Python for the Life Sciences : A Gentle Introduction to Python for Life Scientists

Treat yourself to a lively, intuitive, and easy-to-follow introduction to computer programming in Python. The book was written specifically for biologists with little or no prior experience of writing code - with the goal of giving them not only a foundation in Python programming, but also the confidence and inspiration to start using Python in their own research. Virtually all of the examples in the book are drawn from across a wide spectrum of life science research, from simple biochemical calculations and sequence analysis, to modeling the dynamic interactions of genes and proteins in cells, or the drift of genes in an evolving population. Best of all, Python for the Life Sciences shows you how to implement all of these projects in Python, one of the most popular programming languages for scientific computing. If you are a life scientist interested in learning Python to jump-start your research, this is the book for you . What You'll Learn Write Python scripts to automate your lab calculations Search for important motifs in genome sequences Use object-oriented programming with Python Study mining interaction network data for patterns Review dynamic modeling of biochemical switches Who This Book Is For Life scientists with little or no programming experience, including undergraduate and graduate students, postdoctoral researchers in academia and industry, medical professionals, and teachers/lecturers. "A comprehensive introduction to using Python for computational biology... A lovely book with humor and perspective" — John Novembre, Associate Professor of Human Genetics, University of Chicago and MacArthur Fellow "Fun, entertaining, witty and darn useful. A magical portal to the big data revolution" — Sandro Santagata, Assistant Professor in Pathology, Harvard Medical School "Alex and Gordon's enthusiasm for Python is contagious" — Glenys Thomson Professor of Integrative Biology, University of California, Berkeley Written in a fun, accessible and engaging style, this book will introduce you to the Python language with fully worked examples of Python code drawn from all aspects of life sciences, including bioinformatics, structural biology, developmental biology, and evolutionary biology and ecology. Using familiar examples designed specifically for life scientists, you'll learn the basics of the language from the very first chapters and progress from there. You'll find out how to use Python to automate lab calculations, search for gene promoter sequences, rotate a molecular bond, build a cellular toggle switch, model animal coat pattern formation, grow a virtual plant, simulate a flu epidemic, or evolve populations. Python for the Life Sciences provides the tools, confidence and inspiration to start crafting your own Python solutions for the challenges you face in your research. If you are a life scientist interested in learning Python to jump-start your research, this book is for you. What You'll Learn Write Python scripts to automate your lab calculations Search for important motifs in genome sequences Use object-oriented programming with Python Study mining interaction network data for patterns Review dynamic modeling of biochemical switches Who This Book Is For Life scientists with little or no programming experience, including undergraduate and graduate students, postdoctoral researchers in academia and industry, medical professionals, and teachers/lecturers. "A comprehensive introduction to using Python for computational biology ... A lovely book with humor and perspective"--John Novembre, Associate Professor of Human Genetics, University of Chicago and MacArthur Fellow "Fun, entertaining, witty and darn useful. A magical portal to the big data revolution" -- Sandro Santagata, Assistant Professor in Pathology, Harvard Medical School "Alex and Gordon's enthusiasm for Python is contagious" -- Glenys Thomson Professor of Integrative Biology, University of California, Berkeley "Treat yourself to a lively, intuitive, and easy-to-follow introduction to computer programming in Python. The book was written specifically for biologists with little or no prior experience of writing code - with the goal of giving them not only a foundation in Python programming, but also the confidence and inspiration to start using Python in their own research. Virtually all of the examples in the book are drawn from across a wide spectrum of life science research, from simple biochemical calculations and sequence analysis, to modeling the dynamic interactions of genes and proteins in cells, or the drift of genes in an evolving population. Best of all, "Python for the life sciences" shows you how to implement all of these projects in Python, one of the most popular programming languages for scientific computing. If you are a life scientist interested in learning Python to jump-start your research, this is the book for you"--Quatrième de couverture Cover Front Matter 1. Getting Started with Python 2. Python at the Lab Bench 3. Making Sense of Sequences 4. A Statistical Interlude 5. Opening Doors to Your Data 6. Finding Needles in Haystacks 7. Object Lessons 8. Slicing and Dicing Genomes 9. The Wells! The Wells! 10. Well on the Way 11. Molecules in 3D 12. Turning Genes On and Off 13. Taming the Network Hairball 14. Genetic Feedback Loops 15. Growing a Virtual Garden 16. How the Leopard Got its Spots 17. Foxes Guarding Henhouses 18. A Virtual Flu Epidemic 19. Retracing Life’s Footsteps Back Matter