Difference between revisions of "Additional curriculum"
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Jonkl@uio.no (talk | contribs) (Changed article list to 2014. Rm Jonas article) |
Jonkl@uio.no (talk | contribs) (Update Ensembl from 2013 to 2014) |
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*NCBI Resource Coordinators, "Database resources of the National Center for Biotechnology Information", [http://dx.doi.org/10.1093/nar/gks1189 Nucleic Acids Res. <b>41</b>, D8 (2013)] | *NCBI Resource Coordinators, "Database resources of the National Center for Biotechnology Information", [http://dx.doi.org/10.1093/nar/gks1189 Nucleic Acids Res. <b>41</b>, D8 (2013)] | ||
*The UniProt Consortium, "Update on activities at the Universal Protein Resource (UniProt) in 2013", [http://dx.doi.org/10.1093/nar/gks1068 Nucleic Acids Res. <b>41</b>, D43 (2013)] | *The UniProt Consortium, "Update on activities at the Universal Protein Resource (UniProt) in 2013", [http://dx.doi.org/10.1093/nar/gks1068 Nucleic Acids Res. <b>41</b>, D43 (2013)] | ||
| − | *P. Flicek ''et al.'', "Ensembl | + | *P. Flicek ''et al.'', "Ensembl 2014", [http://dx.doi.org/10.1093/nar/gkt1196 Nucleic Acids Res. <b>42</b>, D749 (2014)] |
*P.W. Rose ''et al.'', "The RCSB Protein Data Bank: new resources for research and education", [http://dx.doi.org/10.1093/nar/gks1200 Nucleic Acids Res. <b>41</b>, D475 (2013)] | *P.W. Rose ''et al.'', "The RCSB Protein Data Bank: new resources for research and education", [http://dx.doi.org/10.1093/nar/gks1200 Nucleic Acids Res. <b>41</b>, D475 (2013)] | ||
*P.J.A. Cock ''et al.'', "Biopython: freely available Python tools for computational molecular biology and bioinformatics", [http://dx.doi.org/10.1093/bioinformatics/btp163 Bioinformatics <b>25</b>, 1422 (2009)] | *P.J.A. Cock ''et al.'', "Biopython: freely available Python tools for computational molecular biology and bioinformatics", [http://dx.doi.org/10.1093/bioinformatics/btp163 Bioinformatics <b>25</b>, 1422 (2009)] | ||
Revision as of 11:44, 8 November 2014
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THERE WILL POSSIBLY STILL BE SMALL ADJUSTMENTS TO THE LIST...
Required reading material for the course
The following articles/reviews/written material is part of the curriculum for MBV-INF4410, MBV-INF9410, and MBV-INF9410A:
- R.F. Service, "Biology's dry future", Science 342, 186 (2013)
- EMBnet, A Quick Guide to UNIX
- NCBI Resource Coordinators, "Database resources of the National Center for Biotechnology Information", Nucleic Acids Res. 41, D8 (2013)
- The UniProt Consortium, "Update on activities at the Universal Protein Resource (UniProt) in 2013", Nucleic Acids Res. 41, D43 (2013)
- P. Flicek et al., "Ensembl 2014", Nucleic Acids Res. 42, D749 (2014)
- P.W. Rose et al., "The RCSB Protein Data Bank: new resources for research and education", Nucleic Acids Res. 41, D475 (2013)
- P.J.A. Cock et al., "Biopython: freely available Python tools for computational molecular biology and bioinformatics", Bioinformatics 25, 1422 (2009)
- A.M. Waterhouse et al., "Jalview Version 2--a multiple sequence alignment editor and analysis workbench", Bioinformatics 25, 1189 (2009)
- G.M. Boratyn et al., "BLAST: a more efficient report with usability improvements", Nucleic Acids Res. 41, W29 (2013)
- J.-F. Taly et al., "Using the T-Coffee package to build multiple sequence alignments of protein, RNA, DNA sequences and 3D structures", Nat. Protoc. 6, 1669 (2011)
- L. Bordoli et al., "Protein structure homology modeling using SWISS-MODEL workspace", Nat. Protoc. 4, 1 (2009)
- J. Carlsson et al., "Ligand discovery from a dopamine D3 receptor homology model and crystal structure", Nat. Chem. Biol. 7, 769 (2011)
- R.M. Kuhn et al., "The UCSC genome browser and associated tools", Brief. Bioinform. 14, 144 (2013)
- J. Goecks et al., "Galaxy: a comprehensive approach for supporting accessible, reproducible, and transparent computational research in the life sciences", Genome Biol. 11, R86 (2010)
- G.K. Sandve et al., "Ten Simple Rules for reproducible computational Research", PLoS Comput. Biol. 9, e1003285 (2013)
- G.K. Sandve et al., "The Genomic HyperBrowser: an analysis web server for genome-scale data", Nucleic Acids Res. 41, W133 (2013)
- M.L. Mertzker, "Sequencing technologies - the next generation", Nat. Rev. Genet. 11, 31 (2010)
- A. Altmann et al., "A beginners guide to SNP calling from high-throughput DNA-sequencing data", Hum. Genet. 131, 1541 (2012)
- N. Nagarajan & M. Pop, "Sequence assembly demystified", Nat. Rev. Genet. 14, 157 (2013)
- D.W. Huang et al., "Systematic and integrative analysis of large gene lists using DAVID bioinformatics resources", Nat. Protoc. 4, 44 (2009)
Articles may still be added to the list...
Other good articles (not curriculum)
- Z. Yang & B. Rannala, "Molecular phylogenetics: principles and practice", Nat. Rev. Genet. 13, 303 (2012)
