Python Programming for Biological Problems
What you'll learn
- Learn the basic syntax of Python language quickly and easily
- Implement the main Python language operators: mathematical, logical, relational and conditional
- Create loop structures using for and while commands
- Implement functions for modularization of programs
- Implement the main Python language collections: tuples, lists, dictionaries, sets and arrays
- Manipulate text files
- Perform error and exception handling
- Learn the basic intuition and practice about regular expressions
- Learn the basic intuition and practice of Object Orientation
- Estimate the rate of recombination between genes
- Analyze genetic sequences
- Model bacterial growth
- Write a code that simulates a biology test, where at the end the grade is calculated
- Analyze gene sequence files directly from databases in .fasta format
- Analyze protein structure files in .pdb format
- Build a basic identification key for plant species
Requirements
- Programming logic
- Basic biological knowledge
Description
Biologists, biology students, and professionals in related fields generally have little or no contact with computer programming. However, the growing of data in genomic, protein and organism databases can be used to model the solution for some problems, such as the discovery of medicines and insecticides. It leads biologists to benefit from computer programming knowledge, so that they can develop useful applications in molecular biology, ecology, research on diseases, among others.
This course was developed with the purpose of introducing biologists, students of biology, biomedicine, ecology, pharmacy and professionals in related areas to programming using Python, which is nowadays one of the most used programming languages. It has a clear syntax and is easy to learn especially if you are a professional who are not familiar with technology. Many tools used in the field of biology were written in Python, which makes it a great option for establishing your first contact with computer programming. You will learn the following topics:
Python installation and main tools (IDEs)
Variables, constants and strings
Math operations
Logical, relational and conditional operators
Loops (for and while)
Functions
Lists, dictionaries, tuples, sets and arrays
Manipulation of text files
Error and exception handling
Regular expressions
Object oriented
After learning the basic concepts of Python, you will be able to apply the concepts in exercises, challenges and practical projects related to Biology. Below are some of the case studies that we will implement step by step:
Prediction of the mass of a peptide sequence according to its amino acid composition
Schedule a biology test that calculates the grade and whether the user got each question right or wrong
Creating classes related to objects in the biological world
.fasta gene sequence analysis
Analysis of gene frequencies according to the Hardy-Weinberg Theorem
Creating functions for population ecology calculations
Discover patterns in RNA sequences
Estimation of gene distances
Basic species identification
Troubleshooting gene frequencies
Creating scripts for parsing .pdb-type protein sequence files
Transcription of DNA sequences into RNA
There are more than 80 classes, concepts, code demonstration, and exercises with solutions! More than 30 proposed challenges and 4 small projects applying the concepts learned in each section in a biological context, with step-by-step resolution.
Who this course is for:
- Biology students or similar areas, such as biomedicine, pharmacy, forestry engineering, etc.
- Biology or related professionals who wish to learn a programming language
- Developers or IT professionals who are interested in applying programming knowledge in the field of biology
- Undergraduate students taking programming courses
- People interested in programming languages
Instructors
- 4.6 Instructor Rating
- 51,880 Reviews
- 250,075 Students
- 123 Courses
Olá! Meu nome é Jones Granatyr e já trabalho em torno de 10 anos com Inteligência Artificial (IA), inclusive fiz o meu mestrado e doutorado nessa área. Atualmente sou professor, pesquisador e fundador do portal IA Expert, um site com conteúdo específico sobre Inteligência Artificial. Desde que iniciei na Udemy criei vários cursos sobre diversos assuntos de IA, como por exemplo: Deep Learning, Machine Learning, Data Science, Redes Neurais Artificiais, Algoritmos Genéticos, Detecção e Reconhecimento Facial, Algoritmos de Busca, Mineração de Textos, Buscas em Textos, Mineração de Regras de Associação, Sistemas Especialistas e Sistemas de Recomendação. Os cursos são abordados em diversas linguagens de programação (Python, R e Java) e com várias ferramentas/tecnologias (tensorflow, keras, pandas, sklearn, opencv, dlib, weka, nltk, por exemplo). Meu principal objetivo é desmistificar a área de IA e ajudar profissionais de TI a entenderem como essa tecnologia pode ser utilizada na prática e que possam visualizar novas oportunidades de negócios.
- 4.5 Instructor Rating
- 2,580 Reviews
- 24,542 Students
- 25 Courses
English:
Hi, my name is Guilherme, I have a bachelor's degree in Biological Sciences, a master's degree in Experimental Biology, and a Ph.D. also in Experimental Biology, both from the Federal University of Rondônia (Brazil). My main research area is the search for compounds that are active against the parasites of malaria and leishmaniasis. I also have been programming for a while, especially in the programming languages Python and R. My main interests are biology, biotechnology, programming, medicinal chemistry, and artificial intelligence. My main goal here in Udemy is therefore spreading the knowledge related to these areas to people around the world.
Português:
Bacharel e licenciado em Ciências Biológicas pela Universidade Federal de Rondônia, mestre em Biologia Experimental pela Universidade Federal de Rondônia e doutor também em Biologia Experimental pela Universidade Federal de Rondônia. Desenvolveu seus trabalhos de iniciação científica e mestrado na busca de moléculas de plantas bioativas contra os parasitas da malária e leishmaniose, tendo trabalhado com fitoquímica e ensaios antiparasitários in vitro. No final do mestrado, começou a se interessar por bioinformática, química medicinal e programação, aplicando alguns programas de bioinformática e quimioinformática para auxiliar na descoberta de drogas antimaláricas. Possui experiência com as linguagens Python e R, e iniciou a programar em Javascript. Seu projeto de doutorado se constitui em avaliar um composto antimalárico já testado durante o mestrado de forma mais aprofundada contra o parasita da malária, realizando análises virtuais, como verificação de características físico-químicas e farmacocinéticas, docking molecular (interação virtual entre ligante e proteína-alvo do parasita) e ensaios em placas de cultura.
- 4.5 Instructor Rating
- 7,524 Reviews
- 107,114 Students
- 39 Courses
We are an on-line platform focused on courses on Artificial Intelligence, Machine Learning and Data Science. Our goal is to offer easy-to-understand theoretical and practical content, so that professionals from all areas can understand the benefits that AI can bring to their businesses. We are established in Brazil since 2018 and we have already published more than 90 courses in English and Portuguese on the Udemy platform.