Monday, February 25, 2008

Identifying gene-gene interaction that is relevant to a disease outcome

In collaboration with Dr. Dimitris Anastassiou (EE, Columbia), we just published a paper on "Identification of gene interactions associated with disease from gene expression data using synergy networks" in BMC System Biology.

Tuesday, February 19, 2008

Tiling Arrays

Here are some references on this technology for my own use.

  1. Global Identification of Human Transcribed Sequences with Genome Tiling Arrays
    Science 24 December 2004:Vol. 306. no. 5705, pp. 2242 - 2246
    DOI: 10.1126/science.1103388
    Paul Bertone,1* Viktor Stolc,1,2* Thomas E. Royce,3 Joel S. Rozowsky,3 Alexander E. Urban,1 Xiaowei Zhu,1 John L. Rinn,3 Waraporn Tongprasit,4 Manoj Samanta,2 Sherman Weissman,5 Mark Gerstein,3 Michael Snyder1,3
  2. Array of hope
    Nature Genetics 21, 3 - 4 (1999)
    E. S. Lander
  3. Model-based analysis of tiling-arrays for ChIP-chip
    PNAS August 15, 2006 vol. 103 no. 33 12457-12462
    W. Evan Johnson*,,, Wei Li*,,, Clifford A. Meyer*,,, Raphael Gottardo, Jason S. Carroll¶, Myles Brown¶, and X. Shirley Liu*,,

Standard Deviation Function in R

I always thought there was no function for standard deviation in R. Since in Splus, it was stdev() if I remember correctly. I never help.seached it. I only found out that there was one: sd().