An introduction to the statistics behind the most popular genomic data science projects. This is the sixth course in the Genomic Big Data Science Specialization from Johns Hopkins University.
This course is part of the Genomic Data Science Specialization
Statistics for Genomic Data Science
Offered By
About this Course
4.1
144 ratings
Skills you will gain
StatisticsData AnalysisR ProgrammingBiostatistics
Syllabus - What you will learn from this course
Week
1Module 1
This course is structured to hit the key conceptual ideas of normalization, exploratory analysis, linear modeling, testing, and multiple testing that arise over and over in genomic studies.
21 videos (Total 129 min), 3 readings, 1 quiz
21 videos
What is Statistics?2m
Finding Statistics You Can Trust (4:44)4m
Getting Help (3:44)3m
What is Data? (4:28)4m
Representing Data (5:23)5m
Module 1 Overview (1:07)1m
Reproducible Research (3:42)3m
Achieving Reproducible Research (5:02)5m
R Markdown (6:26)6m
The Three Tables in Genomics (2:10)2m
The Three Tables in Genomics (in R) (3:46)3m
Experimental Design: Variability, Replication, and Power (14:17)14m
Experimental Design: Confounding and Randomization (9:26)9m
Exploratory Analysis (9:21)9m
Exploratory Analysis in R Part I (7:22)7m
Exploratory Analysis in R Part II (10:07)10m
Exploratory Analysis in R Part III (7:26)7m
Data Transforms (7:31)7m
Clustering (8:43)8m
Clustering in R (9:09)9m
3 readings
Syllabus10m
Pre Course Survey10m
Introduction and Materials10m
1 practice exercise
Module 1 Quiz20m
Week
2Module 2
This week we will cover preprocessing, linear modeling, and batch effects.
14 videos (Total 97 min), 1 quiz
14 videos
Dimension Reduction (12:13)12m
Dimension Reduction (in R) (8:48)8m
Pre-processing and Normalization (11:26)11m
Quantile Normalization (in R) (4:49)4m
The Linear Model (6:50)6m
Linear Models with Categorical Covariates (4:08)4m
Adjusting for Covariates (4:16)4m
Linear Regression in R (13:03)13m
Many Regressions at Once (3:50)3m
Many Regressions in R (7:21)7m
Batch Effects and Confounders (7:11)7m
Batch Effects in R: Part A (8:18)8m
Batch Effects in R: Part B (3:50)3m
1 practice exercise
Module 2 Quiz20m
Week
3Module 3
This week we will cover modeling non-continuous outcomes (like binary or count data), hypothesis testing, and multiple hypothesis testing.
15 videos (Total 86 min), 1 quiz
15 videos
Logistic Regression (7:03)7m
Regression for Counts (5:02)5m
GLMs in R (9:28)9m
Inference (4:18)4m
Null and Alternative Hypotheses (4:45)4m
Calculating Statistics (5:11)5m
Comparing Models (7:08)7m
Calculating Statistics in R9m
Permutation (3:26)3m
Permutation in R (3:33)3m
P-values (6:04)6m
Multiple Testing (8:25)8m
P-values and Multiple Testing in R: Part A (5:58)5m
P-values and Multiple Testing in R: Part B (4:23)4m
1 practice exercise
Module 3 Quiz20m
Week
4Module 4
In this week we will cover a lot of the general pipelines people use to analyze specific data types like RNA-seq, GWAS, ChIP-Seq, and DNA Methylation studies.
14 videos (Total 74 min), 1 reading, 1 quiz
14 videos
Gene Set Enrichment (4:19)4m
More Enrichment (3:59)3m
Gene Set Analysis in R (7:43)7m
The Process for RNA-seq (3:59)3m
The Process for Chip-Seq (5:25)5m
The Process for DNA Methylation (5:03)5m
The Process for GWAS/WGS (6:12)6m
Combining Data Types (eQTL) (6:04)6m
eQTL in R (10:36)10m
Researcher Degrees of Freedom (5:49)5m
Inference vs. Prediction (8:52)8m
Knowing When to Get Help (2:31)2m
Statistics for Genomic Data Science Wrap-Up (1:53)1m
1 reading
Post Course Survey10m
1 practice exercise
Module 4 Quiz10m
4.1
26 Reviews25%
started a new career after completing these courses
33%
got a tangible career benefit from this course
25%
got a pay increase or promotion
Top Reviews
By ZM•Jun 28th 2018
The professor is really enthusiasm, so I was really impreesed by him. And his teaching is brief, and I can learn key points through the lectures. Great course!
By LR•May 23rd 2016
I have really enjoyed the course and I have learnt different concepts relevant for my current study.\n\nYurany
Instructor
Jeff Leek, PhD
Associate Professor, BiostatisticsBloomberg School of Public Health
About Johns Hopkins University
The mission of The Johns Hopkins University is to educate its students and cultivate their capacity for life-long learning, to foster independent and original research, and to bring the benefits of discovery to the world.
About the Genomic Data Science Specialization
This specialization covers the concepts and tools to understand, analyze, and interpret data from next generation sequencing experiments. It teaches the most common tools used in genomic data science including how to use the command line, Python, R, Bioconductor, and Galaxy. The sequence is a stand alone introduction to genomic data science or a perfect compliment to a primary degree or postdoc in biology, molecular biology, or genetics.
To audit Genomic Data Science courses for free, visit https://www.coursera.org/jhu, click the course, click Enroll, and select Audit.
Frequently Asked Questions
When will I have access to the lectures and assignments?
Once you enroll for a Certificate, you’ll have access to all videos, quizzes, and programming assignments (if applicable). Peer review assignments can only be submitted and reviewed once your session has begun. If you choose to explore the course without purchasing, you may not be able to access certain assignments.
What will I get if I subscribe to this Specialization?
When you enroll in the course, you get access to all of the courses in the Specialization, and you earn a certificate when you complete the work. Your electronic Certificate will be added to your Accomplishments page - from there, you can print your Certificate or add it to your LinkedIn profile. If you only want to read and view the course content, you can audit the course for free.
What is the refund policy?
Is financial aid available?
More questions? Visit the Learner Help Center.
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