Min-O-Mee: A Proximity Based Network Application Leveraging The AllJoyn Framework

Close proximity of mobile devices can be utilized to create ad hoc and dynamic networks. These mobile Proximity Based Networks (PBNs) are Opportunistic Networks that enable devices to identify and communicate with each other without relying on any communication infrastructure. In addition, these networks are self organizing, highly dynamic and facilitate effective real-time communication. These characteristics render them very useful in a wide variety of complex scenarios such as vehicular communication, e-health, disaster networks, mobile social networks etc. In this work we employ the AllJoyn framework from Qualcomm which facilitates smooth discovery, attachment and data sharing between devices in close proximity. We develop Min-O-Mee, a Minutes-of-Meeting app prototype in the Android platform, utilizing the AllJoyn framework. Min-O-Mee allows one of the participants to create a minutes-of-meeting document which can be shared with and edited by the other participants in the meeting. The app harnesses the spatial proximity of participants in a meeting and enables seamless data exchange between them. This characteristic allows Min-O-Mee to share not just minutes-of-meeting, but any data that needs to be exchanged among the participants, making it a versatile app. Further, we extend the basic AllJoyn framework to enable multi-hop communication among the devices in the PBN. We devise a novel routing mechanism that is suited to a proximity centric wireless network as it facilitates data routing and delivery over several hops to devices that are at the fringe of the PBN

Phenotyping hypotensive patients in critical care using hospital discharge summaries

Among critically-ill patients, hypotension represents a failure in compensatory mechanisms and may lead to organ hypoperfusion and failure. In this work, we adopt a datadriven approach for phenotype discovery and visualization of patient similarity and cohort structure in the intensive care unit (ICU). We used Hierarchical Dirichlet Process (HDP) as a non-parametric topic modeling technique to automatically learn a d-dimensional feature representation of patients that captures the latent 'topic' structure of diseases, symptoms, medications, and findings documented in hospital discharge summaries. We then used the t-Distributed Stochastic Neighbor Embedding (t-SNE) algorithm to convert the d-dimensional latent structure learned from HDP into a matrix of pairwise similarities for visualizing patient similarity and cohort structure. Using discharge summaries of a large patient cohort from the MIMIC II database, we evaluated the clinical utility of the discovered topic structure in phenotyping critically-ill patients who experienced hypotensive episodes. Our results indicate that the approach is able to reveal clinically interpretable clustering structure within our cohort and may potentially provide valuable insights to better understand the association between disease phenotypes and outcomes.National Institutes of Health (U.S.) (Grant R01-EB017205)National Institutes of Health (U.S.) (Grant R01-EB001659)National Institutes of Health (U.S.) (Grant R01GM104987

Datathons and Software to Promote Reproducible Research

Background: Datathons facilitate collaboration between clinicians, statisticians, and data scientists in order to answer important clinical questions. Previous datathons have resulted in numerous publications of interest to the critical care community and serve as a viable model for interdisciplinary collaboration. Objective: We report on an open-source software called Chatto that was created by members of our group, in the context of the second international Critical Care Datathon, held in September 2015. Methods: Datathon participants formed teams to discuss potential research questions and the methods required to address them. They were provided with the Chatto suite of tools to facilitate their teamwork. Each multidisciplinary team spent the next 2 days with clinicians working alongside data scientists to write code, extract and analyze data, and reformulate their queries in real time as needed. All projects were then presented on the last day of the datathon to a panel of judges that consisted of clinicians and scientists. Results: Use of Chatto was particularly effective in the datathon setting, enabling teams to reduce the time spent configuring their research environments to just a few minutes—a process that would normally take hours to days. Chatto continued to serve as a useful research tool after the conclusion of the datathon. Conclusions: This suite of tools fulfills two purposes: (1) facilitation of interdisciplinary teamwork through archiving and version control of datasets, analytical code, and team discussions, and (2) advancement of research reproducibility by functioning postpublication as an online environment in which independent investigators can rerun or modify analyses with relative ease. With the introduction of Chatto, we hope to solve a variety of challenges presented by collaborative data mining projects while improving research reproducibility

Post Production Heavy Oil Operations: A Case for Partial Upgrading

The transportation of heavy oil is a pressing problem. Various methods have been devised to mitigate the reluctance to flow of these highly dense and viscous oils. This study is focused on evaluating a case for post-production partial upgrading of heavy oil. Specifically, we analyze the impact of visbreaking, a mild thermal cracking method, on the economic and energy demands of the post-production process. Using conservative modeling techniques and principles we find significant cost and energy savings can potentially result out of visbreaking. Cost savings result as a consequence of reduced diluent usage. Even the most conservative modeling scenario under consideration exhibits significant cost savings in the form of reduced diluent usage; these savings not only offset operational costs but provide short payback periods on capital expenditures. Additionally, the lower gravity blend resulting from visbreaking can also bring about energy and cost savings in pipeline transportation and positively impact the heavy oil value chain from the producer to a refinery or regional upgrading facility. From this basic analysis of the potential of visbreaking, we can recommend investing resources to study its viability in the field. Using this analysis as a tipping off point and with a detailed look at the chemistry of the oil in question it is possible to make a very viable case for visbreaking. In a similar vein, this analysis can serve as a guide in making a case for other partial upgrading methods as well

A data gathering toolkit for biological information integration

SYSTERS is a biological information integration system containing protein sequences from many protein databases such as Swiss-Prot and TrEMBL and also protein sequences from complete genomes available at Ensembl, The Arabidopsis Information Resource, SGD and GeneDB. For some protein sequences their encoding nucleotide sequences can be found in their corresponding websites. However, for some protein sequences their encoding nucleotide sequences are missing. The goal of this thesis is to. collect all nucleotide sequences for the protein sequences in SYSTERS and store them in a common database. There are two cases. The first case is that if the nucleotide sequences can be found, we collect them and put them in our database. The second case is that if the nucleotide sequences are missing, we use back-translation and use TBLASTN to search the nucleotide sequences and store them in our database

Analysis of vehicle suspension system subjected to random vibration

A two dimensional, two degree of freedom vehicle model is studied. A randomly profiled road is assumed to impart hyperbolic distributed stationary vertical random displacements to the front and the rear wheel. A computer program has been developed to evaluate transfer function matrices. The performance characteristic of the vehicle based on the Power Spectral Density of the vertical acceleration as well as the rattle space, for different values of damping factors, are studied

Do Statins Improve Outcomes in Patients With Asthma on Inhaled Corticosteroid Therapy? A Retrospective Analysis of the Mississippi Medicaid Database 2002-2004.

Animal model studies and clinical trials have looked at the potential benefits of the anti-inflammatory properties of statins in asthma management with contradictory results. Therefore, the objective of this study is to determine if asthma patients on concurrent statin therapy are less likely to have asthma-related hospitalizations and emergency room (ER) visits. We conducted a retrospective cohort study using Medicaid data for 2002–2004. Asthma patients ?18 years old were identified using the ICD9 code 493.xx, from Jul 1, 2002 through Dec 31, 2003. The index date for an exposed subject was any date within the identification period, 180 days prior to which the subject had at least 1 inhaled corticosteroid (ICS) prescription and at least an 80% adherence rate to statins. Medicaid beneficiaries identified as asthmatics and on ICS therapy, but not on statins were selected as the unexposed population. Each subject in the exposed group was matched to 2 subjects from the unexposed population using propensity scores computed using age, gender, race, urban/rural region and Charlson Comorbidity Index. The two groups were follofor 1 year beginning on the index date, and their outcomes in terms of hospitalizations and ER visits were compared using conditional logistic regression, further adjusted for adherence to ICS therapy, average number of short-acting ? agonists per subject, prior hospitalizations, ER, lab and office visits due to asthma. After matching, there were 479 exposed subjects with 958 corresponding controls. After adjusting for the above mentioned covariates, asthma patients not on concurrent statin therapy are almost two times as likely to have hospitalization and/or ER visits or both due to asthma (adjusted OR = 0.55; 95% CI [0.37, 0.84]; p = 0.0059), in comparison to patients on statin therapy. Similarly, they are also twice as likely to visit the ER due to asthma exacerbations as patients on statins (adjusted OR = 0.48; 95% CI [0.28, 0.82]; p = 0.0069). The findings of this study suggest that there may be beneficial effects of statins in preventing asthma exacerbations. Further prospective investigations are required to provide conclusive evidence

Development of Adenovirus-vectored Prototype Vaccines for African Swine Fever Virus and Bovine Viral Diarrhea Virus

The objective of this work was to develop adenovirus-vectored prototype vaccines against two pathogens, African Swine Fever Virus (ASFV) and Bovine Viral Diarrhea Virus (BVDV), which cause disease in two major livestock species, swine and cattle respectively. The African Swine Fever Virus is a transboundary animal pathogen that causes a lethal hemorrhagic fever in domestic pigs. Attempts to develop a vaccine for ASFV have failed thus far. This manuscript describes the use of recombinant adenovirus to deliver two unique formulations of ASFV antigens in swine (in two separate in-vivo studies) and the subsequent evaluation of the antigen-specific antibody and cellular responses induced. The robust antigen-specific immune responses observed in both studies are promising and their protective potential will be evaluated in future efficacy studies The Bovine Viral Diarrhea Virus is a globally prevalent pathogen that can cause severe diarrhea, respiratory disease, abortions and sometimes death in calves. Killed and modified live vaccines (MLV) for BVDV have been in use since the 1960s but are not effective due to lack of cross-protection and retention of immunosuppressive characteristics. This thesis also describes the use of the recombinant adenovirus vector to deliver a cocktail of multiple mosaic BVDV antigens in calves followed by the evaluation of protection conferred upon challenge. The prototype vaccine was more immunogenic and cross-protective (based on neutralizing antibodies) than a commercial MLV BVDV vaccine. Regarding protective efficacy, all calves immunized with prototype vaccine cleared the virus within a week post-challenge, whereas one calf that received the MLV vaccine still remained viremic. Future efficacy studies with diverse BVDV strains are required to validate the cross-protective potential of this prototype vaccine