for "Impact of regulatory variation across human iPSCs and differentiated cells"
This webpage provides
data for our paper on understanding cell type-specific effects of DNA variation and on characterizing the suitability of induced pluripotent stem cells (iPSCs) as models for studies of complex disease:
Banovich NE*, Li YI*, Raj A*, Ward MC, Greenside P, Calderon D, Tung PY, Burnett JE, Myrthil M, Thomas SM, Burrows CL, Romero IG, Pavlovic BJ, Kundaje A, Pritchard JK, Gilad Y. Impact of regulatory variation across human iPSCs and differentiated cells. bioRxiv, 2016.
The data generated by this study are available for
download from GEO under accession
Expression QTL (LCL) from our LCL study
Expression QTL (iPSCs) top fastQTL, all fastQTL
Expression QTL (iPSC-CM) CHT all
caQTL (LCLs) CHT all
caQTL (iPSC) CHT significant, CHT all
caQTL (iPSC-CM) CHT all
meQTL (LCL) from our LCL study
meQTL (iPSC) top fastQTL, all fastQTL
YRI genotypes used: genotypes of 120 YRI individuals
Source code for OrbWeaver, our Deep Learning method, is available here, and for RolyPoly, our polygenic method for identifying cell type most relevant to GWASs using gene expression specificity, is available here.
For questions please contact:
Nicholas E Banovich (firstname.lastname@example.org), Yang I Li (email@example.com), Anil Raj (firstname.lastname@example.org), Jonathan Pritchard (email@example.com), or Yoav Gilad (firstname.lastname@example.org).
Last updated 11/15/2017.