi Razzaghi Pdf

Statistical Models in Toxicology presents an up-to-date and comprehensive account of mathematical statistics problems that occur in toxicology. This is as an exciting time in toxicology because of the attention given by statisticians to the problem of estimating the human health risk for environmental and occupational exposures. The development of modern statistical techniques with solid mathematical foundations in the 20th century and the advent of modern computers in the latter part of the century gave way to development of many statistical models and methods to describe toxicological processes and attempts to solve the associated problems. Not only have the models enjoyed a high level of elegance and sophistication mathematically, they are widely used by industry and government regulatory agencies. Features: Focuses on describing the statistical models in environmental toxicology that facilitate the assessment of risk mainly in humans. The properties and shortfalls of each model are discussed and its impact in the process of risk assessment is examined. Discusses models that assess the risk of mixtures of chemicals. Presents statistical models that are developed for risk estimation in different aspects of environmental toxicology including cancer and carcinogenic substances. Includes models for developmental and reproductive toxicity risk assessment, risk assessment in continuous outcomes and developmental neurotoxicity. Contains numerous examples and exercises. Statistical Models in Toxicology introduces a wide variety of statistical models that are currently utilized for dose-response modeling and risk analysis. These models are often developed based on design and regulatory guidelines of toxicological experiments. The book is suitable for practitioners or as use as a textbook for advanced undergraduate or graduate students of mathematics and statistics.

Doing Meta-Analysis with R

Mathias Harrer,Pim Cuijpers,Toshi A. Furukawa,David D. Ebert
Doing Meta Analysis with R Book PDF

Author : Mathias Harrer,Pim Cuijpers,Toshi A. Furukawa,David D. Ebert
Publisher : CRC Press
Page : 500 pages
File Size : 45,9 Mb
Release : 2021-09-15
Category : Mathematics
ISBN : 9781000435634

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Doing Meta-Analysis with R by Mathias Harrer,Pim Cuijpers,Toshi A. Furukawa,David D. Ebert Pdf

Doing Meta-Analysis with R: A Hands-On Guide serves as an accessible introduction on how meta-analyses can be conducted in R. Essential steps for meta-analysis are covered, including calculation and pooling of outcome measures, forest plots, heterogeneity diagnostics, subgroup analyses, meta-regression, methods to control for publication bias, risk of bias assessments and plotting tools. Advanced but highly relevant topics such as network meta-analysis, multi-three-level meta-analyses, Bayesian meta-analysis approaches and SEM meta-analysis are also covered. A companion R package, dmetar, is introduced at the beginning of the guide. It contains data sets and several helper functions for the meta and metafor package used in the guide. The programming and statistical background covered in the book are kept at a non-expert level, making the book widely accessible. Features • Contains two introductory chapters on how to set up an R environment and do basic imports/manipulations of meta-analysis data, including exercises • Describes statistical concepts clearly and concisely before applying them in R • Includes step-by-step guidance through the coding required to perform meta-analyses, and a companion R package for the book