Assessing the Potential Risks of Digital Therapeutics (DTX): The DTX Risk Assessment Canvas.

Motivation: Digital therapeutics (DTX), i.e., health interventions that are provided through digital means, are increasingly available for use; in some countries, physicians can even prescribe selected DTX following a reimbursement by health insurances.

Integration of Annotated Phenotype, Gene and Chemical Text Data to Advance Exposome Informatics.

The field of phenomics has a range of biomedical informatics tools such as the Human Phenotype Ontology, providing a structured vocabulary with relationships between abnormal phenotype terms. Artificial intelligence has been widely used for entity extraction and tagging large corpora of text from PubMed and is reflected in applications such as PheneBank and PubTator. Phexpo is a tool for predicting chemical - phenotype relationships and vice-versa, although lacks the ability to decipher known relationships from unknown.

Construction of a Physical Factor Resource for Exposome Informatics Research.

Exposome research is focused on all the exposures individuals experience during their lifetime and how it shapes their health and development of disease. The chemical and biological aspects of the exposome are readily available in data formats. In comparison there is a lack of data frameworks available for physical factors (e.

Linking Genome and Exposome: Computational Analysis of Human Variation in Chemical-Target Interactions.

The growing amount of available public data repositories containing a plethora of rich chemical and biomedical information is enabling new in silico research avenues. In this project we aim to link human genome variations and the exposome applying in silico biomedical informatics approaches to analyse the potential effects of those variants in the interactions with different chemicals.

An "in silico" Bench to Bedside Approach to Investigating Sepsis Biomarkers.

Sepsis results in various patient complications and is due to a heightened inflammatory response against infection. This condition requires further exploration of biomarkers. We employed an "in silico" method comprised of text-mining and additionally clinical validation through the Medical Information Mart for Intensive Care.

Person-generated Data in Self-quantification. A Health Informatics Research Program.

Objectives: The availability of internet-connected mobile, wearable and ambient consumer technologies, direct-to-consumer e-services and peer-to-peer social media sites far outstrips evidence about the efficiency, effectiveness and efficacy of using them in healthcare applications. The aim of this paper is to describe one approach to build a program of health informatics research, so as to generate rich and robust evidence about health data and information processing in self-quantification and associated healthcare and health outcomes.

Methods: The paper summarises relevant health informatics research approaches in the literature and presents an example of developing a program of research in the Health and Biomedical Informatics Centre (HaBIC) at the University of Melbourne.

The Genomic Medicine Game.

With advancements in genomics technology, health care has been improving and new paradigms of medicine such as genomic medicine have evolved. The education of clinicians, researchers and students to face the challenges posed by these new approaches, however, has been often lagging behind. From this the Genomic Medicine Game, an educational tool, was created for the purpose of conceptualizing the key components of Genomic Medicine.

The New Role of Biomedical Informatics in the Age of Digital Medicine.

Objectives: To reflect on the recent rise of Digital Medicine, as well as to analyse main research opportunities in this area. Through the use of several examples, this article aims to highlight the new role that Biomedical Informatics (BMI) can play to facilitate progress in research fields such as participatory and precision medicine. This paper also examines the potential impact and associated risks for BMI due to the development of digital medicine and other recent trends.

Comment on 'Discovering hospital admission patterns using models learnt from electronic hospital records'. The importance of using the right codes.

guillermo.lopez@unimelb.edu.

Proposal for a Standardised Reporting Guideline to Annotate Health-related Self-Quantification Experiments.

Self-monitoring experiments are becoming increasingly common as it is the case in other complex environments their interpretation and reproducibility relies heavily in the amount of associated meta-data available. In this work we propose a standardised reporting guideline to annotate these experiments and facilitate their interpretation. The existence of such reporting guideline may lead the development of future standards that would facilitate platform interoperability, data sharing and the improvement in the interpretation of such experiments as well as their reproducibility.

Merging personalized and participatory medicine: interpretation of individual genomes.

Interpretation-only providers are becoming increasingly prominent in the field of Direct-To-Consumer genomics. We examined the information obtained from two different providers (Interpretome and Promethease) when analysing the same personal genome. We found large discrepancies between the results from these services for the list of SNPs included in the analysis, but a high level of concordance in their interpretation when the SNPs were coincident.

Is Precision Medicine different from Personalised Medicine? A Biomedical informatics perspective.

There is an open controversy in the use of the terms personalised and precision medicine and what they refer to in different contexts. In the present work we have considered the data types managed by each of them rather than their application and we have been able to identify commonalities but also differences in the types of data addressed in both approaches that would ultimately lead to include, from a data perspective, personalised medicine within the broader precision medicine term.

Mapping biomedical vocabularies: a semi-automated term matching approach.

Biomedical vocabularies vary in scope, and it is often necessary to utilize multiple vocabularies simultaneously in order to cover the full range of concepts relevant to a given biomedical application. However, as the number and size of these resources grow both redundancy (i.e.

Global transcriptome analysis of Lactococcus garvieae strains in response to temperature.

Lactococcus garvieae is an important fish and an opportunistic human pathogen. The genomic sequences of several L. garvieae strains have been recently published, opening the possibility of global studies on the biology of this pathogen.

Characterization of plasmids in a human clinical strain of Lactococcus garvieae.

The present work describes the molecular characterization of five circular plasmids found in the human clinical strain Lactococcus garvieae 21881. The plasmids were designated pGL1-pGL5, with molecular sizes of 4,536 bp, 4,572 bp, 12,948 bp, 14,006 bp and 68,798 bp, respectively. Based on detailed sequence analysis, some of these plasmids appear to be mosaics composed of DNA obtained by modular exchange between different species of lactic acid bacteria.

Genome sequence of Lactococcus garvieae 8831, isolated from rainbow trout lactococcosis outbreaks in Spain.

Lactococcus garvieae is the etiological agent of lactococcosis, one of the most important disease threats to the sustainability of the rainbow trout farming industry. Here, we present the draft genome sequence of Lactococcus garvieae strain 8831, isolated from diseased rainbow trout, which is composed of 2,087,276 bp with a G+C content of 38%.

Genome sequence of Lactococcus garvieae 21881, isolated in a case of human septicemia.

Lactococcus garvieae is a Gram-positive bacterium considered an important opportunistic emerging human pathogen and also a well-recognized fish pathogen. Here, we present the draft genome sequence of Lactococcus garvieae strain 21881 (2,164,557 bp, with a G+C content of 37.9%), which represents the first report of a genome sequence on Lactococcus garvieae.

Temporal profiling of the coding and noncoding murine cytomegalovirus transcriptomes.

The global transcriptional program of murine cytomegalovirus (MCMV), involving coding, noncoding, and antisense transcription, remains unknown. Here we report an oligonucleotide custom microarray platform capable of measuring both coding and noncoding transcription on a genome-wide scale. By profiling MCMV wild-type and immediate-early mutant strains in fibroblasts, we found rapid activation of the transcriptome by 6.

Analysis of the genome content of Lactococcus garvieae by genomic interspecies microarray hybridization.

Background: Lactococcus garvieae is a bacterial pathogen that affects different animal species in addition to humans. Despite the widespread distribution and emerging clinical significance of L. garvieae in both veterinary and human medicine, there is almost a complete lack of knowledge about the genetic content of this microorganism.