Search Results - "Harry Hochheiser"

A qualitative research framework for the design of user-centered displays of explanations for machine learning model predictions in healthcare by Barda, Amie J, Horvat, Christopher M, Hochheiser, Harry

“…There is an increasing interest in clinical prediction tools that can achieve high prediction accuracy and provide explanations of the factors leading to…”
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The Monarch Initiative: an integrative data and analytic platform connecting phenotypes to genotypes across species by Mungall, Christopher J, McMurry, Julie A, Köhler, Sebastian, Balhoff, James P, Borromeo, Charles, Brush, Matthew, Carbon, Seth, Conlin, Tom, Dunn, Nathan, Engelstad, Mark, Foster, Erin, Gourdine, J P, Jacobsen, Julius O B, Keith, Dan, Laraway, Bryan, Lewis, Suzanna E, NguyenXuan, Jeremy, Shefchek, Kent, Vasilevsky, Nicole, Yuan, Zhou, Washington, Nicole, Hochheiser, Harry, Groza, Tudor, Smedley, Damian, Robinson, Peter N, Haendel, Melissa A

“…The correlation of phenotypic outcomes with genetic variation and environmental factors is a core pursuit in biology and biomedicine. Numerous challenges…”
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Systematic discovery of the functional impact of somatic genome alterations in individual tumors through tumor-specific causal inference by Cai, Chunhui, Cooper, Gregory F, Lu, Kevin N, Ma, Xiaojun, Xu, Shuping, Zhao, Zhenlong, Chen, Xueer, Xue, Yifan, Lee, Adrian V, Clark, Nathan, Chen, Vicky, Lu, Songjian, Chen, Lujia, Yu, Liyue, Hochheiser, Harry S, Jiang, Xia, Wang, Q Jane, Lu, Xinghua

“…Cancer is mainly caused by somatic genome alterations (SGAs). Precision oncology involves identifying and targeting tumor-specific aberrations resulting from…”
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Prescription patterns relevant to young people with epilepsy of childbearing potential by Harrison, Elizabeth I., Kazmerski, Traci M., Hochheiser, Harry S., Sogawa, Yoshimi, Kirkpatrick, Laura A.

“…•Of 1525 female adolescents with epilepsy, only 41 % were prescribed folic acid.•24 % of those on enzyme-inducers were at risk of contraceptive failure in this…”
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A Whole-Genome Analysis Framework for Effective Identification of Pathogenic Regulatory Variants in Mendelian Disease by Smedley, Damian, Schubach, Max, Jacobsen, Julius O.B., Köhler, Sebastian, Zemojtel, Tomasz, Spielmann, Malte, Jäger, Marten, Hochheiser, Harry, Washington, Nicole L., McMurry, Julie A., Haendel, Melissa A., Mungall, Christopher J., Lewis, Suzanna E., Groza, Tudor, Valentini, Giorgio, Robinson, Peter N.

“…The interpretation of non-coding variants still constitutes a major challenge in the application of whole-genome sequencing in Mendelian disease, especially…”
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An implementation framework to improve the transparency and reproducibility of computational models of infectious diseases by Pokutnaya, Darya, Childers, Bruce, Arcury-Quandt, Alice E, Hochheiser, Harry, Van Panhuis, Willem G

“…Computational models of infectious diseases have become valuable tools for research and the public health response against epidemic threats. The…”
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A retrospective textual analysis of sexual and reproductive health counseling for adolescent and young adult people with epilepsy of gestational capacity by I Harrison, Elizabeth, Kirkpatrick, Laura A, Hochheiser, Harry S, Sogawa, Yoshimi, Kazmerski, Traci M

“…•Of 971 patients with epilepsy, 38% never had reproductive health counseling documented.•Nearly half of patient-years (49%) had no mention of reproductive…”
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DeepPhe: A Natural Language Processing System for Extracting Cancer Phenotypes from Clinical Records by Savova, Guergana K, Tseytlin, Eugene, Finan, Sean, Castine, Melissa, Miller, Timothy, Medvedeva, Olga, Harris, David, Hochheiser, Harry, Lin, Chen, Chavan, Girish, Jacobson, Rebecca S

“…Precise phenotype information is needed to understand the effects of genetic and epigenetic changes on tumor behavior and responsiveness. Extraction and…”
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Use of Natural Language Processing to Identify Sexual and Reproductive Health Information in Clinical Text by Harrison, Elizabeth I, Kirkpatrick, Laura A, Harrison, Patrick W, Kazmerski, Traci M, Sogawa, Yoshimi, Hochheiser, Harry S

“…This study aimed to enable clinical researchers without expertise in natural language processing (NLP) to extract and analyze information about sexual and…”
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Inter-rater reliability of the infectious disease modeling reproducibility checklist (IDMRC) as applied to COVID-19 computational modeling research by Pokutnaya, Darya, Van Panhuis, Willem G, Childers, Bruce, Hawkins, Marquis S, Arcury-Quandt, Alice E, Matlack, Meghan, Carpio, Kharlya, Hochheiser, Harry

“…Infectious disease computational modeling studies have been widely published during the coronavirus disease 2019 (COVID-19) pandemic, yet they have limited…”
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Rationale and Design of the Genomic Research in Alpha-1 Antitrypsin Deficiency and Sarcoidosis (GRADS) Study. Sarcoidosis Protocol by Moller, David R, Koth, Laura L, Maier, Lisa A, Morris, Alison, Drake, Wonder, Rossman, Milton, Leader, Joseph K, Collman, Ronald G, Hamzeh, Nabeel, Sweiss, Nadera J, Zhang, Yingze, O'Neal, Scott, Senior, Robert M, Becich, Michael, Hochheiser, Harry S, Kaminski, Naftali, Wisniewski, Stephen R, Gibson, Kevin F

“…Sarcoidosis is a systemic disease characterized by noncaseating granulomatous inflammation with tremendous clinical heterogeneity and uncertain pathobiology…”
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Navigating the Phenotype Frontier: The Monarch Initiative by McMurry, Julie A, Köhler, Sebastian, Washington, Nicole L, Balhoff, James P, Borromeo, Charles, Brush, Matthew, Carbon, Seth, Conlin, Tom, Dunn, Nathan, Engelstad, Mark, Foster, Erin, Gourdine, Jean-Philippe, Jacobsen, Julius O B, Keith, Daniel, Laraway, Bryan, Xuan, Jeremy Nguyen, Shefchek, Kent, Vasilevsky, Nicole A, Yuan, Zhou, Lewis, Suzanna E, Hochheiser, Harry, Groza, Tudor, Smedley, Damian, Robinson, Peter N, Mungall, Christopher J, Haendel, Melissa A

“…The principles of genetics apply across the entire tree of life. At the cellular level we share biological mechanisms with species from which we diverged…”
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Leveraging Eye Tracking to Prioritize Relevant Medical Record Data: Comparative Machine Learning Study by King, Andrew J, Cooper, Gregory F, Clermont, Gilles, Hochheiser, Harry, Hauskrecht, Milos, Sittig, Dean F, Visweswaran, Shyam

“…Electronic medical record (EMR) systems capture large amounts of data per patient and present that data to physicians with little prioritization. Without…”
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Home-care nurses' perceptions of unmet information needs and communication difficulties of older patients in the immediate post-hospital discharge period by Romagnoli, Katrina M, Handler, Steven M, Ligons, Frank M, Hochheiser, Harry

“…To understand home-care nurses' perceptions of the post-hospitalisation information needs and communication problems of older patients, and how these factors…”
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A Bayesian System to Detect and Track Outbreaks of Influenza-Like Illnesses Including Novel Diseases: Algorithm Development and Validation by Aronis, John M, Ye, Ye, Espino, Jessi, Hochheiser, Harry, Michaels, Marian G, Cooper, Gregory F

“…Background  The early identification of outbreaks of both known and novel influenza-like illnesses (ILIs) is an important public health problem. Objective…”
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Dynamic Query Tools for Time Series Data Sets: Timebox Widgets for Interactive Exploration by Hochheiser, Harry, Shneiderman, Ben

“…Timeboxes are rectangular widgets that can be used in direct-manipulation graphical user interfaces (GUIs) to specify query constraints on time series data…”
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Scenario design for infectious disease projections: Integrating concepts from decision analysis and experimental design by Runge, Michael C., Shea, Katriona, Howerton, Emily, Yan, Katie, Hochheiser, Harry, Rosenstrom, Erik, Probert, William J.M., Borchering, Rebecca, Marathe, Madhav V., Lewis, Bryan, Venkatramanan, Srinivasan, Truelove, Shaun, Lessler, Justin, Viboud, Cécile

“…Across many fields, scenario modeling has become an important tool for exploring long-term projections and how they might depend on potential interventions and…”
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Use of Model Organism and Disease Databases to Support Matchmaking for Human Disease Gene Discovery by Mungall, Christopher J., Washington, Nicole L., Nguyen-Xuan, Jeremy, Condit, Christopher, Smedley, Damian, Köhler, Sebastian, Groza, Tudor, Shefchek, Kent, Hochheiser, Harry, Robinson, Peter N., Lewis, Suzanna E., Haendel, Melissa A.

“…ABSTRACT The Matchmaker Exchange application programming interface (API) allows searching a patient's genotypic or phenotypic profiles across clinical sites,…”
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Disease insights through cross-species phenotype comparisons by Haendel, Melissa A., Vasilevsky, Nicole, Brush, Matthew, Hochheiser, Harry S., Jacobsen, Julius, Oellrich, Anika, Mungall, Christopher J., Washington, Nicole, Köhler, Sebastian, Lewis, Suzanna E., Robinson, Peter N., Smedley, Damian

“…New sequencing technologies have ushered in a new era for diagnosis and discovery of new causative mutations for rare diseases. However, the sheer numbers of…”
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The US COVID-19 and Influenza Scenario Modeling Hubs: Delivering long-term projections to guide policy by Loo, Sara L., Howerton, Emily, Contamin, Lucie, Smith, Claire P., Borchering, Rebecca K., Mullany, Luke C., Bents, Samantha, Carcelen, Erica, Jung, Sung-mok, Bogich, Tiffany, van Panhuis, Willem G., Kerr, Jessica, Espino, Jessi, Yan, Katie, Hochheiser, Harry, Runge, Michael C., Shea, Katriona, Lessler, Justin, Viboud, Cécile, Truelove, Shaun

“…Between December 2020 and April 2023, the COVID-19 Scenario Modeling Hub (SMH) generated operational multi-month projections of COVID-19 burden in the US to…”
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