HPG-DHunter: an ultrafast, friendly tool for DMR detection and visualization.

Background: Software tools for analyzing DNA methylation do not provide graphical results which can be easily identified, but huge text files containing the alignment of the samples and their methylation status at a resolution of base pairs. There have been proposed different tools and methods for finding Differentially Methylated Regions (DMRs) among different samples, but the execution time required by these tools is large, and the visualization of their results is far from being interactive. Additionally, these methods show more accurate results when identifying simulated DM regions that are long and have small within-group variation, but they have low concordance when used with real datasets, probably due to the different approaches they use for DMR identification.

A new parallel pipeline for DNA methylation analysis of long reads datasets.

Background: DNA methylation is an important mechanism of epigenetic regulation in development and disease. New generation sequencers allow genome-wide measurements of the methylation status by reading short stretches of the DNA sequence (Methyl-seq). Several software tools for methylation analysis have been proposed over recent years.

A nested virtualization tool for information technology practical education.

Background: A common problem of some information technology courses is the difficulty of providing practical exercises. Although different approaches have been followed to solve this problem, it is still an open issue, specially in security and computer network courses.

Results: This paper proposes NETinVM, a tool based on nested virtualization that includes a fully functional lab, comprising several computers and networks, in a single virtual machine.

A parallel and sensitive software tool for methylation analysis on multicore platforms.

Motivation: DNA methylation analysis suffers from very long processing time, as the advent of Next-Generation Sequencers has shifted the bottleneck of genomic studies from the sequencers that obtain the DNA samples to the software that performs the analysis of these samples. The existing software for methylation analysis does not seem to scale efficiently neither with the size of the dataset nor with the length of the reads to be analyzed. As it is expected that the sequencers will provide longer and longer reads in the near future, efficient and scalable methylation software should be developed.

Unusual case of osteosynthesis failure in a hip fracture: side-plate pull-out.

Osteoporotic hip fractures are common in our setting. Poor bone quality favors complications of the osteosynthesis procedures used to treat these patients. Lag-screw cut-out through the femoral head is not uncommon (2%), but pull-out of side plate screws is very unusual.

Fracture of the unresurfaced patella after total knee arthroplasty: a report of two cases.

Patellar fractures are unusual in total knee arthroplasty without patellar resurfacing. We present 2 such cases that occurred within postoperative 2 months and were managed conservatively. Both patients had their knee function preserved.

Inspiratory contrast for in vivo optical imaging.

We demonstrate the use of inspired oxygen and carbon dioxide as a possible route to increase contrast in optical imaging of cancerous tissue. Differential imaging in human xenograft rodent models of cancer exhibits significant variation in signal between normal and cancerous tissue. This differential cancer-specific contrast is stronger and more consistent than the conventional static contrast.