Material available on Fronter
- lecture presentations
- articles
- exercises and their solutions
Books
- Philip Compeau & Pavel Pevzner (2015) Bioinformatics Algorithms: An Active Learning Approach, 2nd Edition, Vol. I. Active Learning Publishers. ISBN 978-0-9903746-1-9.
- Philip Compeau & Pavel Pevzner (2015) Bioinformatics Algorithms: An Active Learning Approach, 2nd Edition, Vol. II. Active Learning Publishers. ISBN 978-0-9903746-2-6.
This is a two-volume set of books. There is a website for the books with additional material and information.
Detailed list of sections of the books that are included:
Volume I
Chapter 1 (Intro)
Only the following sections are part of the syllabus:
- Big-O notation (page 52)
- Directionality of DNA strands (page 59)
Chapter 2 (Motif discovery)
The entire chapter is part of the syllabus, except:
- Epilogue (pages 104-106)
- Charging station (pages 107)
- Detour: Buffon’s needle (109-112)
Chapter 3 (Genome Assembly)
The entire chapter is part of the syllabus, except:
- Detours (some) (pages 172-179)
Chapter 4 (Brute force algorithms)
This chapter is not part of the syllabus.
Chapter 5 (Dynamic programming)
The entire chapter is part of the syllabus, except:
- Detours (some) (pages 282-284)
Chapter 6 (Combinatorial problems)
Only the following sections are part of the syllabus:
- Genomic dot-plots (page 325-328)
Volume II
Chapter 7 (Phylogeny)
The entire chapter is part of the syllabus, except:
- Detours (all) (pages 51-65)
Chapter 8 (Clustering)
The entire chapter is part of the syllabus, except:
- Detours (some) (pages 111, 113-117)
Chapter 9 (Mapping and searching)
The entire chapter is part of the syllabus, except:
- Detours (some) (pages 170-176)
Chapter 10 (Hidden Markov Models)
The first part of the chapter is part of the syllabus (pages 178-217)
Chapter 11 (Proteomics)
Only the following sections are part of the syllabus:
- Gene prediction (page 273-274)