Readings Read before Wednesday, 2 March:
DNA Book: Chapter 28: Bacterial Virus Warfare and Chapter 29: Genetic Manipulation, CRISPR & beyond Read by the end of spring break:
Prarthana Mohanraju, Kira S. Makarova, Bernd Zetsche, Feng Zhang, Eugene V. Koonin, John van der Oost. Diverse evolutionary roots and mechanistic variations of the CRISPR-Cas systems. Science, August 2016. Slides The slides from the 28 February class are here: class12.
Schedule and Readings Thursday, 24 Feb:
Project 2 New readings for next week will be posted by Friday.
Slides The slides from the 21 February class are here: class11.pdf
Links Wladyslaw Altermann, Józef Kazmierczak. Archean microfossils: a reappraisal of early life on Earth (Describes fossils of life from over 3.4 Billion years ago.)
Anja Spang, Courtney W. Stairs, Nina Dombrowski, Laura Eme, Jonathan Lombard, Eva F.
Schedule and Readings Thursday, 24 Feb:
Project 2 Slides The slides from the 21 February class are here: class10.pdf
Links Charles Darwin. The Variation of Animals and Plants Under Domestication. 1868. (Darwin’s strange (to us today) theory on pangenesis is Chapter XXVII, starting on page 357.)
Gregor Mendel. Versuche uber Pflanzen-Hybriden. Proceedings of Natural History Society, 1866 English Translation
R. A. Fisher. Has Mendel’s Work Been Rediscovered?
Schedule and Readings See Class 8.
Slides The slides from the 16 February class are here: class9.pdf
Links J. Marmurt and P. Doty. Determination of the Base Composition of Deoxyribonucleic Acid from its Thermal Denaturation Temperature. Journal of Molecular Biology, 1962.
How to Grade (this is a write-up of my grading system, although the symbols are slightly different from what we are using in this class). Since we are using “virtual” goal stars, you don’t need to be worried about any alarming gold star shortages.
Schedule and Readings (These are duplicated from Class 7.)
Before Wednesday, 9 February:
Read Chapter 19 – 26 of Hubert’s The DNA Book. (Chapter 26 on Mutations and Changes is the one most relevant to today’s class.) Read Chapter 5 of the Bioinformatics Algorithms: How do we compare biological sequences?. Before Monday, 14 Feb:
Chapter 26 of Manolis Kellis et al., Computational Biology - Genomes, Networks, and Evolution: Molecular Evolution and Phylogenetics (also available as [PDF]) (if you prefer to watch a video lecture that this chapter is based on, you can watch MIT CompBio Lecture 19 - Phylogenetics).
Schedule and Readings Before Wednesday, 9 February:
Read Chapter 19 – 26 of Hubert’s The DNA Book. (Chapter 26 on Mutations and Changes is the one most relevant to today’s class.) Read Chapter 5 of the Bioinformatics Algorithms: How do we compare biological sequences?. Before Monday, 14 Feb:
Chapter 26 of Manolis Kellis et al., Computational Biology - Genomes, Networks, and Evolution: Molecular Evolution and Phylogenetics (also available as [PDF]) (if you prefer to watch a video lecture that this chapter is based on, you can watch MIT CompBio Lecture 19 - Phylogenetics).
Schedule and Readings Due Tuesday, 8 February (4:59pm): Project 1
Before Wednesday, 9 February:
Read Chapter 19 – 26 of Hubert’s The DNA Book. (Chapter 26 on Mutations and Changes is the one most relevant to today’s class.) Read Chapter 5 of the Bioinformatics Algorithms: How do we compare biological sequences?. Before Monday, 14 Feb:
Chapter 26 of Manolis Kellis et al., Computational Biology - Genomes, Networks, and Evolution: Molecular Evolution and Phylogenetics (also available as [PDF]) (if you prefer to watch a video lecture that this chapter is based on, you can watch MIT CompBio Lecture 19 - Phylogenetics).
Schedule and Readings Due Tuesday, 8 February (4:59pm): Project 1
Before Wednesday, 9 February:
Read Chapter 19 – 26 of Hubert’s The DNA Book. (Chapter 26 on Mutations and Changes is the one most relevant to today’s class.) Read Chapter 5 of the Bioinformatics Algorithms: How do we compare biological sequences?. Slides The slides from 2 February class are here: class5.pdf
Some links to materials for the class:
Schedule and Readings Due Tuesday, 8 February (4:59pm): Project 1
Before Wednesday, 9 February:
Read Chapter 19 – 26 of Hubert’s The DNA Book. (Chapter 19 is a bit different, but may be useful to give you ideas for the kinds of things you could do for the Final Project.) Read Chapter 5 of the Bioinformatics Algorithms: How do we compare biological sequences?. Slides The slides from 31 January class are here: class4.
Schedule and Readings Before Monday, 31 January:
Read Chapter 11 – 18 of Hubert’s The DNA Book. Finish reading Chapter 3 (including 3.9) of the Bioinformatics Algorithms: How do we assemble genomes?. Due Tuesday, 8 February (4:59pm): Project 1
Slides The slides from 26 January class are here: class3.pdf
Some links to materials for the class:
BRCA1 Patent: 17Q-linked breast and ovarian cancer susceptibility gene [PDF]