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Applied Bioinformatics

Pavel Pevzner, Niema Moshiri, Михаил Райко, Vikram Sirupurapu, Sabeel Mansuri, Mikhail Rayko, and Peter Karp

This Specialization is intended for anyone to learn practical applied Bioinformatics skills by studying real data from the COVID-19 pandemic. Whether you're new to the world of computational biology, or you're a bioinformatics expert seeking to learn about its applications in the COVID-19 pandemic, or somewhere in between, this course is for you! As you go through this journey, we will introduce and explain genomic concepts and give you many opportunities to practice your skills, and we will provide a series of problems with gradually increasing complexity.

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What's inside

Five courses

Hacking COVID-19 — Course 1: Identifying a Deadly Pathogen

In this course, you will learn about the bioinformatics techniques used to investigate the COVID-19 outbreak. We will introduce and explain genomic concepts and give you many opportunities to practice your skills. This first course will only discuss the assembly of the SARS-CoV-2 genome, but future courses in this series will explore follow-up bioinformatics analyses used in the COVID-19 pandemic.

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Hacking COVID-19 — Course 2: Decoding SARS-CoV-2's Secrets

In this course, you will investigate the COVID-19 outbreak by annotating the SARS-CoV-2 genome and designing a COVID-19 diagnostic test. Whether you’re new to computational biology or an expert, this course is for you! We will introduce genomic concepts and provide opportunities to practice your skills, with problems of gradually increasing complexity.

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Hacking COVID-19 — Course 3: Unraveling COVID-19's Origins

In this course, you will investigate the origins of SARS-CoV-2 by following the steps of bioinformaticians. We will introduce genomic concepts, provide opportunities to practice skills, and present problems of increasing complexity. This course focuses on multiple sequence alignment and maximum-likelihood phylogenetic inference of SARS-CoV-2 genomes.

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Hacking COVID-19: Metabolic Pathway Analysis Yields SARS-CoV-2 Drug Targets

Pathway Bioinformatics derives insights from genomic data through molecular networks. This course applies these methodologies to identify SARS-CoV-2 drug targets. It covers motivations, metabolic pathways, pathway data representation, visualization, and inference from genome data. The course culminates in a metabolic analysis of human metabolism interacting with SARS-CoV-2 to predict drug targets.

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Hacking COVID-19 — Course 5: Tracing SARS-CoV-2's Evolution

In this course, you will investigate the COVID-19 outbreak by tracing the evolution of SARS-CoV-2. We will introduce and explain genomic concepts and provide opportunities to practice your skills. This fifth course will discuss the "Italy First" hypothesis of COVID-19 origins and cover bioinformatics methods for rooting and dating a phylogenetic tree inferred from SARS-CoV-2 genome sequences.

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Time

0 hours

Level

Introductory

Via

Coursera

Institution

University of California San Diego

Instructors

Pavel Pevzner

Niema Moshiri

Михаил Райко

Vikram Sirupurapu

Sabeel Mansuri

Mikhail Rayko

Peter Karp

Level

Introductory

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