Search

Digital pathology and the adoption of image analysis have grown rapidly in the last few years. This is largely due to the implementation of whole slide scanning, advances in software and computer processing capacity and the increasing importance of tissue-based research for biomarker discovery and stratified medicine. This review sets out the key application areas for digital pathology and image analysis, with a particular focus on research and biomarker discovery. A variety of image analysis applications are reviewed including nuclear morphometry and tissue architecture analysis, but with emphasis on immunohistochemistry and fluorescence analysis of tissue biomarkers. Digital pathology and image analysis have important roles across the drug/companion diagnostic development pipeline including biobanking, molecular pathology, tissue microarray analysis, molecular profiling of tissue and these important developments are reviewed. Underpinning all of these important developments is the need for high quality tissue samples and the impact of pre-analytical variables on tissue research is discussed. This requirement is combined with practical advice on setting up and running a digital pathology laboratory. Finally, we discuss the need to integrate digital image analysis data with epidemiological, clinical and genomic data in order to fully understand the relationship between genotype and phenotype and to drive discovery and the delivery of personalized medicine.

Stromal-derived growth factors are required for normal epithelial growth but are also implicated in tumour progression. We have observed inactivation of the retinoblastoma protein (Rb), through phosphorylation, in cancer-associated fibroblasts in oro-pharyngeal cancer specimens. Rb is well known for its cell-autonomous effects on cancer initiation and progression; however, cell non-autonomous functions of Rb are not well described. We have identified a cell non-autonomous role of Rb, using three-dimensional cultures, where depletion of Rb in stromal fibroblasts enhances invasive potential of transformed epithelia. In part, this is mediated by upregulation of keratinocyte growth factor (KGF), which is produced by the depleted fibroblasts. KGF drives invasion of epithelial cells through induction of MMP1 expression in an AKT- and Ets2-dependent manner. Our data identify that stromal fibroblasts can alter the invasive behaviour of the epithelium, and we show that altered expression of KGF can mediate these functions.

This paper contains a survey on aspects of visual event computing. We start by presenting events and their classifications, and continue with discussing the problem of capturing events in terms of photographs, videos, etc, as well as the methodologies for event storing and retrieving. Later, we review an extensive set of papers taken from well-known conferences and journals in multiple disciplines. We analyze events, and summarize the procedure of visual event actions. We introduce each component of a visual event computing system, and its computational aspects, we discuss the progress of each component and review its overall status. Finally, we suggest future research trends in event computing and hope to introduce a comprehensive profile of visual event computing to readers.

Modern cancer research on prognostic and predictive biomarkers demands the integration of established and emerging high-throughput technologies. However, these data are meaningless unless carefully integrated with patient clinical outcome and epidemiological information. Integrated datasets hold the key to discovering new biomarkers and therapeutic targets in cancer. We have developed a novel approach and set of methods for integrating and interrogating phenomic, genomic and clinical data sets to facilitate cancer biomarker discovery and patient stratification. Applied to a known paradigm, the biological and clinical relevance of TP53, PICan was able to recapitulate the known biomarker status and prognostic significance at a DNA, RNA and protein levels.

In this paper we present an event driven surveillance system.The purpose of this system is to enable thorough explorationof surveillance events. The system uses a clientserverweb architecture as this provides scalability for furtherdevelopment of the system infrastructure. The systemis designed to be accessed by surveillance operators whocan review and comment on events generated by our eventdetection processing modules. The presentation interfaceis based around a cross between Gmail and YouTube, aswe believe these interfaces to be intuitive for ordinary computeroperators. Our motivation is to fully utilize the eventsarchived in our database and to further refine the relevantevents. We do not just focus on event detection, but areworking towards the optimization of event detection. To thebest of our knowledge this system provides a novel approachto the technological surveillance paradigm.