Data analytics based positioning of health informatics programs

The Master of Science in Computer Information Systems (CIS) with concentration in Health Informatics (HI) at Metropolitan College (MET), Boston University (BU), is a 40-credit degree program that are delivered in three formats: face-to-face, online, and blended. The MET CIS-HI program is unique because of the population of students it serves, namely those interested in gaining skills in HI technology field, to serve as data analysts and knowledge-based technology drivers in the thriving health care industry. This set of skills is essential for addressing the challenges of Big Data and knowledge-based health care support of the modern health care. The MET CIS-HI program was accredited by the Commission on Accreditation for Health Informatics and Information Management Education (CAHIIM) in 2017

Advances in computational immunology

Published versio

Thermodynamic non-equilibrium effects in bubble coalescence: A discrete Boltzmann study

The Thermodynamic Non-Equilibrium (TNE) effects in the coalescing process of two initially static bubbles under thermal conditions are investigated by a Discrete Boltzmann Model (DBM). The spatial distributions of the typical none-quilibrium quantity, i.e., the Non-Organized Momentum Fluxes (NOMF) during evolutions are investigated in detail. The density-weighted statistical method is used to highlight the relationship between the TNE effects and the morphological or kinetics characteristics of bubble coalescence. It is found that the $xx$-component and $yy$-component of NOMF are anti-symmetrical; the $xy$-component changes from an anti-symmetric internal and external double quadrupole structure to an outer octupole structure during the coalescing process. More importantly, the evolution of the averaged $xx$-component of NOMF provides two characteristic instants, which divide the non-equilibrium process into three stages. The first instant corresponds to the moment when the mean coalescing speed gets the maximum and at this time the ratio of minor and major axes is about $1/2$. The second instant corresponds to the moment when the ratio of minor and major axes gets $1$ for the first time. It is interesting to find that the three quantities, TNE intensity, acceleration of coalescence and negative slope of boundary length, show a high degree of correlation and attain their maxima simultaneously. Surface tension and heat conduction accelerate the process of bubble coalescence while viscosity delays it. Both surface tension and viscosity enhance the global non-equilibrium intensity, whereas heat conduction restrains it. These TNE features and findings present some new insights into the kinetics of bubble coalescence

Examining mental illness trends in the United States from 2006 to 2019

We investigate the characteristics of medical expenditures associated with mental illness hospitalizations using the Truven Health MarketScan Database. We focus on the inpatient admissions due to mental illness of adults aged 1S to 64 between 2006 to 2019. We aim to answer the following questions: (1) Did the financial crisis of 2008 impact mental health in the U.S.?(2) What are the other macro-level (socioeconomic and regulartory) and micro-level (individualpatient related) factors that affect the cost of inpatient care due to mental illness; (3) Did mental illness affect men and women differently? (4) How were different regions within the U.S. affected by mental illness?Accepted manuscrip

TANTIGEN 2.0: a knowledge base of tumor T cell antigens and epitopes

We previously developed TANTIGEN, a comprehensive online database cataloging more than 1000 T cell epitopes and HLA ligands from 292 tumor antigens. In TANTIGEN 2.0, we significantly expanded coverage in both immune response targets (T cell epitopes and HLA ligands) and tumor antigens. It catalogs 4,296 antigen variants from 403 unique tumor antigens and more than 1500 T cell epitopes and HLA ligands. We also included neoantigens, a class of tumor antigens generated through mutations resulting in new amino acid sequences in tumor antigens. TANTIGEN 2.0 contains validated TCR sequences specific for cognate T cell epitopes and tumor antigen gene/mRNA/protein expression information in major human cancers extracted by Human Pathology Atlas. TANTIGEN 2.0 is a rich data resource for tumor antigens and their associated epitopes and neoepitopes. It hosts a set of tailored data analytics tools tightly integrated with the data to form meaningful analysis workflows. It is freely available at http://projects.met-hilab.org/tadb

CK2 inhibitor CX-4945 destabilizes NOTCH1 and synergizes with JQ1 against human T-acute lymphoblastic leukemic cells

Here we show that CK2 inhibition by CX-4945 destabilizes NOTCH1 and synergizes with JQ1 to induce apoptosis in human T-ALL cells, implicating an alternative strategy to target NOTCH1 signaling in refractory/relapsed T-ALL

Artificial neural network system for cell classification using single cell RNA expression

We implemented an automated system for single-cell classification using artificial neural networks (ANN). Our system takes single-cell gene expression sparse matrices and trains ANN to classify cell types and subtypes. The assemblies of ANNs predict cell classes by voting. We tested the system in a case study where we trained ANNs with a dataset containing approximately 120,000 single cells and tested the resulting model using an independent data set of 13,000 single cells. The overall accuracy of the 5-class classification was 95%. We trained and tested a total of 100 ANNs in 10 cycles. The prediction system demonstrated excellent reproducibility. The analysis of misclassifications indicated that 2% were likely classification errors, while the remaining 3% were likely due to mislabeled types and subtypes in the test set

Rare variants and HLA haplotypes associated in patients with neuromyelitis optica spectrum disorders

Neuromyelitis optica spectrum disorders (NMOSD) are rare, debilitating autoimmune diseases of the central nervous system. Many NMOSD patients have antibodies to Aquaporin-4 (AQP4). Prior studies show associations of NMOSD with individual Human Leukocyte Antigen (HLA) alleles and with mutations in the complement pathway and potassium channels. HLA allele associations with NMOSD are inconsistent between populations, suggesting complex relationships between the identified alleles and risk of disease. We used a retrospective case-control approach to identify contributing genetic variants in patients who met the diagnostic criteria for NMOSD and their unaffected family members. Potentially deleterious variants identified in NMOSD patients were compared to members of their families who do not have the disease and to existing databases of human genetic variation. HLA sequences from patients from Belgrade, Serbia, were compared to the frequency of HLA haplotypes in the general population in Belgrade. We analyzed exome sequencing on 40 NMOSD patients and identified rare inherited variants in the complement pathway and potassium channel genes. Haplotype analysis further detected two haplotypes, HLA-A*01, B*08, DRB1*03 and HLA-A*01, B*08, C*07, DRB1*03, DQB1*02, which were more prevalent in NMOSD patients than in unaffected individuals. In silico modeling indicates that HLA molecules within these haplotypes are predicted to bind AQP4 at several sites, potentially contributing to the development of autoimmunity. Our results point to possible autoimmune and neurodegenerative mechanisms that cause NMOSD, and can be used to investigate potential NMOSD drug targets.Published versio

Source localization in quantitative electrophysiology

The project focused into the area of source localization in quantitative eletrophysiology.Master of Engineerin