A systematic approach for using DICOM structured reports in clinical processes: focus on breast cancer.

This paper describes a methodology for redesigning the clinical processes to manage diagnosis, follow-up, and response to treatment episodes of breast cancer. This methodology includes three fundamental elements: (1) identification of similar and contrasting cases that may be of clinical relevance based upon a target study, (2) codification of reports with standard medical terminologies, and (3) linking and indexing the structured reports obtained with different techniques in a common system. The combination of these elements should lead to improvements in the clinical management of breast cancer patients.

Acceleration of short and long DNA read mapping without loss of accuracy using suffix array.

Unlabelled: HPG Aligner applies suffix arrays for DNA read mapping. This implementation produces a highly sensitive and extremely fast mapping of DNA reads that scales up almost linearly with read length. The approach presented here is faster (over 20× for long reads) and more sensitive (over 98% in a wide range of read lengths) than the current state-of-the-art mappers.

Improving knowledge management through the support of image examination and data annotation using DICOM structured reporting.

An important effort has been invested on improving the image diagnosis process in different medical areas using information technologies. The field of medical imaging involves two main data types: medical imaging and reports. Developments based on the DICOM standard have demonstrated to be a convenient and widespread solution among the medical community.

Using GPUs for the exact alignment of short-read genetic sequences by means of the Burrows-Wheeler transform.

General Purpose Graphic Processing Units (GPGPUs) constitute an inexpensive resource for computing-intensive applications that could exploit an intrinsic fine-grain parallelism. This paper presents the design and implementation in GPGPUs of an exact alignment tool for nucleotide sequences based on the Burrows-Wheeler Transform. We compare this algorithm with state-of-the-art implementations of the same algorithm over standard CPUs, and considering the same conditions in terms of I/O.

An OGSA Middleware for managing medical images using ontologies.

This article presents a Middleware based on Grid Technologies that addresses the problem of sharing, transferring and processing DICOM medical images in a distributed environment using an ontological schema to create virtual communities and to define common targets. It defines a distributed storage that builds-up virtual repositories integrating different individual image repositories providing global searching, progressive transmission, automatic encryption and pseudo-anonimisation and a link to remote processing services. Users from a Virtual Organisation can share the cases that are relevant for their communities or research areas, epidemiological studies or even deeper analysis of complex individual cases.