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CGEpi Winter School - Course Materials


General Information


Winter School 2017 Schedule

List of Lectureres

List of Participants

Maps for session at different locations

How to get to the Hörsaal Trakt (Lecture Halls) /GH Klinikum Nord


Literature


Introduction to cancer genomics

Allan Balmain: Cancer genetics: from Boveri and Mendel to microarrays, Nature Reviews Cancer, 2001;[to be discussed during the class]

Douglas Hanahan and Robert A. Weinberg: Hallmarks of Cancer: The Next Generation, Cell, 2011[to be discussed during the class]

Intra- and inter-tumor heterogenity

Gerlinger M et al: Intratumor heterogeneity and branched evolution revealed by multiregion sequencing. N Engl J Med 366(10):883-892 (2012); [to be discussed during the class]

Hosseini H at al: Early dissemination seeds metastasis in breast cancer. Nature 540(7634):552-558 (2016); [to be discussed during the class]

The Cancer Genome Atlas Network: Comprehensive molecular characterization of human colon and rectal cancer Nature 487(7407): 330–337 (2012); [to be discussed during the class]

Principles for the ethical analysis of clinical translational research

Gelfond JA et al.: Principles for the ethical analysis of clinical and translational research. Stat Med  30(23):2785-92 (2011);[to be discussed during the class]

Dewey FE et al: Distribution and clinical impact of functional variants in 50,725 whole-exome sequences from the DiscovEHR Study. Science 354(6319):aaf6814-1-10 (2016);[to be discussed during the class]

Abul-Husn NS et al: Genetic identification of familial hypercholesterolemia within a single U.S. health care system. Science 354 (6319):aaf7000-1 – 7 (2016);[to be discussed during the class]

Gerstung M et al.: Precision oncology for acute myeloid leukemia using a knowledge bank approach. Nat Genet. doi: 10.1038/ng.3756 (2017); [to be discussed during the class]

Personalized Medicine and Study Design

Buyse M. et al.: Integrating biomarkers in clinical trails. Expert Rev. Mol. Diagn.11(2):171-82 (2011);[to be discussed during the class]

Health economics and ethics

Schremser K. et al.: Cost-Effectiveness of an Individualized First-Line Treatment Strategy Offering Erlotinib Based on EGFR Mutation Testing in Advanced Lung Adenocarcinoma Patients in Germany. Pharmacoeconomics 33(11):1215-28 (2015); [to be discussed during the class]


Further readings

Hood L.: Systems Biology and P4 Medicine: Past, Present, and Future. RMMJ 4(2):e0012. doi: 10.5041/RMMJ.10112 (2013);  

Khoury MJ et al.: A Population Perspective on How Personalized Medicine Can Improve Health. Am J Prev Med 42(6):639-45 (2012);

 

Wu CC et al.: TARGETgene: a tool for identification of potential therapeutic targets in cancer
PLoS One 7(8):e43305 (2012);

Vazquez M et al.: Cancer Genome Analysis. PLoS Comput Biol 8(12):e1002824 (2012);

Guinney J et al.: The consensus molecular subtypes of colorectal cancer. Nat Med 21(11):1350-6 (2015);


Silberzahn R, Uhlmann EL: Crowdsourced research: Many hands make tight work. Nature 526(7572):189-91 (2015);

Ioannidis JPA: Why Most Publiches Research Findings Are False. PlosMed 2(8):0696-0701 (2005);

Aalen Odd O: Causality and Mechanisms Between Statistics and Philosophy;

Dupuy A and Simon RM: Critical Review of Published Microarray Studies for Cancer Outcome and Guidelines on Statistical Analysis and Reporting. J Natl Cancer Inst 99(2):147-57 (2007);

 

Buyse M et al.: Biomarkers and surrogate end points--the challenge of statistical validation. Nat Rev Clin Oncol. 7(6):309-17 (2010);

Sargent DJ et al.: Clinical Trial Designs for Predictive Marker Validation in Cancer Treatment Trials. J Clin Oncol 23(9):2020-7 (2005); 

de Bono JS and Ashworth A: Translating cancer research into targeted therapeutics. Nature 467(7315):543-9. doi: 10.1038/nature09339 (2010);

Breiman L: Statistical Modeling: The Two Cultutres. Statistical Science 16(3) 199-231 (2001); 

Handouts


Monday, Feb. 6 morning session

Introduction to Winter School

Tuesday, Feb. 7

Metabolomics

Thursday, Feb. 9

Intra-and inter-tumor heterogenity

Friday, Feb.10, morning session

Personalized Medicine and Study Designs

Friday, Feb. 10, afternoon session

Health economics of Personalized Medicine

Monday, Feb. 13, morning session

Next-Generation-Sequencing

Tuesday, Feb. 14, morning session

Personalized Medicine in Cardiology - Rhythmology as Example

Tuesday, Feb.14, afternoon session: Self-Study - Directed to consumer genetic testing

Donna Dickenson: Me -  medicine versus We -  medicine: 'A reality check for personalized medicine'

Wednesday, Feb. 15, morning session

Statistics for high dimensional data - part 1

Statistics for high dimensional data - part 2

Statistics for high dimensional data - part 3

Wednesday, Feb. 15, afternoon session

Pharmacogenomics - part 1

Pharmacogenomics - part 2

Thursday, Feb. 16, afternoon session

Science Principles for Biology - Causality & Complexity

Friday, Feb. 17 - students' presentations

Summary Day 2 (Feb 7)

Summary Day 3 (Feb 8)

Summary Day 5 (Feb 10)

Summary Day 6 (Feb 13)

Summary Day 7 (Feb 14)