-
Article
Open AccessSystematic analysis of TruSeq, SMARTer and SMARTer Ultra-Low RNA-seq kits for standard, low and ultra-low quantity samples
High-throughput RNA-sequencing has become the gold standard method for whole-transcriptome gene expression analysis, and is widely used in numerous applications to study cell and tissue transcriptomes. It is a...
-
Article
Open AccessEigen-Epistasis for detecting gene-gene interactions
A large amount of research has been devoted to the detection and investigation of epistatic interactions in genome-wide association studies (GWASs). Most of the literature focuses on low-order interactions bet...
-
Article
Beyond support in two-stage variable selection
Numerous variable selection methods rely on a two-stage procedure, where a sparsity-inducing penalty is used in the first stage to predict the support, which is then conveyed to the second stage for estimation...
-
Article
Open AccessPatterns of chromosomal copy-number alterations in intrahepatic cholangiocarcinoma
Intrahepatic cholangiocarcinomas (ICC) are relatively rare malignant tumors associated with a poor prognosis. Recent studies using genome-wide sequencing technologies have mainly focused on identifying new dri...
-
Article
Open AccessGenomic aberrations associated with outcome in anaplastic oligodendroglial tumors treated within the EORTC phase III trial 26951
Despite similar morphological aspects, anaplastic oligodendroglial tumors (AOTs) form a heterogeneous clinical subgroup of gliomas. The chromosome arms 1p/19q codeletion has been shown to be a relevant biomark...
-
Article
Open AccessWhat do we learn from a Genome Wide Association Study performed on HIV-1 infected Long Term Non Progressors individuals?
-
Article
Open AccessA mixture model approach to multiple testing for the genetic analysis of gene expression
With the availability of very dense genome-wide maps of markers, multiple testing has become a major difficulty for genetic studies. In this context, the false-discovery rate (FDR) and related criteria are wid...
-
Article
Open AccessA constrained polynomial regression procedure for estimating the local False Discovery Rate
In the context of genomic association studies, for which a large number of statistical tests are performed simultaneously, the local False Discovery Rate (lFDR), which quantifies the evidence of a specific gene a...
