MIT OpenCourseWare

Browse materialsMIT 6.047 · Fall 2015

Computational Biology

Subject: Biology

Art: not stated, Fletcher's Combined Block Telegraph Apparatus and Bell, 1889 · Public domain

Instructor: Prof. Manolis Kellis
Term: Fall 2015
Level: Undergraduate
What's inside: 9 problem sets · 16 other files · 6 web pages
Materials open: MIT OCW

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About this course

Source: MIT OpenCourseWare 6.047 Computational Biology, Fall 2015, Prof. Manolis Kellis — original course page on ocw.mit.edu ↗. License: CC BY-NC-SA 4.0. Study order: MIT's own listing order, section by section. Taken from MIT's published course files, downloaded from ocw.mit.edu on September 23, 2026. How RedLectern is built.

Materials are grouped the way MIT organized them. A verified, course-wide order has not been established here.

Before you start

Prerequisites are not listed here. Check MIT's own syllabus for this course.

This course’s cited books, in our reading lists: An Introduction to Bioinformatics Algorithms

How this course was organized

What's here, and what isn't

MIT's own materials here did not support a verified, course-wide order, so they are grouped by section instead.

Not included here

8 items from the source could not be safely included:

MIT's page format for this item wasn't recognized clearly enough to place it safely. (7 items)
Referenced in a table, but without MIT's own verified order, so it isn't used to claim a sequence.

Materials by section

Grouped by section, as MIT organized them. Not sequenced or ordered.

Open Textbook

Lecture Slides

12 files

Assignments

10 files

MIT OpenCourseWare, Prof. Manolis Kellis, 6.047 Computational Biology, Fall 2015.

License: CC BY-NC-SA 4.0 · Edition: Fall 2015 · Open the original course on OCW ↗

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Computational Biology

Before you start

What's here, and what isn't

Not included here

Materials by section

Open Textbook

Lecture Slides

Assignments

Lecture 1: Introduction: Course overview, biology, algorithms, machine learning (PDF - 7.9MB)

Lecture 2: Alignment I: Dynamic programming, global and local alignment (PDF - 1.7MB)

Lecture 3: Alignment II: Database search, rapid string matching, BLAST, BLOSUM (PDF - 1.8MB)

Lecture 4: Hidden Markov Models Part 1: Evaluation/parsing, Viterbi, forward algorithms (PDF)

Lecture 5: Hidden Markov Models Part 2: Posterior decoding, learning, Baum-Welch (PDF - 1.3MB)

Lecture 6: Transcript Structure: GENSCAN, RNA-seq, mapping, de novo assembly, diff expr (Lecture slides are not available for this lecture.)

Lecture 7: Expression Analysis: Clustering/classification, k-means, hierarchical, Bayesian (PDF - 1.6MB)

Lecture 8: Networks I: Bayesian inference, deep learning, network dynamics (Lecture slides are not available for this lecture.)

Lecture 9: Networks II: Network learning, structure, spectral methods (PDF - 2.2MB)

Lecture 10: Regulatory Motifs: Discovery, representation, PBMs, Gibbs sampling, EM (PDF - 3.2MB)

Lecture 11: Epigenomics: ChIP-seq, read mapping, peak calling, IDR, chromatin states (PDF - 9.8MB)

Lecture 12: RNA Modifications: RNA editing, translation regulation, splicing regulation (Lecture slides are not available for this lecture.)

Lecture 13: Resolving human ancestry and human history from genetic data (Lecture slides are not available for this lecture.)

Lecture 14: Disease association mapping, GWAS, organismal phenotypes (Lecture slides are not available for this lecture.)

Lecture 15: Quantitative trait mapping, molecular traits, eQTLs (Lecture slides are not available for this lecture.)

Lecture 16: Missing heritability, complex traits, interpret GWAS, rank-based enrichment (Lecture slides are not available for this lecture.)

Lecture 17: Comparative genomics and evolutionary signatures (PDF - 5.1MB)

Lecture 18: Phylogenetics: Molecular evolution, tree building, phylogenetic inference (PDF - 2.1MB)

Lecture 19: Phylogenomics: Gene/species trees, reconciliation, recombination graphs (Lecture slides are not available for this lecture.)

Lecture 20: Personal genomics, disease epigenomics: Systems approaches to disease (PDF - 8.7MB)

Lecture 21: Three-dimensional chromatin interactions: 3C, 5C, HiC, ChIA-Pet (Lecture slides are not available for this lecture.)

Lecture 22: Genome engineering with CRISPR/Cas9 and related technologies (Lecture slides are not available for this lecture.)