We mapped all protein data back to coding gene and assigned ChIP-seq peaks to the nearest gene, and used the ENTREZ gene ID as the common unified index for each gene (using Bioconductor annotation package org.Mm.eg.db (v3.1.2)).
The cut-off rule for assigning CHIP eligible children to premium groups varies across states.
The fixed interval method is often performed using the 'chip and bin' or 'roulette' method, which involves asking the expert to assign chips to various bins (into which the variable has been divided up) to build up their distribution of beliefs.
In IFDMA, compression and repetition are applied on the data and different users are assigned different chip sequences.
Samples were assigned to chips such that, as far as possible, group (ALH, ULH or MI) and gender were counter-balanced across chips.
An experimental QC sample (a serum pool prepared from 20 RCC and 20 normal serum samples) was also included on each chip, assigned to spot A for the first chip, spot B for the second and so on to ensure representative coverage of each spot.
If the probability is 1, we fully trust the label probabilities assigned using the ChIP ratio.
Bisulfite-converted DNA (4 μl per sample) were randomly assigned to a chip well of the Infinium HumanMethylation450 BeadChip, amplified, hybridized onto the array, and imaged with the Illumina iScan SQ instrument to obtain raw image intensities.
An ID was assigned for each ChIP-Seq experiment.
Uninsurance status is assigned if a CHIP-eligible child is not recorded to have public or private insurance coverage.
