the expression measures for each probe set was extracted and normalized using robust multi-array average protocols from raw CEL files. Association tests on genotype and expression were performed on log-transformed expression values by linear regression or t-test. For quantitative PCR on LMO1, TaqMan probes were purchased from Applied Biosystems with assay identity Hs00231133_m1. Relative expression of the target gene was determined by normalization to HPRT1 using a standard curve method with ten serial dilutions according to the manufacturer’s instructions. All quantitative PCR reactions were performed in triplicate with an ABI PrismTM 7900HT Sequence Detection System (Applied Biosystems). For the LMO1 knockdown experiments, the lentiviral particles for shRNA knockdown were purchased from Santa Cruz, including copGFP Control Lentiviral Particles (catalogue number sc-108084) and LMO1 shRNA(h) Lentiviral Particles (catalogue number sc-38025-v). Pooled clones of SK-N-BE2C cells with LMO1 overexpression were created through stable transfection of full-length LMO1 complementary DNA in pCDNA3.1 as previously described22.
