courses:bin:program [CourseWare Wiki]

Lecture	Date	Lecturer	Topics	Slides	References
1	16.2.	JK	Intro, sequencing algorithms, fragment assembly.	intro, assembly	Nagarajan13, Compeau11
2	23.2.	JK	Biological sequence alignment.	alignment	Durbin's book, ch 2,6
3	2.3.	JK	BLAST algorithm and its modifications.	multi align, BLAST	Altschul97
4	9.3.	JK	Motif discovery.	Motif discovery	Dhaeseleer06
5	16.3.	JK	Phylogenetic trees, hierarchical clustering.	phylogeny	Durbin's book, ch 7
6	23.3.	JK	Phylogenetic trees, parsimony and probabilistic methods.	see the previous lecture	Durbin's book, ch 8
7	30.3.	JK	Markov models, Markov chains.	Markov chains	Durbin's book, ch 3
-	6.4.	-	Easter Monday
8	13.4.	JK	Hidden Markov models, profile HMMs, gene finidng.	HMMs	Burge97, HMM_algs
9	20.4.	JK	Gene expression profiling.	DGE	Love14
10	27.4.	JK	Gene ontology, gene/protein function prediction.	Gene ontology	GOingStrong19, GOLabeler, GSEA
11	4.5.	JK	RNA secondary structure prediction.	RNA secondary	Eddy04, Vicens22, Durbin's book, ch 9,10
12	11.5.	JK	Modeling of higher protein structures, protein databases.	Protein folding	AlphaFold2, Dill12, Rost98, Lathorp96, Threading
13	18.5.	JK	Protein engineering.	Protein engineering	Yang19, Jiang25