Reid Ewing, Guang Tian, JP Goates, Ming Zhang, Michael J. Greenwald, Alex Joyce, John C. Kircher, William H. Greene,
This study pools household travel and built environment data from 15 diverse US regions to produce travel models with more external validity than any to date. It uses a large number of consistently defined built environmental variables to predict five household travel outcomes – car trips, walk trips, bike trips, transit trips and vehicle miles travelled (VMT). It employs multilevel modelling to account for the dependence of households in the same region on shared regional characteristics and estimates ‘ ...
Tópico(s): Impact of Light on Environment and Health
2014 - SAGE Publishing | Urban Studies
Candace C. Liu, Noah F. Greenwald, Alex Kong, Erin McCaffrey, Ke Xuan Leow, Dunja Mrdjen, Bryan J. Cannon, Josef Lorenz Rumberger, Sricharan Reddy Varra, Michael Angelo,
Abstract While technologies for multiplexed imaging have provided an unprecedented understanding of tissue composition in health and disease, interpreting this data remains a significant computational challenge. To understand the spatial organization of tissue and how it relates to disease processes, imaging studies typically focus on cell-level phenotypes. However, images can capture biologically important objects that are outside of cells, such as the extracellular matrix. Here, we describe a ...
Tópico(s): AI in cancer detection
2023 - Nature Portfolio | Nature Communications
Erin McCaffrey, Michele Donato, Leeat Keren, Zhenghao Chen, Alea Delmastro, Megan B. Fitzpatrick, Sanjana Gupta, Noah F. Greenwald, Alex Baranski, William D. Graf, Rashmi Kumar, Marc Bossé, Christine Camacho Fullaway, Pratista K. Ramdial, Erna Forgó, Vladimir Jojic, David Van Valen, Smriti Mehra, Shabaana A. Khader, Sean C. Bendall, Matt van de Rijn, Daniel Kalman, Deepak Kaushal, Robert L. Hunter, Niaz Banaei, Adrie J. C. Steyn, Purvesh Khatri, Michael Angelo,
Abstract Tuberculosis (TB) in humans is characterized by formation of immune-rich granulomas in infected tissues, the architecture and composition of which are thought to affect disease outcome. However, our understanding of the spatial relationships that control human granulomas is limited. Here, we used multiplexed ion beam imaging by time of flight (MIBI-TOF) to image 37 proteins in tissues from patients with active TB. We constructed a comprehensive atlas that maps 19 cell subsets across 8 spatial ...
Tópico(s): Sarcoidosis and Beryllium Toxicity Research
2022 - Nature Portfolio | Nature Immunology
D. P. Schissel, G. Abla, S. Flanagan, M. Greenwald, X. Lee, Alex Romosan, Arie Shoshani, J. Stillerman, J. C. Wright,
For scientific research, it is not the mere existence of experimental or simulation data that is important, but the ability to make use of it. This paper presents the results of research to create a data model, infrastructure, and a set of tools that support data tracking, cataloging, and integration across a broad scientific domain. The system is intended to document workflow and data provenance in the widest sense. Combining research on integrated metadata, provenance, and ontology information ...
Tópico(s): Advanced Database Systems and Queries
2014 - Elsevier BV | Fusion Engineering and Design
Noah F. Greenwald, Geneva Miller, Erick Moen, Alex Kong, Adam Kagel, Thomas Dougherty, Christine Camacho Fullaway, Brianna J. McIntosh, Ke Xuan Leow, Morgan Schwartz, Cole Pavelchek, Sunny Cui, Isabella Camplisson, Omer Bar-Tal, Jaiveer Singh, Mara Fong, Gautam Chaudhry, Zion Abraham, Jackson Moseley, Shiri Warshawsky, Erin Soon, Shirley Greenbaum, Tyler Risom, Travis J. Hollmann, Sean C. Bendall, Leeat Keren, William D. Graf, Michael Angelo, David Van Valen,
A principal challenge in the analysis of tissue imaging data is cell segmentation-the task of identifying the precise boundary of every cell in an image. To address this problem we constructed TissueNet, a dataset for training segmentation models that contains more than 1 million manually labeled cells, an order of magnitude more than all previously published segmentation training datasets. We used TissueNet to train Mesmer, a deep-learning-enabled segmentation algorithm. We demonstrated that Mesmer ...
Tópico(s): Single-cell and spatial transcriptomics
2021 - Nature Portfolio | Nature Biotechnology
Erin McCaffrey, Michele Donato, Leeat Keren, Zhenghao Chen, Alea Delmastro, Megan B. Fitzpatrick, Sanjana Gupta, Noah F. Greenwald, Alex Baranski, William D. Graf, Rashmi Kumar, Marc Bossé, Christine Camacho Fullaway, Pratista K. Ramdial, Erna Forgó, Vladimir Jojic, David Van Valen, Smriti Mehra, Shabaana A. Khader, Sean C. Bendall, Matt van de Rijn, Daniel Kalman, Deepak Kaushal, Robert L. Hunter, Niaz Banaei, Adrie J. C. Steyn, Purvesh Khatri, Michael Angelo,
Tópico(s): Infectious Diseases and Tuberculosis
2022 - Nature Portfolio | Nature Immunology
Idan Ashur, Alex Brandis, Moshe Greenwald, Yahel Vakrat-Haglili, V. Rosenbach‐Belkin, Hugo Scheer, Avigdor Scherz,
Mn-superoxide dismutase (Mn-SOD), which protects the cell from the toxic potential of superoxide radicals (O2-•), is the only type of SOD which resides in eukaryotic mitochondria. Up-to-date, the exact catalytic mechanism of the enzyme and the relationship between substrate moieties and the ligands within the active site microenvironment are still not resolved. Here, we set out to explore the possible involvement of hydroperoxyl radicals (•OOH) in the catalytic dismutaion by following the interplay ...
Tópico(s): Free Radicals and Antioxidants
2003 - American Chemical Society | Journal of the American Chemical Society
Tyler Risom, David R. Glass, Inna Averbukh, Candace C. Liu, Alex Baranski, Adam Kagel, Erin McCaffrey, Noah F. Greenwald, Belén Rivero‐Gutiérrez, Siri H. Strand, Sushama Varma, Alex Kong, Leeat Keren, Sucheta Srivastava, Chunfang Zhu, Zumana Khair, Deborah J. Veis, Katherine DeSchryver, Sujay Vennam, Carlo C. Maley, E. Shelley Hwang, Jeffrey R. Marks, Sean C. Bendall, Graham A. Colditz, Robert B. West, Michael Angelo,
Ductal carcinoma in situ (DCIS) is a pre-invasive lesion that is thought to be a precursor to invasive breast cancer (IBC). To understand the changes in the tumor microenvironment (TME) accompanying transition to IBC, we used multiplexed ion beam imaging by time of flight (MIBI-TOF) and a 37-plex antibody staining panel to interrogate 79 clinically annotated surgical resections using machine learning tools for cell segmentation, pixel-based clustering, and object morphometrics. Comparison of normal ...
Tópico(s): Single-cell and spatial transcriptomics
2022 - Cell Press | Cell
Michael A. Gooden, Andrew T. Gentile, Joseph L. Mills, Scott S. Berman, Christopher Demas, Kurt R. Reinke, Glenn C. Hunter, Alex Westerband, Daniel P. Greenwald,
Background The extent of tissue loss amenable to primary healing after revascularization is unknown. Salvage of limbs with large soft-tissue defects with exposed tendon, joint, or bone lies beyond the limits of conventional techniques. We report our results using free tissue transfer as an adjunct to lower extremity vascular reconstruction in patients with complex ischemic or infected wounds. Methods Retrospective chart review of patient and wound characteristics. Results From January 1992 to June ...
Tópico(s): Peripheral Artery Disease Management
1997 - Elsevier BV | The American Journal of Surgery
Shirley Greenbaum, Inna Averbukh, Erin Soon, Gabrielle Rizzuto, Alex Baranski, Noah F. Greenwald, Adam Kagel, Marc Bossé, Eleni A. Greenwood, Zumana Khair, Shirley Kwok, Shiri Warshawsky, Hadeesha Piyadasa, Mako Goldston, Angie Spence, Geneva Miller, Morgan Schwartz, Will Graf, David Van Valen, Virginia D. Winn, Travis J. Hollmann, Leeat Keren, Matt van de Rijn, Michael Angelo,
Abstract Beginning in the first trimester, fetally derived extravillous trophoblasts (EVTs) invade the uterus and remodel its spiral arteries, transforming them into large, dilated blood vessels. Several mechanisms have been proposed to explain how EVTs coordinate with the maternal decidua to promote a tissue microenvironment conducive to spiral artery remodelling (SAR) 1–3 . However, it remains a matter of debate regarding which immune and stromal cells participate in these interactions and how this ...
Tópico(s): Birth, Development, and Health
2023 - Nature Portfolio | Nature
Joan A. Reid, Michael T. Baglivio, Alex R. Piquero, Mark A. Greenwald, Nathan Epps,
The objective of this study was to analytically identify risk profiles for juvenile human trafficking (JHT) based on adverse childhood experiences (ACEs) and health risk behaviors. First, the study examined which types of ACEs and health risk behaviors were more prevalent among trafficked adolescents using a sample of 913 male and female juvenile-justice-involved adolescents with suspected or verified JHT abuse reports documented between 2009 and 2015 and a comparison group (matched by age, gender, ...
Tópico(s): Sexuality, Behavior, and Technology
2018 - American Psychological Association | American Journal of Orthopsychiatry
Felix J. Hartmann, Dunja Mrdjen, Erin McCaffrey, David R. Glass, Noah F. Greenwald, Anusha Bharadwaj, Zumana Khair, Sanne G. S. Verberk, Alex Baranski, Reema Baskar, William D. Graf, David Van Valen, Jan Van den Bossche, Michael Angelo, Sean C. Bendall,
Cellular metabolism regulates immune cell activation, differentiation and effector functions, but current metabolic approaches lack single-cell resolution and simultaneous characterization of cellular phenotype. In this study, we developed an approach to characterize the metabolic regulome of single cells together with their phenotypic identity. The method, termed single-cell metabolic regulome profiling (scMEP), quantifies proteins that regulate metabolic pathway activity using high-dimensional ...
Tópico(s): T-cell and B-cell Immunology
2020 - Nature Portfolio | Nature Biotechnology
Joan A. Reid, Michael T. Baglivio, Alex R. Piquero, Mark A. Greenwald, Nathan Epps,
To examine the link between human trafficking of minors and childhood adversity.We compared the prevalence of adverse childhood experiences (ACEs) and cumulative childhood adversity (ACE score) among a sample of 913 juvenile justice-involved boys and girls in Florida for whom the Florida child abuse hotline accepted human trafficking abuse reports between 2009 and 2015 with those of a matched sample.ACE composite scores were higher and 6 ACEs indicative of child maltreatment were more prevalent among ...
Tópico(s): Migration, Health and Trauma
2016 - American Public Health Association | American Journal of Public Health
Michael T. Baglivio, Kevin T. Wolff, Alex R. Piquero, Mark A. Greenwald, Nathan Epps,
Tópico(s): Psychopathy, Forensic Psychiatry, Sexual Offending
2016 - Springer Science+Business Media | Journal of Youth and Adolescence
Tim Menzies, Alex Dekhtyar, Justin Distefano, Jeremy Greenwald,
Zhang and Zhang argue that predictors are useless unless they have high precison&recall. We have a different view, for two reasons. First, for SE data sets with large neg/pos ratios, it is often required to lower precision to achieve higher recall. Second, there are many domains where low precision detectors are useful.
Tópico(s): Imbalanced Data Classification Techniques
2007 - IEEE Computer Society | IEEE Transactions on Software Engineering
Joseph A. Fisher, James Rucker, Leeor Sommer, Alex Vesely, Elana Lavine, Yoel Greenwald, G. Volgyesi, Ludwik Fedorko, Steve Iscoe,
A major impediment to the use of hyperpnea in the treatment of CO poisoning is the development of hypocapnia or discomfort of CO2 inhalation. We examined the effect of nonrebreathing isocapnic hyperpnea on the rate of decrease of carboxyhemoglobin levels (COHb) in five pentobarbital-anesthetized ventilated dogs first exposed to CO and then ventilated with room air at normocapnia (control). They were then ventilated with 100% O2 at control ventilation, and at six times control ventilation without hypocapnia (" ...
Tópico(s): Neuroscience of respiration and sleep
1999 - American Thoracic Society | American Journal of Respiratory and Critical Care Medicine
Michael T. Baglivio, Kevin T. Wolff, Alex R. Piquero, James C. Howell, Mark A. Greenwald,
Although the Risk–Needs–Responsivity framework has become the dominant paradigm in criminal and juvenile justice, little empirical attention has been given to the reassessment component of the model. Here, we examine dynamic risk and promotive factor trajectories of 6,442 residential commitment placements to assess differences in progression with respect to risk reduction and promotive enhancement through a buffer score rubric (buffer = promotive − risk). Results indicate that youth progress along different ...
Tópico(s): Psychopathy, Forensic Psychiatry, Sexual Offending
2016 - SAGE Publishing | Criminal Justice and Behavior
Benedek Kurdi, Àlex Sánchez, Nilanjana Dasgupta, Mahzarin R. Banaji,
Dasgupta and Greenwald (2001) demonstrated that exposure to positive Black exemplars (e.g., Colin Powell) and negative White exemplars (e.g., Jeffrey Dahmer) can reduce implicit pro-White/anti-Black evaluations, as measured by an Implicit Association Test. Here, we report seven preregistered online experiments conducted with volunteer U.S. participants (
Tópico(s): Cultural Differences and Values
2023 - American Psychological Association | Journal of Personality and Social Psychology
Michael T. Baglivio, Kevin T. Wolff, Alex R. Piquero, Shay Bilchik, Katherine Jackowski, Mark A. Greenwald, Nathan Epps,
Tópico(s): Homelessness and Social Issues
2015 - Springer Science+Business Media | Journal of Youth and Adolescence
Jelmer W. Eerkens, Alex de Voogt, Tosha L. Dupras, Francigny Vincent, Alexandra M. Greenwald,
Abstract We explore early childhood dietary patterns in a Late Meroitic (first–fourth century CE) population ( N = 11) from Sai Island, Sudan, using stable carbon and nitrogen isotopes in serial samples from permanent first molar dentin. Results suggest an average age of weaning of 2.7 years, but with significant interindividual variation in the timing of weaning, with evidence for a later age at weaning for two females (average 3.5 years) compared with four males (average 2.3 years). Isotopic results ...
Tópico(s): Pleistocene-Era Hominins and Archaeology
2018 - Wiley | International Journal of Osteoarchaeology
G. Abla, Elizabeth N. Coviello, S. Flanagan, M. Greenwald, X. Lee, Alex Romosan, D. P. Schissel, Arie Shoshani, J. Stillerman, J. C. Wright, Kesheng Wu,
Data from large-scale experiments and extreme-scale computing is expensive to produce and may be used for critical applications. However, it is not the mere existence of data that is important, but our ability to make use of it. Experience has shown that when metadata is better organized and more complete, the underlying data becomes more useful. Traditionally, capturing the steps of scientific workflows and metadata was the role of the lab notebook, but the digital era has resulted instead in the ...
Tópico(s): Advanced Data Storage Technologies
2016 - Elsevier BV | Fusion Engineering and Design
Carter Hay, Alex O. Widdowson, Meg S. Bates, Michael T. Baglivio, Katherine Jackowski, Mark A. Greenwald,
Each year in the United States, as many as 100,000 juvenile offenders are released after completing a residential placement. A significant task for researchers is to identify the factors that explain variations in recidivism. This study considers this by evaluating the predictive validity of the Residential Positive Achievement Change Tool (R-PACT), a fourth-generation risk assessment instrument adopted by Florida for use in all of its juvenile residential facilities. The R-PACT includes a wide variety ...
Tópico(s): Crime Patterns and Interventions
2016 - SAGE Publishing | Youth Violence and Juvenile Justice
Arthur Maerlender, Eric P. Smith, P. Gunnar Brolinson, Joseph J. Crisco, Jillian E. Urban, Amaris Ajamil, Steven Rowson, Eamon T. Campolettano, Ryan A. Gellner, Srinidhi Bellamkonda, Emily Kieffer, Mireille E. Kelley, Derek A. Jones, Alex Powers, Jonathan G. Beckwith, Joel D. Stitzel, Richard M. Greenwald, Stefan M. Duma,
Abstract Objectives: Head impact exposure (HIE) in youth football is a public health concern. The objective of this study was to determine if one season of HIE in youth football was related to cognitive changes. Method: Over 200 participants (ages 9–13) wore instrumented helmets for practices and games to measure the amount of HIE sustained over one season. Pre- and post-season neuropsychological tests were completed. Test score changes were calculated adjusting for practice effects and regression ...
Tópico(s): Meta-analysis and systematic reviews
2020 - Cambridge University Press | Journal of the International Neuropsychological Society
H. M. Gardiner, Hikoro Matsui, Kurt Hecher, Anke Diemert, M. J. Taylor, Samuel Greenwald, Alex Barlas, J. B. Preece, Fabiana Gordon,
To compare blood pressure and vascular responses in 10 year follow-up case-control study of 66 twins; 18 twin–twin transfusion syndrome (TTTS) treated prenatally by amnioreduction or laser (22), 14 monochorionic (MCDA) and 12 dichorionic (DCDA) controls. Arm and aortic arterial stiffness were derived from pulse wave velocity (PWV) recorded non-invasively using reflectance photoplethysmography. Resting microcirculation (flux) and post-occlusive reactive hyperaemia (PORH) were measured using laser Doppler. ...
Tópico(s): Pregnancy and preeclampsia studies
2010 - Wiley | Ultrasound in Obstetrics and Gynecology
Kesheng Wu, Elizabeth N. Coviello, S. Flanagan, M. Greenwald, Xia Lee, Alex Romosan, D. P. Schissel, Arie Shoshani, J. Stillerman, J. C. Wright,
Tópico(s): Research Data Management Practices
2016 - Springer Science+Business Media | Lecture notes in computer science
Satish S.C. Rao, Eamonn M.M. Quigley, William D. Chey, Amol Sharma, Dinh V. Dinh, Leonard Dunn, Ronald Fogel, Sandor Romero, Matthew Teltser, Robert J. Morin, Louis Torres, Ronald Surowitz, Vishnu Reddy, Jeffrey D. Wayne, Murray Snook, Gary R. Goldstein, John Rubino, George Freeman, BENJAMIN O. LUMICAO, James H. Greenwald, Alex Zopo, Jim M. Wild, Paul Hellstern, Alexander Murray, Lisa Usdan, Daniel Whitmer, Amita Oza, Keith Friedenberg, Anthony Lembo,
Tópico(s): Gastrointestinal motility and disorders
2022 - Elsevier BV | Gastroenterology
Kausalia Vijayaragavan, Bryan J. Cannon, Dmitry Tebaykin, Marc Bossé, Alex Baranski, John Paul Oliveria, Syed A. Bukhari, Dunja Mrdjen, M. Ryan Corces, Erin McCaffrey, Noah F. Greenwald, Yari Sigal, Diana M. Marquez, Zumana Khair, Trevor Bruce, Mako Goldston, Anusha Bharadwaj, Kathleen S. Montine, Michael Angelo, Thomas J. Montine, Sean C. Bendall,
Abstract Neurodegenerative disorders are characterized by phenotypic changes and hallmark proteopathies. Quantifying these in archival human brain tissues remains indispensable for validating animal models and understanding disease mechanisms. We present a framework for nanometer-scale, spatial proteomics with multiplex ion beam imaging (MIBI) for capturing neuropathological features. MIBI facilitated simultaneous, quantitative imaging of 36 proteins on archival human hippocampus from individuals ...
Tópico(s): Dementia and Cognitive Impairment Research
2022 - Springer Science+Business Media | Acta Neuropathologica Communications
Helena M. Gardiner, Alex Barlas, Hikoro Matsui, Anke Diemert, M. J. Taylor, J. B. Preece, Fabiana Gordon, Stephen E. Greenwald, Kurt Hecher,
We assessed vascular programming in genetically identical monochorionic twin pairs with twin-to-twin transfusion syndrome (TTTS) treated differently in utero by serial amnioreduction or fetal laser arterial photocoagulation. This case–control study re-assessed four twin groups at median 11 years comprising 20 pairs of monochorionic diamniotic twins: nine treated by amnioreduction (TTTS-amnio) and eleven by laser (TTTS-laser) with seven monochorionic and six dichorionic control pairs. Outcome measures ...
Tópico(s): Birth, Development, and Health
2012 - Cambridge University Press | Journal of Developmental Origins of Health and Disease
Willem Schaftenaar, Alex Lécu, Rena Greenwald, Konstantin P. Lyashchenko,
In 1997 a 26-yr-old gemsbok (Oryx gazelle gazelle) died of bovine tuberculosis in a zoo. Three remaining gemsbok were administered the comparative tuberculin skin test repeatedly over a period of 5 mo. Two animals showed inconclusive results on the second test. All three gemsbok were euthanatized. Mycobacterium bovis was isolated from one of those with an inconclusive skin test result, whereas Mycobacterium fortuitum was detected in the other gemsbok. Eight years later, an onager (Equus hemionus onager) ...
Tópico(s): Leptospirosis research and findings
2013 - American Association of Zoo Veterinarians | Journal of Zoo and Wildlife Medicine
... 807. Baglivio, Michael T., Katherine Jackowski, Mark A. Greenwald, and James C. Howell. 2014. Serious, violent, and chronic juvenile offenders: A statewide analysis of prevalence and prediction of subsequent recidivism using risk and protective factors. Criminology & Public Policy, 13: 83–116. Bersani, Bianca E. 2014. An examination of first and second generation immigrant offending trajectories. Justice Quarterly, 31: 315–343. Bersani, Bianca E., Thomas A. Loughran, and Alex R. Piquero. 2013. Comparing patterns and predictors of ...
Tópico(s): Psychopathy, Forensic Psychiatry, Sexual Offending
2014 - Wiley | Criminology & Public Policy