SONGS

Statistics on Next Generation Sequencing

Spring 2013

 

 

Week

Dates

Presenters

Readings

3

28Jan

Organization

4

4Feb

August Woerner

Joe Watkins

Subsampling Methods for Genomic Inference 2010

Peter J. Bickel, Nathan Boley, James Brown, Haiyan Huang, and Nancy Zhang

Annals of Applied Statistics 4 1660-1697

5

11Feb

Joe Watkins

6

18Feb

Joe Watkins

7

25Feb

Emily Sessa

Sara Ziebell

Michael Sohn

Gene Ontology Analysis for RNA-seq: Accounting for Selection Bias 2010


Matthew D Young, Matthew J Wakefield, Gordon K Smyth and Alicia Oshlack

Genome Biology 11 R14

8

4Mar

Emily Sessa

Sara Ziebell

Michael Sohn

9

11Mar

Spring Break

10

18Mar

An integrated encyclopedia of DNA elements in the human genome

The ENCODE Project Consortium

Nature 487 57-74

 

On the immortality of television sets: ÒfunctionÓ in the human genome according to the evolution-free gospel of ENCODE

Dan Graur, Yichen Zheng, Nicholas Price, Ricardo B. R. Azevedo, Rebecca A. Zufall, and Eran Elhaik

Genome Biology and Evolution Advance Access

11

25Mar

12

1Apr

13

8Apr

14

15Apr

15

22Apr

16

29Apr

17

 

 

 

 

 

 

 

 

 

Proposed Papers

 

Optimal Tests for Rare Variant Effects in Sequencing Association Studies 2012

Lee, S., Wu, M. C., and Lin, X.

Biostatistics 13 762-­775.

Rare-variant Association Testing for Sequencing Data with the Sequence Kernel Association Test 2011

Wu, M. C., Lee, S., Cai, T., Li, Y., Boehnke, M., and Lin, X.

American Journal of Human Genetics 89 82-­93

 

Comparing Statistical Methods for Constructing Large Scale Gene Networks 2012

Jeffrey D. Allen, Yang Xie, Min Chen, Luc Girard, Guanghua Xiao

PLos One e29348