Omics data contain signals from the molecular, physical, and kinetic inter- and intracellular
interactions that control biological systems. Matrix factorization (MF) techniques can reveal …

Polygenic diseases are caused by the joint contribution of a number of independently acting
or interacting polymorphic genes; the individual contribution of each gene may be small or …

Multiple sclerosis (MS) is a common complex neurodegenerative disease of the central
nervous system. It develops with autoimmune inflammation and demyelination. Genome-wide …

The prediction of regulatory elements is a problem where computational methods offer great
hope. Over the past few years, numerous tools have become available for this task. The …

It remains unclear whether causal, rather than merely correlational, relationships in molecular
networks can be inferred in complex biological settings. Here we describe the HPN-…

In recent years, the number of studies focusing on the genetic basis of common disorders
with a complex mode of inheritance, in which multiple genes of small effect are involved, has …

ChIP-Seq data are a new challenge for motif discovery. Such a data typically consists of
thousands of DNA segments with base-specific coverage values. We present a new version of …

Naturally occurring regulatory T (Treg) cells, which specifically express the transcription
factor forkhead box P3 (Foxp3), are engaged in the maintenance of immunological self-…

Cancer is a complex disease, driven by aberrant activity in numerous signaling pathways in
even individual malignant cells. Epigenetic changes are critical mediators of these functional …

Motivation: Sample source, procurement process and other technical variations introduce
batch effects into genomics data. Algorithms to remove these artifacts enhance differences …