𝕙ttps://docs.google.com/presentation/d/1fXQYo1sXa_FkiisLrd5CjusMkL_42XTG/edit?usp=sharing&ouid=100565019341850449624&rtpof=true&sd=true […] See slides Read more →

𝕙ttps://docs.google.com/presentation/d/11oe2nZIFqs9TOXT_QDqdpsFhZYJeVVLm/edit?usp=sharing&ouid=100565019341850449624&rtpof=true&sd=true […] See slides Read more →

𝔸ssignment […] See below for additional information on the assignment. Links […] Lecture 5 https://docs.google.com/presentation/d/1VYfx0coU5HKQLXwbo5yr7XvgJeqt8Hdf/edit#slide=id.p1 […] Lecture 6 … Read more →

\[Y = \beta \cdot X + \epsilon\] GWAS summary statistics will contain an estimate of the regression coefficient \(\hat\beta\) and its standard error \(\text{se}(\hat\beta)\) for each SNP in the GWAS. We distinguish the true \(\beta\) from the estimated value \(\hat\beta\) using a hat. […] \[ … Read more →

𝕋his Lab will cover the quality batch portion of the QC and will be using the 1_Main_scripts_QC_GWAS.txt from Marees et al A tutorial on conducting genome‐wide association studies: Quality control and statistical analysis. […] We will follow the tutorial published here by Marees et al A … Read more →

𝕙ttps://docs.google.com/presentation/d/1I0-4u_6PAG5Q9LNi3mfQNnvZsVgf16tO/edit?usp=sharing&ouid=100565019341850449624&rtpof=true&sd=true Read more →

𝕙ttps://docs.google.com/presentation/d/1VYfx0coU5HKQLXwbo5yr7XvgJeqt8Hdf/edit?usp=sharing&ouid=100565019341850449624&rtpof=true&sd=true Read more →

𝔽ind the slides here […] See the vignette here […] Storey, John D., and Robert Tibshirani. 2003. “Statistical Significance for Genomewide Studies.” Proceedings of the National Academy of Sciences 100 (16): 9440–45. Read more →

𝕩kcd image for significance […] We start defining some parameters for the simulations. The need for these will become obvious later. ## set seed to make simulations reproducible ## set.seed(20210108) ## let's start with some parameter definitions nsamp = 100 beta = 2 h2 = 0.1 sig2X = h2 … Read more →

𝔻ownload powerpoint from here https://uchicago.box.com/s/hwktymdc2nxlcpqik7alk9m6tsypd3c4 […] Sud, A., Kinnersley, B. & Houlston, R. Genome-wide association studies of cancer: current insights and future perspectives. Nat Rev Cancer 17, 692–704 (2017). https://doi.org/10.1038/nrc.2017.82 … Read more →