Several recent papers have suggested that two-locus tests of association that incorporate gene x gene interaction can be more powerful than marginal, single-locus tests across a broad range of multilocus interaction models, even after conservative correction for multiple testing. However, because these two-locus tests are sensitive to marginal associations with either marker, they can be diffic...

The intracellular parasite Theileria is the only eukaryote known to transform its mammalian host cells. We investigated the host mechanisms involved in parasite-induced transformation phenotypes. Tumour progression is a multistep process, yet 'oncogene addiction' implies that cancer cell growth and survival can be impaired by inactivating a single gene, offering a rationale for targeted molecul...

Two robustness criteria are presented that are applicable to general clustering methods. Robustness and stability in cluster analysis are not only data dependent, but even cluster dependent. Robustness is in the present paper defined as a property of not only the clustering method, but also of every individual cluster in a data set. The main principles are: (a) dissimilarity measurement of an o...

Identifying quantitative trait loci in experimental crosses Identifying the genetic loci responsible for variation in traits which are quantitative in nature (such as the yield from an agricultural crop or the number of abdominal bristles on a fruit y) is a problem of great importance to biologists. The number and eeects of such loci help us to understand the biochemical basis of these traits, ...

BACKGROUND Methods for linking real-world healthcare data often use a latent class model, where the latent, or unknown, class is the true match status of candidate record-pairs. This commonly used model assumes that agreement patterns among multiple fields within a latent class are independent. When this assumption is violated, various approaches, including the most commonly proposed loglinear ...

It is well known that AIC and BIC have different properties in model selection. BIC is consistent in the sense that if the true model is among the candidates, the probability of selecting the true model approaches 1. On the other hand, AIC is minimax-rate optimal for both parametric and nonparametric cases for estimating the regression function. There are several successful results on construct...

The intracellular gram-negative bacterium Francisella tularensis causes the disease tularemia and is known for its ability to subvert host immune responses. Previous work from our laboratory identified the PI3K/Akt pathway and SHIP as critical modulators of host resistance to Francisella. Here, we show that SHIP expression is strongly down-regulated in monocytes and macrophages following infect...

Whole-genome sequencing data allow detection of copy number variation (CNV) at high resolution. However, estimation based on read coverage along the genome suffers from bias due to GC content and other factors. Here, we develop an algorithm called BIC-seq2 that combines normalization of the data at the nucleotide level and Bayesian information criterion-based segmentation to detect both somatic...

Infiltration of immune cells in primary tumors and metastatic sites is known to influence tumor progression and metastasis. Macrophages represent themost abundant immune cells in the tumormicroenvironment, and evidence has shown thatmacrophages promote seeding, extravasation, and persistent growth of tumor cells atmetastatic sites. miR-155 plays an essential role in immune cell development/func...