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52. Fetal fraction amplification within NIPS enables detection of clinically relevant genome-wide copy-number-variants to 1Mb resolution

Author

Acevedo, Ashley, primary, Cox, Samuel, additional, LaBreche, Heather, additional, Alfaro, Maria, additional, Pierson, Summer, additional, Hancock, Susan, additional, Moyer, Krista, additional, Yeleswarapu, Sri Jyothsna, additional, Hong, Sun Hae, additional, Haas, Kevin, additional, and Muzzey, Dale, additional

Published
2022
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60. Fairness Measures for Machine Learning in Finance

Author

Das, Sanjiv, primary, Donini, Michele, additional, Gelman, Jason, additional, Haas, Kevin, additional, Hardt, Mila, additional, Katzman, Jared, additional, Kenthapadi, Krishnaram, additional, Larroy, Pedro, additional, Yilmaz, Pinar, additional, and Zafar, Muhammad Bilal, additional

Published
2021
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61. Amazon SageMaker Clarify: Machine Learning Bias Detection and Explainability in the Cloud

Author

Hardt, Michaela, primary, Chen, Xiaoguang, additional, Cheng, Xiaoyi, additional, Donini, Michele, additional, Gelman, Jason, additional, Gollaprolu, Satish, additional, He, John, additional, Larroy, Pedro, additional, Liu, Xinyu, additional, McCarthy, Nick, additional, Rathi, Ashish, additional, Rees, Scott, additional, Siva, Ankit, additional, Tsai, ErhYuan, additional, Vasist, Keerthan, additional, Yilmaz, Pinar, additional, Zafar, Muhammad Bilal, additional, Das, Sanjiv, additional, Haas, Kevin, additional, Hill, Tyler, additional, and Kenthapadi, Krishnaram, additional

Published
2021
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64. Numerical Solutions of the Time-Dependent Schr�dinger Equation

Author

Haas, Kevin and Haas, Kevin

Abstract

The behavior of particles at the atomic level is dictated by quantum theory and must satisfy the Schrodinger equation, which treats particles as waves. These waves can be localized to a region in space by forming a wave packet. Analytical solutions of the Schrodinger equation may be obtained for specific situations, but the majority of quantum systems require numerical solutions. The Runge-Kutta method and the finite difference method are both numerical techniques used to simulate the behavior of quantum particles localized in wave packets of different shapes. Analysis of the quantum behavior shows similarities to classical behavior in terms of periodicity and motion. Properties unique to quantum theory also emerge such as interference, dispersion, and discretization. The simulations are run with Gaussian, hyperbolic secant squared, and square wave packets. Potentials in the simulations are the potentials due to gravity and free space, as well as the hyperbolic step potential.

Published
2021

68. Early Engagement and Vertically-Integrated Learning: Developing Whole-Person and Entrepreneurially-Minded Engineers.

Author

Zerbe, Ellen, Amekudzi-kennedy, Adjo A., Haas, Kevin, Burns, Susan E., Tien, Iris, Watkins, Kari, Koon, John H., Simon, Robert Benjamin, Taylor, John E., Webster, Donald, Grubert, Emily, and Rosenstein, Lisa Gail

Subjects
INTEGRATED learning systems, CIVIL engineering education, STUDENT engagement, EDUCATIONAL technology, INTERACTIVE learning
Abstract

Nationwide, 40-60% of engineering students leave their engineering major, with women and underrepresented minorities doing so at higher rates. In the School of Civil and Environmental Engineering (CEE) at Georgia Institute of Technology in recent years, 50% of students have changed to a new major in their first two years, while roughly the same numbers have entered the program simultaneously from other engineering majors. Similar departure rates are seen in programs across the country. Reversing attrition from civil and environmental engineering is a critical need for addressing society's grand challenges effectively. This attrition is due in part to limited discipline-focused engagement until students' junior year. To address this, the School of CEE is providing early engagement in authentic engineering experiences and giving students the opportunity to reflect on these experiences to solidify their CEE identity. We are creating opportunities early and across the curriculum for our students to engage in interactive problembased learning centered on the global grand challenges, while developing their technical and computational knowledge, skills, and mindset. We are also equipping our students to work effectively in teams and to apply story-driven learning to become more reflective learners. This takes the form of a "spine" of vertically-integrated courses. These innovations in the curriculum contribute to the development of holistic engineers with an enhanced sense of belonging to the discipline and a strengthened self-concept as a civil or environmental engineer. The initiative also supports the development of entrepreneurially minded engineers, that is, engineers who know how to create value for society and do so habitually. We outline these innovations in each of the four vertically-integrated courses, while emphasizing the techniques applied and how they connect to create a cohesive curriculum that engages students as engineers from the first year. [ABSTRACT FROM AUTHOR]

Published
2022

74. Rip currents with varying gap widths

Author

Kennedy, Andrew B., Zhang, Yang, and Haas, Kevin A.

Subjects
Drift -- Influence, Hydrodynamics -- Research, Hydrofoil boats -- Hydrodynamics, Hydrofoil boats -- Research, Engineering and manufacturing industries, Science and technology
Abstract

The behavior of rip currents with changing bar and gap lengths was tested in a series of laboratory experiments using video-tracked floating drifters. Qualitatively, currents showed strong differences in overall character with changing topography. As narrow gaps became wider, the circulation tended to first travel parallel to the shoreline instead of immediately offshore, although strong offshore-directed flows were found for all topographies. Quantitatively, the width of the rip neck was found to increase slowly when compared to the increasing width of the rip channel. Maximum offshore and longshore velocities showed little dependence on bar or gap lengths, and were found to scale well with the predicted rate of generation of circulation. Finally, volumetric offshore flow rates through the rip channel showed no proportionality with the bar length as predicted by the mass transport hypothesis of rip current strength. DOI: 10.1061/(ASCE)0733-950X(2008)134:1(61) CE Database subject headings: Rip currents; Topography; Drift; Water circulation; Return flow.

Published
2008

75. Video measurements of large-scale flows in a laboratory wave Basin

Author

Haas, Kevin A., Kennedy, Andrew B., and Sapp, Brian K.

Subjects
Water waves -- Properties, Basins (Geology) -- Models, Experimental studies -- Methods, Hydrodynamics -- Research, Hydrofoil boats -- Hydrodynamics, Hydrofoil boats -- Research, Engineering and manufacturing industries, Science and technology
Abstract

This paper describes nonintrusive optical techniques to measure large-scale O(10 m x 10 m) flows in a laboratory wave basin. Numerous drifters with weak positive flotation are tracked discretely and automatically using a video camera mounted near the laboratory ceiling. Processed drifter tracks are used for dense estimates of mean surface currents over the visible area. Examination of the drifter tracks also shows that waves are imaged and therefore basic wave properties may also be estimated, although this requires some further assumptions. These video based flow observations are presumed to have less precision than in situ measurements; however, the density of measurements from the video far exceeds that which can be obtained using fixed instruments, providing the method's major advantage. DOI: 10.1061/(ASCE)0733-950X(2008)134:1(12) CE Database subject headings: Wave measurement: Basins; Laboratory tests; Velocity.

Published
2008

76. Statistical Learning Theory of Protein Dynamics

Author

Haas, Kevin

Subjects
Chemical engineering, Chemistry, Computer science, Dynamics, Entropy, FRET, Machine Learning, Optimization, Protein
Abstract

This thesis establishes a comprehensive statistical learning framework to extract from single-molecule Forster resonance energy transfer (smFRET) experiments the potential of mean force and diffusion coefficient that characterize the measured protein dynamics. To enable a fundamental understanding of how deterministic mean force and stochastic diffusion combine to affect conformational transitions, we first developed a general trajectory entropy functional for over-damped Langevin dynamics. This functional allows for evaluation of the information content in the dynamic trajectory ensemble. Next, we present a path integral statistical learning approach to infer the hidden trajectory from the data of smFRET measurements of protein dynamics. This methodology also yields a likelihood for the parameters of the equation of motion that can then be optimized to deduce the most probable profiles of mean force and diffusion coefficient for describing the observed dynamical data. To provide a solid foundation for regularizing the parameters derived from experimental trajectories through statistical learning, the Fisher information metric of Langevin dynamics trajectories is derived via an eigenbasis representation of the time propagator. Using this Fisher information, the maximum entropy distributions for various kinetic constraints can derived for the first time. Finally the knowledge of trajectory entropy and likelihood of smFRET measurements is combined to present a new calculus of representing the Information Thermodynamics in statistical learning. Bayesian analysis using this methodology shows that in the balance between entropy, likelihood, and fluctuations given at the critical point in the phase diagram of information, the ideal force profile and diffusion can be determined from smFRET experiments in a systematic and robust manner.

Published
2013

78. REFINING RADIAL EBUS: CHARACTERIZING IMAGING INTERPRETATION AND PROPOSAL FOR A STANDARDIZED GRADING SYSTEM

Author

Abbasi, Mohammed, primary, Moulton, Nathaniel, additional, Ahmad, Danish, additional, Burks, Allen Cole, additional, Chenna, Praveen, additional, Haas, Kevin, additional, Loiselle, Andrea, additional, Mekhaiel, Essam, additional, Pilli, Suchitra, additional, Sadoughi, Ali, additional, Patel, Tej, additional, and Chen, Alexander, additional

Published
2020
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79. Seizure‐onset regions demonstrate high inward directed connectivity during resting‐state: An SEEG study in focal epilepsy

Author

Narasimhan, Saramati, primary, Kundassery, Keshav B., additional, Gupta, Kanupriya, additional, Johnson, Graham W., additional, Wills, Kristin E., additional, Goodale, Sarah E., additional, Haas, Kevin, additional, Rolston, John D., additional, Naftel, Robert P., additional, Morgan, Victoria L., additional, Dawant, Benoit M., additional, González, Hernán F. J., additional, and Englot, Dario J., additional

Published
2020
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80. Contributors

Author

Aboudara, Matthew, Acho, Megan, Akulian, Jason, Argento, A. Christine, Aslam, Waqas, Beattie, Jason, Burks, Allen Cole, Chen, Alexander, Cheng, George Z., Davidson, Kevin Ross, Desai, Neeraj R, Dorry, Michael, Duran, Crystal Ann, French, Kim D, Giovacchini, Coral X., Gregor, Alexander, Haas, Kevin, Inage, Terunaga, Ishiwata, Tsukasa, Islam, Shaheen, Kessler, Edward, Kovitz, Kevin L, Lamb, Carla R, Lazarus, Donald R, Lee, Pyng, Mahmood, Kamran, Majid, Adnan, Maldonado, Fabien, Miller, Russell Jason, Mudambi, Lakshmi, Ost, David E, Pannu, Jasleen, Phanthok, Tenzing, Rickman, Otis B, Semaan, Roy, Sheshadri, Ajay, Shojaee, Samira, Smith, Sean B., Wahidi, Momen M, Yarmus, Lonny, Yasufuku, Kazuhiro, and Alraiyes, Abdul Hamid

Published
2023
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99. Erratum : De Novo Mutations in Synaptic Transmission Genes Including DNM1 Cause Epileptic Encephalopathies (American Journal of Human Genetics (2014) 95(4) (360–370)(S0002929714003838)(10.1016/j.ajhg.2014.08.013))

Author

Appenzeller, Silke, Balling, Rudi, Barisic, Nina, Baulac, Stéphanie, Caglayan, Hande, Craiu, Dana, De Jonghe, Peter, Depienne, Christel, Dimova, Petia, Djémié, Tania, Gormley, Padhraig, Guerrini, Renzo, Helbig, Ingo, Hjalgrim, Helle, Hoffman-Zacharska, Dorota, Jähn, Johanna A., Klein, Karl Martin, Koeleman, Bobby, Komarek, Vladimir, Krause, Roland, Kuhlenbäumer, Gregor, Leguern, Eric, Lehesjoki, Anna-Elina, Lemke, Johannes R., Lerche, Holger, Linnankivi, Tarja, Marini, Carla, May, Patrick, Møller, Rikke S., Muhle, Hiltrud, Pal, Deb, Palotie, Aarno, Pendziwiat, Manuela, Robbiano, Angela, Roelens, Filip, Rosenow, Felix, Selmer, Kaja, Serratosa, Jose M., Sisodiya, Sanjay M., Stephani, Ulrich, Sterbova, Katalin, Striano, Pasquale, Suls, Arvid, Talvik, Tiina, von Spiczak, Sarah, Weber, Yvonne G., Weckhuysen, Sarah, Zara, Federico, Abou-Khalil, Bassel, Alldredge, Brian K., Andermann, Eva, Andermann, Frederick, Amrom, Dina, Bautista, Jocelyn F., Berkovic, Samuel F., Bluvstein, Judith, Boro, Alex, Cascino, Gregory, Consalvo, Damian, Crumrine, Patricia, Devinsky, Orrin, Dlugos, Dennis, Epstein, Michael P., Fiol, Miguel, Fountain, Nathan B., French, Jacqueline, Friedman, Daniel, Geller, Eric B., Glauser, Tracy, Glynn, Simon, Haas, Kevin, Haut, Sheryl R., Hayward, Jean, Helmers, Sandra L., Joshi, Sucheta, Kanner, Andres, Kirsch, Heidi E., Knowlton, Robert C., Kossoff, Eric H., Kuperman, Rachel, Kuzniecky, Ruben, Lowenstein, Daniel H., McGuire, Shannon M., Motika, Paul V., Novotny, Edward J., Ottman, Ruth, Paolicchi, Juliann M., Parent, Jack, Park, Kristen, Poduri, Annapurna, Sadleir, Lynette G., Scheffer, Ingrid E., Shellhaas, Renée A, Sherr, Elliott, Shih, Jerry J., Singh, Rani, Sirven, Joseph, Smith, Michael C., Sullivan, Joe, Thio, Liu Lin, Venkat, Anu, Vining, Eileen P. G., Von Allmen, Gretchen K., Weisenberg, Judith L., Widdess-Walsh, Peter, Winawer, Melodie R., Allen, Andrew S., Cossette, Patrick, Delanty, Norman, Eichler, Evan E., Goldstein, David B., Han, Yujun, Heinzen, Erin L., Johnson, Michael R., Marson, Anthony G., Mefford, Heather C., Nieh, Sahar Esmaeeli, O'Brien, Terence J., Petrou, Stephen, Petrovski, Slavé, and Ruzzo, Elizabeth K.

Subjects
Genetics, Genetics(clinical)
Abstract

(The American Journal of Human Genetics 95, 360–370; October 2, 2014) In the list of consortium members for the Epilepsy Phenome/Genome Project, member Dina Amrom's name was misspelled as Amron. The authors regret the error.

Published
2017

100. Application of rare variant transmission disequilibrium tests to epileptic encephalopathy trio sequence data

Author

Allen, Andrew S, Berkovic, Samuel F, Bridgers, Joshua, Cossette, Patrick, Dlugos, Dennis, Epstein, Michael P, Glauser, Tracy, Goldstein, David B, Heinzen, Erin L, Jiang, Yu, Johnson, Michael R, Kuzniecky, Ruben, Lowenstein, Daniel H, Marson, Anthony G, Mefford, Heather C, O'Brien, Terence J, Ottman, Ruth, Petrou, Steven, Petrovski, Slave, Poduri, Annapurna, Ren, Zhong, Scheffer, Ingrid E, Sherr, Elliott, Wang, Quanli, Balling, Rudi, Barisic, Nina, Baulac, Stephanie, Caglayan, Hande, Craiu, Dana, De Jonghe, Peter, Depienne, Christel, Guerrini, Renzo, Helbig, Ingo, Hjalgrim, Helle, Hoffman-Zacharska, Dorota, Jaehn, Johanna, Klein, Karl Martin, Koeleman, Bobby, Komarek, Vladimir, Krause, Roland, Leguern, Eric, Lehesjoki, Anna-Elina, Lemke, Johannes R, Lerche, Holger, Linnankivi, Tarja, Marini, Carla, May, Patrick, Moller, Rikke S, Muhle, Hiltrud, Pal, Deb, Palotie, Aarno, Rosenow, Felix, Selmer, Kaja, Serratosa, Jose M, Sisodiya, Sanjay, Stephani, Ulrich, Sterbova, Katalin, Striano, Pasquale, Suls, Arvid, Talvik, Tiina, von Spiczak, Sarah, Weber, Yvonne, Weckhuysen, Sarah, Zara, Federico, Abou-Khalil, Bassel, Alldredge, Brian K, Amrom, Dina, Andermann, Eva, Andermann, Frederick, Bautista, Jocelyn F, Bluvstein, Judith, Cascino, Gregory D, Consalvo, Damian, Crumrine, Patricia, Devinsky, Orrin, Fiol, Miguel E, Fountain, Nathan B, French, Jacqueline, Friedman, Daniel, Haas, Kevin, Haut, Sheryl R, Hayward, Jean, Joshi, Sucheta, Kanner, Andres, Kirsch, Heidi E, Kossoff, Eric H, Kuperman, Rachel, McGuire, Shannon M, Motika, Paul V, Novotny, Edward J, Paolicchi, Juliann M, Parent, Jack, Park, Kristen, Shellhaas, Renee A, Sirven, Joseph, Smith, Michael C, Sullivan, Joseph, Thio, Liu Lin, Venkat, Anu, Vining, Eileen PG, Von Allmen, Gretchen K, Weisenberg, Judith L, Widdess-Walsh, Peter, Winawer, Melodie R, Consortium, Epi4K, Consortium, EuroEPINOMICS-RES, Project, Epilepsy Phenome Genome, Epi4K Consortium, EuroEPINOMICS- RES Consortium, and Epilepsy Phenome Genome Project

Subjects
0301 basic medicine, Linkage disequilibrium, medicine.medical_specialty, genetic structures, Population, Disequilibrium, Short Report, Genome-wide association study, Biology, Bioinformatics, Linkage Disequilibrium, 03 medical and health sciences, 0302 clinical medicine, Gene Frequency, Epilepsy Phenome/Genome Project, medicine, Genetics, Journal Article, Humans, Genetics(clinical), Genetic Predisposition to Disease, education, Genetics (clinical), education.field_of_study, Polymorphism, Genetic, Lennox Gastaut Syndrome, Infant, Transmission disequilibrium test, medicine.disease, Multicenter Study, Chemistry, 030104 developmental biology, Medical genetics, Human medicine, medicine.symptom, Spasms, Infantile, 030217 neurology & neurosurgery, Lennox–Gastaut syndrome, Genome-Wide Association Study
Abstract

The classic epileptic encephalopathies, including infantile spasms (IS) and Lennox-Gastaut syndrome (LGS), are severe seizure disorders that usually arise sporadically. De novo variants in genes mainly encoding ion channel and synaptic proteins have been found to account for over 15% of patients with IS or LGS. The contribution of autosomal recessive genetic variation, however, is less well understood. We implemented a rare variant transmission disequilibrium test (TDT) to search for autosomal recessive epileptic encephalopathy genes in a cohort of 320 outbred patient-parent trios that were generally prescreened for rare metabolic disorders. In the current sample, our rare variant transmission disequilibrium test did not identify individual genes with significantly distorted transmission over expectation after correcting for the multiple tests. While the rare variant transmission disequilibrium test did not find evidence of a role for individual autosomal recessive genes, our current sample is insufficiently powered to assess the overall role of autosomal recessive genotypes in an outbred epileptic encephalopathy population.

Published
2017

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