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Biophysics 205: Computational and Functional Genomics

Spring 2020

Primer Readings

Introduction to Statistics and Probability:

Fay DS and Gerow K.
A biologist's guide to statistical thinking and analysis.
WormBook. 2013; 1-54.

Woolf P et al.
Statistics and probability primer for computational biologists.
MIT OpenCourseWare. 2004.

Krzywinski M & Altman N.
Significance, P values and t-tests.
Nature Methods. 2013.

Altman N & Krzywinski M.
Interpreting P values.
Nature Methods. 2017.

Krzywinski M & Altman N.
Nonparametric tests.
Nature Methods. 2014.

Krzywinski M & Altman N.
Error bars.
Nature Methods. 2013.

Noble WS.
How does multiple testing correction work?
Nature Biotechnology. 2009.

Krzywinski M & Altman N.
Comparing samples - Part II.
Nature Methods. 2014.

Hypergeometric Distribution Information:

MathWorld description of hypergeometric distribution.

Kiselev VY et al.
Challenges in unsupervised clustering of single-cell RNA-seq data.
Nat Rev Gen. 2019; 1.

Hidden Markov Model:

Eddy SR.
What is a hidden Markov model?
Nat Biotechnol. 2004; 22(10):1315-6.

Principal Component Analysis:

Ringner M.
What is principal component analysis?
Nat Biotechnol. 2008; 26(3):303-4.

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