April - December 2015
4th April
- Richardson, J. S. & Richardson, D. C. The de novo design of protein structures. Trends Biochem. Sci. 14, 304–309 (1989). review
8th April
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a. Bhaya, D., Davison, M. & Barrangou, R. CRISPR-Cas Systems in Bacteria and Archaea: Versatile Small RNAs for Adaptive Defense and Regulation. Annu. Rev. Genet. 45, 273–297 (2011). review
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b. Horvath, P. & Barrangou, R. CRISPR/Cas, the immune system of bacteria and archaea. Science 327, 167–170 (2010).
12th April
- Hecht MH (1996) Strategies for the Design of Novel Proteins. pp. 1-50 in Protein Engineering and Design (P. R. Carey - ed.) Academic Press, New York.
13th April
- Harbury, P. B., Zhang, T., Kim, P. S. & Alber, T. A switch between two-, three-, and four-stranded coiled coils in GCN4 leucine zipper mutants. Science 262, 1401–1407 (1993).
14th April - 03rd May
- Hiatus - Exams, Travel
04th May
- B. F, N. KN, C, F P et al., Computational analysis of cell-to-cell heterogeneity in single-cell RNA-sequencing data reveals hidden subpopulations of cells. Nature Biotechnology 33, 155–160 (2015)
15th May
- Mueller, M., Grauschopf, U., Maier, T., Glockshuber, R. & Ban, N. The structure of a cytolytic alpha-helical toxin pore reveals its assembly mechanism. Nature 459, 726–730 (2009).
25th May
- Griffiths, G. Cell evolution and the problem of membrane topology. Nat. Rev. Mol. Cell Biol. 8, 1018–1024 (2007).
26th May
- Virnau, P., Mirny, L. A. & Kardar, M. Intricate knots in proteins: Function and evolution. PLoS Comput. Biol. 2, 1074–1079 (2006).
Hiatus
June - July
- Read a lot of papers in quick succession with the purpose of extracting some experimental information, design methodology, or simply a theoretical description.
The papers were mostly based on lipids and lipid membrane, pore-forming toxins.
06th August
- Taylor, W. R. Protein knots and fold complexity: Some new twists. Comput. Biol. Chem. 31, 151–162 (2007).
10th August
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Mansfield, M. L. Are there knots in proteins? Nat. Struct. Mol. Biol. 1, 213–214 (1994).
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Katritch, V. et al. Geometry and physics of knots. Nature 384, 142–145 (1996).
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Mansfield, M. L. Fit to be tied. Nat. Struct. Biol. 4, 166–167 (1997).
09th November
- Gibson, D. G. et al. Creation of a bacterial cell controlled by a chemically synthesized genome. Science 329, 52–56 (2010).
14th November
- Makrides, S. C. & Makrides, S. C. Strategies for Achieving High-Level Expression of Genes in Escherichia coli. Microbiol. Rev. 60, 512–538 (1996).review
18th November
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McCarthy, J. E. & Gualerzi, C. Translational control of prokaryotic gene expression. Trends Genet. 6, 78–85 (1990).
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Chapter 8, 9, 11 & 12; Gene Expression Systems: Using Nature for the Art of Expression Elsevier. ISBN: 978-0-12-253840-7 (1999)