A single-sample microarray normalization method to facilitate personalized-medicine workflows

cDNA Microarray Data Normalization

A personalized microRNA microarray normalization method using a logistic regression model

MOTIVATION MicroRNA (miRNA) is a set of newly discovered non-coding small RNA molecules. Its significant effects have contributed to a number of critical biological events including cell proliferation, apoptosis development, as well as tumorigenesis. High-dimensional genomic discovery platforms (e.g. microarray) have been employed to evaluate the important roles of miRNAs by analyzing their exp...

Normalization for cDNA microarray data: a robust composite method addressing single and multiple slide systematic variation.

There are many sources of systematic variation in cDNA microarray experiments which affect the measured gene expression levels (e.g. differences in labeling efficiency between the two fluorescent dyes). The term normalization refers to the process of removing such variation. A constant adjustment is often used to force the distribution of the intensity log ratios to have a median of zero for ea...

Quantifying ChIP-seq data: a spiking method providing an internal reference for sample-to-sample normalization.

Chromatin immunoprecipitation followed by deep sequencing (ChIP-seq) experiments are widely used to determine, within entire genomes, the occupancy sites of any protein of interest, including, for example, transcription factors, RNA polymerases, or histones with or without various modifications. In addition to allowing the determination of occupancy sites within one cell type and under one cond...

personalized medicine: a tailor made medicine

in the past, disease diagnosis was based on symptoms that might be indicative of several diseases. nowadays, diagnosis of some diseases has become more accurate because we are able to test for genes known to be associated with the disease. this method not only clearly identifies the presence of a particular disease; it can also precisely determine the subtype of the disease. throughout history,...