Now showing items 15-34 of 111

    • Bayesian Model of Protein Primary Sequence for Secondary Structure Prediction 

      Li, Qiwei; Dahl, David B.; Vannucci, Marina; Joo, Hyun; Tsai, Jerry W. (2014)
      Determining the primary structure (i.e., amino acid sequence) of a protein has become cheaper, faster, and more accurate. Higher order protein structure provides insight into a protein's function in the cell. Understanding ...
    • Bayesian models for functional magnetic resonance imaging data analysis 

      Zhang, Linlin; Guindani, Michele; Vannucci, Marina (2015)
      Functional magnetic resonance imaging (fMRI), a noninvasive neuroimaging method that provides an indirect measure of neuronal activity by detecting blood flow changes, has experienced an explosive growth in the past years. ...
    • A Bayesian Nonparametric Approach for Functional Data Classification with Application to Hepatic Tissue Characterization 

      Fronczyk, Kassandra M.; Guindani, Michele; Hobbs, Brian P.; Ng, Chaan S.; Vannucci, Marina (2015)
      Computed tomography perfusion (CTp) is an emerging functional imaging technology that provides a quantitative assessment of the passage of fluid through blood vessels. Tissue perfusion plays a critical role in oncology due ...
    • A Bayesian nonparametric approach for the analysis of multiple categorical item responses 

      Waters, Andrew; Fronczyk, Kassandra; Guindani, Michele; Baraniuk, Richard G.; Vannucci, Marina (2015)
      We develop a modeling framework for joint factor and cluster analysis of datasets where multiple categorical response items are collected on a heterogeneous population of individuals. We introduce a latent factor multinomial ...
    • Biodegradable, phosphate-containing, dual-gelling macromers for cellular delivery in bone tissue engineering 

      Watson, Brendan M.; Vo, Tiffany N.; Tatara, Alexander M.; Shah, Sarita R.; Scott, David W.; Engel, Paul S.; Mikos, Antonios G. (2015)
      Injectable, biodegradable, dual-gelling macromer solutions were used to encapsulate mesenchymal stem cells (MSCs) within stable hydrogels when elevated to physiologic temperature. Pendant phosphate groups were incorporated ...
    • Brominated flame retardants in placental tissues: associations with infant sex and thyroid hormone endpoints 

      Leonetti, Christopher; Butt, Craig M; Hoffman, Kate; Hammel, Stephanie C; Miranda, Marie L; Stapleton, Heather M (2016)
      Abstract Background Brominated flame retardants (BFRs) are endocrine disruptors that bioaccumulate in the placenta, but it remains unclear if they disrupt tissue thyroid ...
    • Cell fate in antiviral response arises in the crosstalk of IRF, NF-κB and JAK/STAT pathways 

      Czerkies, Maciej; Korwek, Zbigniew; Prus, Wiktor; Kochańczyk, Marek; Jaruszewicz-Błońska, Joanna; Tudelska, Karolina; Błoński, Sławomir; Kimmel, Marek; Brasier, Allan R.; Lipniacki, Tomasz (2018)
      The innate immune system processes pathogen-induced signals into cell fate decisions. How information is turned to decision remains unknown. By combining stochastic mathematical modelling and experimentation, we demonstrate ...
    • Chronic Infection Depletes Hematopoietic Stem Cells through Stress-Induced Terminal Differentiation 

      Matatall, Katie A.; Jeong, Mira; Chen, Siyi; Sun, Deqiang; Chen, Fengju; Mo, Qianxing; Kimmel, Marek; King, Katherine Y. (2016)
      Chronic infections affect a third of the world’s population and can cause bone marrow suppression, a severe condition that increases mortality from infection. To uncover the basis for infection-associated bone marrow ...
    • City-Specific Air Quality Warnings for Improved Asthma Self-Management 

      Raun, Loren H.; Ensor, Katherine B.; Pederson, John E.; Campos, Laura A.; Persse, David E. (2019)
      INTRODUCTION: This study presents a framework for identifying "high-risk" days for asthma attacks associated with elevated concentrations of criteria pollutants using local information to warn citizens on days when the ...
    • Classification of hyperspectral imagery with neural networks: comparison to conventional tools 

      Merényi, Erzsébet; Farrand, William H.; Taranik, James V.; Minor, Timothy B. (2014)
      Efficient exploitation of hyperspectral imagery is of great importance in remote sensing. Artificial intelligence approaches have been receiving favorable reviews for classification of hyperspectral data because the ...
    • Coalescence computations for large samples drawn from populations of time-varying sizes 

      Polanski, Andrzej; Szczesna, Agnieszka; Garbulowski, Mateusz; Kimmel, Marek (2017)
      We present new results concerning probability distributions of times in the coalescence tree and expected allele frequencies for coalescent with large sample size. The obtained results are based on computational methodologies, ...
    • Computational finance: correlation, volatility, and markets 

      Ensor, Katherine Bennett; Koev, Ginger M. (2014)
      Financial data by nature are inter-related and should be analyzed using multivariate methods. Many models exist for the joint analysis of multiple financial instruments. Early models often assumed some type of constant ...
    • Concentrations of polybrominated diphenyl ethers (PBDEs) and 2,4,6-tribromophenol in human placental tissues 

      Leonetti, Christopher; Butt, Craig M.; Hoffman, Kate; Miranda, Marie Lynn; Stapleton, Heather M. (2016)
      Legacy environmental contaminants such as polybrominated diphenyl ethers (PBDEs) are widely detected in human tissues. However, few studies have measured PBDEs in placental tissues, and there are no reported measurements ...
    • Cross talk between cytokine and hyperthermia-induced pathways: identification of different subsets of NF-κ B-dependent genes regulated by TNFα and heat shock 

      Janus, Patryk; Stokowy, Tomasz; Jaksik, Roman; Szoltysek, Katarzyna; Handschuh, Luiza; Podkowinski, Jan; Widlak, Wieslawa; Kimmel, Marek; Widlak, Piotr (2015)
      Heat shock inhibits NF-κB signaling, yet the knowledge about its influence on the regulation of NF-κB-dependent genes is limited. Using genomic approaches, i.e., expression microarrays and ChIP-Seq, we aimed to establish ...
    • Cross-Disciplinary Consultancy to Enhance Predictions of Asthma Exacerbation Risk in Boston 

      Reid, Margaret; Gunn, Julia; Shah, Snehal; Donovan, Michael; Eggo, Rosalind; Babin, Steven; Stajner, Ivanka; Rogers, Eric; Ensor, Katherine B.; Raun, Loren; Levy, Jonathan I.; Painter, Ian; Phipatanakul, Wanda; Yip, Fuyuen; Nath, Anjali; Streichert, Laura; Tong, Catherine; Burkom, Howard (2016)
      This paper continues an initiative conducted by the International Society for Disease Surveillance with funding from the Defense Threat Reduction Agency to connect near-term analytical needs of public health practice with ...
    • Crowdsourced estimation of cognitive decline and resilience in Alzheimer's disease 

      Allen, Genevera I.; Amoroso, Nicola; Anghel, Catalina; Balagurusamy, Venkat; Bare, Christopher J.; Beaton, Derek; Bellotti, Roberto; Bennett, David A.; Boehme, Kevin L.; Boutros, Paul C.; Caberlotto, Laura; Caloian, Cristian; Campbell, Frederick; Neto, Elias Chaibub; Chang, Yu-Chuan; Chen, Beibei; Chen, Chien-Yu; Chien, Ting-Ying; Clark, Tim; Das, Sudeshna; Davatzikos, Christos; Deng, Jieyao; Dillenberger, Donna; Dobson, Richard J.B.; Dong, Qilin; Doshi, Jimit; Duma, Denise; Errico, Rosangela; Erus, Guray; Everett, Evan; Fardo, David W.; Friend, Stephen H.; Frӧhlich, Holger; Gan, Jessica; St George-Hyslop, Peter; Ghosh, Satrajit S.; Glaab, Enrico; Green, Robert C.; Guan, Yuanfang; Hong, Ming-Yi; Huang, Chao; Hwang, Jinseub; Ibrahim, Joseph; Inglese, Paolo; Iyappan, Anandhi; Jiang, Qijia; Katsumata, Yuriko; Kauwe, John S.K.; Klein, Arno; Kong, Dehan; Krause, Roland; Lalonde, Emilie; Lauria, Mario; Lee, Eunjee; Lin, Xihui; Liu, Zhandong; Livingstone, Julie; Logsdon, Benjamin A.; Lovestone, Simon; Ma, Tsung-wei; Malhotra, Ashutosh; Mangravite, Lara M.; Maxwell, Taylor J.; Merrill, Emily; Nagorski, John; Namasivayam, Aishwarya; Narayan, Manjari; Naz, Mufassra; Newhouse, Stephen J.; Norman, Thea C.; Nurtdinov, Ramil N.; Oyang, Yen-Jen; Pawitan, Yudi; Peng, Shengwen; Peters, Mette A.; Piccolo, Stephen R.; Praveen, Paurush; Priami, Corrado; Sabelnykova, Veronica Y.; Senger, Philipp; Shen, Xia; Simmons, Andrew; Sotiras, Aristeidis; Stolovitzky, Gustavo; Tangaro, Sabina; Tateo, Andrea; Tung, Yi-An; Tustison, Nicholas J.; Varol, Erdem; Vradenburg, George; Weiner, Michael W.; Xiao, Guanghua; Xie, Lei; Xie, Yang; Xu, Jia; Yang, Hojin; Zhan, Xiaowei; Zhou, Yunyun; Zhu, Fan; Zhu, Hongtu; Zhu, Shanfeng; Alzheimer’s Disease Neuroimaging Initiative (2016)
      Identifying accurate biomarkers of cognitive decline is essential for advancing early diagnosis and prevention therapies in Alzheimer's disease. The Alzheimer's disease DREAM Challenge was designed as a computational ...
    • Development of an analytical method to quantify PBDEs, OH-BDEs, HBCDs, 2,4,6-TBP, EH-TBB, and BEH-TEBP in human serum 

      Butt, Craig M.; Miranda, Marie Lynn; Stapleton, Heather M. (2016)
      Polybrominated diphenyl ethers (PBDEs) flame retardants (FRs) were phased-out in the mid-2000s (penta- and octaBDE) and 2013 (decaBDE); however, their hydroxylated metabolites (OH-BDEs) are still commonly detected in human ...
    • Disaster response on September 11, 2001 through the lens of statistical network analysis 

      Schweinberger, Michael; Petrescu-Prahova, Miruna; Vu, Duy Quang (2014)
      The rescue and relief operations triggered by the September 11, 2001 attacks on the World Trade Center in New York City demanded collaboration among hundreds of organisations. To shed light on the response to the September ...
    • Dynamic Cross Talk Model of the Epithelial Innate Immune Response to Double-Stranded RNA Stimulation: Coordinated Dynamics Emerging from Cell-Level Noise 

      Bertolusso, Roberto; Tian, Bing; Zhao, Yingxin; Vergara, Leoncio; Sabree, Aqeeb; Iwanaszko, Marta; Lipniacki, Tomasz; Brasier, Allan R.; Kimmel, Marek (2014)
      We present an integrated dynamical cross-talk model of the epithelial innate immune reponse (IIR) incorporating RIG-I and TLR3 as the two major pattern recognition receptors (PRR) converging on the RelA and IRF3 transcriptional ...
    • Dynamic shrinkage processes 

      Kowal, Daniel R.; Matteson, David S.; Ruppert, David (2019)
      We propose a novel class of dynamic shrinkage processes for Bayesian time series and regression analysis. Building on a global–local framework of prior construction, in which continuous scale mixtures of Gaussian distributions ...