CANB 610:Materials: Difference between revisions
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===Lecture Slides=== | ===Lecture Slides=== | ||
[[ | [[Frequent_mutations_of_genes_encoding_ubiquitin-mediated_proteolysis_pathway.pptx]] | ||
==Week 2: Tumor Sequencing, part 2== | ==Week 2: Tumor Sequencing, part 2== |
Revision as of 18:23, 12 January 2012
- IN PROGRESS**
Class Focus, Winter 2012
- Organization Meeting and Rules of Engagement
- Genomics and Cancer
- Genomic instability and Cancer
- Drug Discovery
Organizational Meeting: Introduction and Scheduling
Presentation Zen
- Slide Zen
- Delivery Zen
- Feel free to add links that help you
Evaluation Forms
- Evaluation Form MC
- Evaluation Form Presenter 1(Intro)
- Evaluation Form Presenter 2
- Dept. Evaluation Form
Week 1: Tumor Sequencing, part 1
Papers
- Guo G, Gui Y, Gao S, Tang A, Hu X, Huang Y, Jia W, Li Z, He M, Sun L, Song P, Sun X, Zhao X, Yang S, Liang C, Wan S, Zhou F, Chen C, Zhu J, Li X, Jian M, Zhou L, Ye R, Huang P, Chen J, Jiang T, Liu X, Wang Y, Zou J, Jiang Z, Wu R, Wu S, Fan F, Zhang Z, Liu L, Yang R, Liu X, Wu H, Yin W, Zhao X, Liu Y, Peng H, Jiang B, Feng Q, Li C, Xie J, Lu J, Kristiansen K, Li Y, Zhang X, Li S, Wang J, Yang H, Cai Z, and Wang J. Frequent mutations of genes encoding ubiquitin-mediated proteolysis pathway components in clear cell renal cell carcinoma. Nat Genet. 2011 Dec 4;44(1):17-9. DOI:10.1038/ng.1014 |
Bonus Materials
- Kidney cancer http://www.ncbi.nlm.nih.gov/pubmed/20368728
- Mutations in cancer http://www.ncbi.nlm.nih.gov/pubmed/17932254
- Hallmarks of cancer http://www.ncbi.nlm.nih.gov/pubmed/21376230
- Sequencing technologies http://www.ncbi.nlm.nih.gov/pubmed/20847746
and then a bit of a leap:
- Application to clinic http://www.ncbi.nlm.nih.gov/pubmed/22133722
Lecture Slides
Frequent_mutations_of_genes_encoding_ubiquitin-mediated_proteolysis_pathway.pptx
Week 2: Tumor Sequencing, part 2
Papers
Bonus Materials
- Previous work from Wigler on progression http://www.ncbi.nlm.nih.gov/pubmed/19903760
- Old work on heterogeneity http://www.ncbi.nlm.nih.gov/pubmed/9108466
- Evolution by serial sampling http://www.ncbi.nlm.nih.gov/pubmed/20393555
- Evolution in pancreatic cancer http://www.ncbi.nlm.nih.gov/pubmed/20981101
Lecture slides
Week 3: RNA sequencing
Papers
- Li M, Wang IX, Li Y, Bruzel A, Richards AL, Toung JM, and Cheung VG. Widespread RNA and DNA sequence differences in the human transcriptome. Science. 2011 Jul 1;333(6038):53-8. DOI:10.1126/science.1207018 |
- Maher CA, Kumar-Sinha C, Cao X, Kalyana-Sundaram S, Han B, Jing X, Sam L, Barrette T, Palanisamy N, and Chinnaiyan AM. Transcriptome sequencing to detect gene fusions in cancer. Nature. 2009 Mar 5;458(7234):97-101. DOI:10.1038/nature07638 |
Bonus Materials
Week 4: Functional Genomics
Papers
- Possemato R, Marks KM, Shaul YD, Pacold ME, Kim D, Birsoy K, Sethumadhavan S, Woo HK, Jang HG, Jha AK, Chen WW, Barrett FG, Stransky N, Tsun ZY, Cowley GS, Barretina J, Kalaany NY, Hsu PP, Ottina K, Chan AM, Yuan B, Garraway LA, Root DE, Mino-Kenudson M, Brachtel EF, Driggers EM, and Sabatini DM. Functional genomics reveal that the serine synthesis pathway is essential in breast cancer. Nature. 2011 Aug 18;476(7360):346-50. DOI:10.1038/nature10350 |
Bonus Materials
Lecture slides
Week 5: TBA
Papers
Bonus Materials
Lecture slides
Week 6: Chromothripsis
Papers
- Stephens PJ, Greenman CD, Fu B, Yang F, Bignell GR, Mudie LJ, Pleasance ED, Lau KW, Beare D, Stebbings LA, McLaren S, Lin ML, McBride DJ, Varela I, Nik-Zainal S, Leroy C, Jia M, Menzies A, Butler AP, Teague JW, Quail MA, Burton J, Swerdlow H, Carter NP, Morsberger LA, Iacobuzio-Donahue C, Follows GA, Green AR, Flanagan AM, Stratton MR, Futreal PA, and Campbell PJ. Massive genomic rearrangement acquired in a single catastrophic event during cancer development. Cell. 2011 Jan 7;144(1):27-40. DOI:10.1016/j.cell.2010.11.055 |
Bonus Materials
link to Cell podcast by the author
Lecture Slides
Week 7: Circadian
Papers
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Bonus Materials
Week 8: TBA
Papers
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Bonus Materials
Week 9: TBA
Papers
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Bonus Materials
Week 10: TBA
Papers
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Bonus Materials
Week 11: TBA
Papers
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