Publications and Research
Works from 2019
Going Big: A Large-Scale Study on What Big Data Developers Ask, Mehdi Bagherzadeh and Raffi T. Khatchadourian
Abrogation of Endogenous Glycolipid Antigen Presentation on Myelin-Laden Macrophages by D-Sphingosine Ameliorates the Pathogenesis of Experimental Autoimmune Encephalomyelitis, Yi Ban, Wenjuan Dong, Lixing Zhang, Tian Zhou, Ahmad Sabri Altiti, Khaleel Ali, David R. Mootoo, Victoria A. Biaho, Timothy Hla, Yi Ren, and Xiaojing Ma
MSG-Fast: Metagenomic shotgun data fast annotation using microbial gene catalogs, Stuart M. Brown, Hao Chen, Yuhan Hao, Bobby P. Laungani, Thahmina A. Ali, Changsu Dong, Carlos Lijeron, Baekdoo Kim, Claudia Wultsch, Zhiheng Pei, and Konstantinos Krampis
Implementation Science Research Examining the Integration of Evidence-Based Practices Into HIV Prevention and Clinical Care: Protocol for a Mixed-Methods Study Using the Exploration, Preparation, Implementation, and Sustainment (EPIS) Model, April Idalski Carcone, Karin Coyle, Sitaji Gurung, Demetria Cain, Rafael E. Dilones, Laura Jadwin-Cakmak, Jeffrey T. Parsons, and Sylvie Naar
Racism in Modern Information and Communication Technologies, Jessie Daniels
Peculiar optical properties of bilayer silicene under the influence of external electric and magnetic fields, Thi-Nga Do, Godfrey Gumbs, Po-Hsin Shih, Danhong Huang, Chih-Wei Chiu, Chia-Yun Chen, and Ming-Fa Lin
Racial and Ethnic Disparities in Palliative Care: A Systematic Scoping Review, Daniel Gardner, Meredith Doherty, Gleneara Bates, Aliza Koplow, and Sarah C. Johnson
Partnering For Social Justice: MSW Interns in Public Libraries, Sarah C. Johnson
Partnering for Social Justice: Social Work Students’ Placement at Public Libraries, Sarah C. Johnson
Safe Automated Refactoring for Intelligent Parallelization of Java 8 Streams, Raffi T. Khatchadourian, Yiming Tang, Mehdi Bagherzadeh, and Syed Ahmed
Safe Automated Refactoring for Intelligent Parallelization of Java 8 Streams, Raffi T. Khatchadourian, Yiming Tang, Mehdi Bagherzadeh, and Syed Ahmed
Influence of Stimulus Intensity on Multimodal Integration in the Startle Escape System of Goldfish, Camille McIntyre and Thomas Preuss
Effects of AM80 Compared to AC261066 in a High Fat Diet Mouse Model of Liver Disease, Marta Melis, Xiao-Han Tang, Steven E. Trasino, Viral M. Patel, Daniel J. Stummer, Jose Jessurun, and Lorraine J. Gudas
Eighteen Blind Library Users’ Experiences with Library Websites and Search Tools in U.S. Academic Libraries: A Qualitative Study, Adina Mulliken
Adolescent Trials Network for HIV-AIDS Scale It Up Program: Protocol for a Rational and Overview, Sylvie Naar, Jeffrey T. Parsons, and Bonita F. Stanton
Model-Based Methods to Translate Adolescent Medicine Trials Network for HIV/AIDS Interventions Findings Into Policy Recommendations: Rationale and Protocol for a Modeling Core (ATN 161), Anne M. Neilan, Kunjal Patel, Allison L. Agwu, Ingrid V. Bassett, K. Rivet Amico, Catherine M. Crespi, Aditya H. Gaur, Keith J. Horvath, Kimberly A. Powers, H. Jonathon Rendina, Lisa B. Hightow-Weidman, Xiaoming Li, Sylvie Naar, Sharon Nachman, Jeffrey T. Parsons, Kit N. Simpson, Bonita F. Stanton, Kenneth A. Freedberg, Audrey C. Bangs, Michael G. Hudgens, and Andrea L. Ciaranello
Mechanisms of hepatocellular carcinoma progression, Olorunseun O. Ogunwobi, Trisheena Harricharaan, Jeannette Huaman, Anna Galuza, Oluwatoyin Odumuwagun, Yin Tan, Grace X. Ma, and Minhhuyen T. Nguyen
Clinic-Based Delivery of the Young Men’s Health Project (YMHP) Targeting HIV Risk Reduction and Substance Use Among Young Men Who Have Sex with Men: Protocol for a Type 2, Hybrid Implementation-Effectiveness Trial, Jeffrey T. Parsons, Tyrel Starks, Sitaji Gurung, Demetria Cain, Jonathan Marmo, and Sylvie Naar
Geoarchaeological Evidence of Middle-Age Tsunamis at Stromboli and Consequences for the Tsunami Hazard in the Southern Tyrrhenian Sea, M. Rosi, S. T. Levi, M. Pistolesi, A. Bertagnini, D. Brunelli, V. Cannavo, A. Di Renzoni, F. Ferranti, A. Renzulli, and D. Yoon
Advances in geometric techniques for analyzing blebbing in chemotaxing Dictyostelium cells, Zully Santiago, John Loustau, David Meretzky, Devarshi Rawal, and Derrick Brazill
Effects of the KCNQ channel opener ezogabine on functional connectivity of the ventral striatum and clinical symptoms in patients with major depressive disorder, Aaron Tan, Sara Costi, Laurel S. Morris, Nicholas T. Van Dam, Marin Kautz, Alexis E. Whitton, Allyson K. Friedman, Katherine A. Collins, Gabriella Ahle, Nisha Chadha, Brian Do, Diego A. Pizzagalli, Dan V. Iosifescu, Eric J. Nestler, Ming-Hu Han, and James W. Murrough
Dominion Road in Auckland, New Zealand and Chinese Community, Wendy W. Tan
Incheon Chinatown: Cultural Heritage of this Korea's First Chinatown, Wendy W. Tan
Crowd wisdom enhanced by costly signaling in a virtual rating system, Ofer Tchernichovski, Lucas C. Parra, Daniel Fimiarz, Arnon Lotem, and Dalton Conley
Extreme events reveal an alimentary limit on sustained maximal human energy expenditure, Caitlin Thurber, Lara R. Dugas, Cara Ocobock, Bryce Carlson, John R. Speakman, and Herman Pontzer
Works from 2018
Fair Use as Creative Muse: An Ongoing Case Study, Malin Abrahamsson and Stephanie Margolin
GIS Project Management, Jochen Albrecht
Enabling precision medicine via standard communication of HTS provenance, analysis, and results, Gil Alterovitz, Dennis Dean, Carole Globe, Michael R. Crusoe, Stiam Soiland-Reyes, Amanda Bell, Anais Hayes, Anita Suresh, Anjan Purkkayastha, Charles H. King, Dan Taylor, Elaine Johanson, Elaine E. Thompson, Eric Donaldson, Hiroki Morizono, Hsinyi Tsang, Jeet K. Vora, Jeremy Goecks, Jianchao Yao, Jonas S. Almeida, Jonathon Keeney, KanakaDurga Addepalli, Konstantinos Krampis, Krista M. Smith, Lydia Guo, Mark Walderhaug, Marco Schito, Matthew Ezewudo, Nuria Guimera, Paul Walsh, Robel Kahsay, Srikanth Gottipati, Timothy C. Rodwell, Toby Bloom, Yuching Lai, Vahan Simonyan, and Raja Mazumder
Chronic voluntaryoral methamphetamine induces deficits inspatiallearningand hippocampal proteinkinase Mzeta withenhanced astrogliosis and cyclooxygenase-2 levels, Jorge A. Avila, Roseanna M. Zanca, Denis Shor, Nicholas Paleologos, Amber A. Alliger, Maria E. Figueiredo-Pereira, and Peter A. Serrano
A description of nesting behaviors, including factors impacting nest site selection, in black‐and‐white ruffed lemurs (Varecia variegata), Andrea L. Baden
Facilitating Video Analysis for Teacher Development: A Systematic Review of the Research, Laura H. Baecher, Shiao-Chuan Kung, Sarah Laleman Ward, and Kimberly Kern
Leveraging PET to image folate receptor α therapy of an antibody-drug conjugate, Christian Brand, Ahmad Sadique, Jacob L. Houghton, Kishore Gangagari, Jose F. Ponte, Jason S. Lewis, Naga Vara Kishore Pillarsetty, Joseph A. Konner, and Thomas Reiner
Target engagement imaging of PARP inhibitors in small-cell lung cancer, Brandon Carney, Susanne Kossatz, Benjamin H. Lok, Valentina Schneeberger, Kishore K. Gangangari, Naga Vara Kishore Pillarsetty, Wolfgang A. Weber, Charles M. Rudin, John T. Poirier, and Thomas Reiner
Primordial origin and diversification of plasmids in Lyme disease agent bacteria, Sherwood R. Casjens, Lia Di, Saymon Akther, Emmanuel F. Mongodin, Benjamin J. Luft, Steven E. Schutzer, Claire M. Fraser, and Weigang Qiu
Prostaglandin D2/J2 signaling pathway in a rat model of neuroinflammation displaying progressive parkinsonian-like pathology: potential novel therapeutic targets, Chuhyon Corwin, Anastasia Nikolopoulou, Allen L. Pan, Mariela Nunez-Santos, Shankar Vallabhajosula, Peter A. Serrano, John Babich, and Maria E. Figueiredo-Pereira
W.E.B. DuBois for the Twenty‐First Century: On Being a Scholar‐Activist in the Digital Era, Jessie Daniels
When the Far-Right Attacks Faculty Online, They are Attacking Public Higher Education, Jessie Daniels
White Women, U.S. Popular Culture, and Narratives of Addiction, Jessie Daniels
Single olfactory receptors set odor detection thresholds, Adam Dewan, Annika Cichy, Jingji Zhang, Kayla Miguel, Paul Feinstein, Dmitry Rinberg, and Thomas Bozza
Use and Awareness of Library Services among Faculty at Two Armenian Universities, D. Aram Donabedian, John Carey, and Arshak Balayan
Discriminating radiation injury from recurrent tumor with [18F]PARPi and amino acid PET in mouse models, Patrick L. Donabedian, Susanne Kossatz, John A. Engelbach, Stephen A. Jannetti, Brandon Carney, Robert J. Young, Wolfgang A. Weber, Joel R. Garbow, and Thomas Reiner
‘Haciendas and Plantations’: History and limitations of a 60-year-old taxonomy, Marc Edelman
Using Drosophila behavioral assays to characterize terebrid venompeptide bioactivity, Anders Eriksson, Prachi Anand, Juliette Gorson, Corina Grijuc, Elina Hadelia, James C. Stewart, Mandë Holford, and Adam Claridge-Chang
LIM Protein Ajuba associates with the RPA complex through direct cell cycle-dependent interaction with the RPA70 subunit, Sandy Fowler, Pascal Maguin, Sampada Kalan, and Diego Loayza
Disparities in pulmonary fibrosis care in the United States: an analysis from the Nationwide Inpatient Sample, Adam W. Gaffney, Steffie Woolhander, David Himmelstein, and Danny McCormick
TMSOTf assisted synthesis of 2’-deoxy-2’-[18F] fluoro-β-D-arabinofuranosylcytosine ([18F] FAC), Kishore K. Gangangari, John L. Humm, Steven M. Larson, and Naga Vara Kishore Pillarsetty
Evolution of the modern baboon (Papio hamadryas): A reassessment of the African Plio-Pleistocene record, Christopher C. Gilbert, Stephen R. Frost, Kelsey D. Pugh, Monya Anderson, and Eric Delson
Building Brand Kurdistan: Helly Luv, the Gender of Nationhood, and the War on Terror, Nicholas S. Glastonbury
BpWrapper: BioPerl-based sequence and tree utilities for rapid prototyping of bioinformatics pipelines, Yözen Hernández, Rocky Bernstein, Pedro Pagan, Levy Vargas, William McCaig, Girish Ramrattan, Saymon Akther, Amanda Larracuente, Lia Di, Filipe G. Vieira, and Weigang Qiu
A new insight into underlying disease mechanism through semi-parametric latent differential network model, Yong He, Jiadong Ji, Lei Xie, Xinsheng Zhang, and Fuzhong Xue
An Interview with Cesare Montecucco, Mandë Holford and Andreas Rummel
Thrive With Me: Protocol for a Randomized Controlled Trial to Test a Peer Support Intervention to Improve Antiretroviral Therapy Adherence Among Men Who Have Sex With Men, Keith J. Horvath, K. Rivet Amico, Darin Erickson, Alexandra M. Ecklund, Aldona Martinka, James DeWitt, Jeffrey McLaughlin, and Jeffrey T. Parsons
Designing a Summer Transition Program for Incoming and Current College Students on the Autism Spectrum: A Participatory Approach, Emily Hotez, Christina Shane-Simpson, Rita Obeid, Danielle DeNigris, Michael Siller, Corinna Costikas, Jonathan Pickens, Anthony Massa, Michael Giannola, Joanne D'Onofrio, and Kristen Gillespie-Lynch
Comparing Microbiome Sampling Methods in a Wild Mammal: Fecal and Intestinal Samples Record Different Signals of Host Ecology, Evolution, Melissa R. Ingala, Nancy B. Simmons, Claudia Wultsch, Konstantinos Krampis, Kelly A. Speer, and Susan L. Perkins
Disequilibrium, Adaptation, and the Norse Settlement of Greenland, Rowan Jackson, Jette Arneborg, Andrew Dugmore, Christian Madsen, Tom McGovern, Konrad Smiarowski, and Richard Streeter
MSW Interns at Public Libraries: Fostering Collaboration For Change, Sarah C. Johnson
Social science perspectives on drivers of and responses to global, Andrew K. Jorgenson, Shirley Fiske, Klaus Hubacek, Jia Li, Tom McGovern, Torben Rick, Juliet B. Schor, William Solecki, Richard York, and Ariela Zycherman
Proactive Empirical Assessment of New Language Feature Adoption via Automated Refactoring: The Case of Java 8 Default Methods, Raffi T. Khatchadourian and Hidehiko Masuhara
Proactive Empirical Assessment of New Language Feature Adoption via Automated Refactoring: The Case of Java 8 Default Methods, Raffi T. Khatchadourian and Hidehiko Masuhara
A Tool for Optimizing Java 8 Stream Software via Automated Refactoring, Raffi T. Khatchadourian, Yiming Tang, Mehdi Bagherzadeh, and Syed Ahmed
The effectiveness of critical time intervention for abused women leaving women’s shelters: a randomized controlled trial, Danielle A. M. Lako, Marielle D. Beijersbergen, Irene E. Jonker, Renee de Vet, Daniel B. Herman, Albert M. van Hemert, and Judith R. L. M. Wolf
Oxytocin and cancer: An emerging link, Ben Lerman, Trisheena Harricharran, and Olorunseun O. Ogunwobi
The International Conference on Intelligent Biology and Medicine (ICIBM) 2018: bioinformatics towards translational applications, Xiaoming Liu, Lei Xie, Zhijin Wu, Kai Wang, Zhongming Zhao, Jianhuan Ruan, and Degui Zhi
Structure-activity profiling of alkaloid natural product pharmacophores against a Schistosoma serotonin receptor, Jonathan S. Marchant, Wayne W. Harding, and John D. Chan
Comics, Questions, Action! Engaging Students and Instruction Librarians With the Comics-Questions Curriculum, Stephanie Margolin, Mason Brown, and Sarah Laleman Ward
Adolescent Medicine Trials Network for HIV/AIDS Interventions Data Harmonization: Rationale and Development of Guidelines, Micah McCumber, Demetria Cain, Sara LeGrand, Kenneth H. Mayer, Debra A. Murphy, Matthew A. Psioda, Arlene C. Seña, Tyrel J. Starks, and Michael Hudgens
To switch or not to switch: Intentions to switch to injectable PrEP among gay and bisexual men with at least twelve months oral PrEP experience, Kathrine Meyers, Yumeng Wu, Atrina Brill, Theodorus Sandfort, and Sarit A. Golub
Day-Level Associations Between Substance Use and HIV Risk Behavior Among a Diverse Sample of Transgender Women, Brett M. Millar, Devin English, Raymond L. Moody, H. Jonathon Rendina, Demetria Cain, Nadav Antebi-Gruszka, Joseph A. Carter, and Jeffrey T. Parsons
Precocious development of self-awareness in dolphins, Rachel Morrison and Diana Reiss
Unravelling the structure of glycosyl cations via cold-ion infrared spectroscopy, Eike Mucha, Mateusz Marianski, Fei-Fei Xu, Daniel A. Thomas, Gerard Meijer, Gert von Helden, Peter H. Seeberger, and Kevin Pagel
Review of Recent Nuclear Magnetic Resonance Studies of Ion Transport in Polymer Electrolytes, Stephen Munoz and Steven Greenbaum
“Our lab is the community”: Defining essential supporting infrastructure in engagement research, Donald E. Nease Jr., Dee Burton, Sarah L. Cutrona, Lauren Edmundson, Alex H. Krist, Michael Barton Laws, and Montelle Tamez
Developmental transitions in amygdala PKC isoforms and AMPA receptor expression associated with threat memory in infant rats, Maya Opendak, Roseanna M. Zanca, Eben Anane, Peter Serrano, and Regina M. Sullivan
Age-Tastic! An Evaluation of an Evidence-Based Intervention for Older Adults, Manoj Pardasani, Jackie Berman, and Mebane Powell
Empowering With PrEP (E-PrEP), a Peer-Led Social Media–Based Intervention to Facilitate HIV Preexposure Prophylaxis Adoption Among Young Black and Latinx Gay and Bisexual Men: Protocol for a Cluster Randomized Controlled Trial, Viraj V. Patel, Zoë Ginsburg, Sarit A. Golub, Keith J. Horvath, Nataly Rios, Kenneth H. Mayer, Ryunh S. Kim, and Julia H. Arnsten
Use and Awareness of Reference Management Software Among Community College Students, Ajatshatru Pathak and Sarah Johnson,
African trypanosomes evade immune clearance by Oglycosylation of the VSG surface coat, Jason Pinger, Dragana Nešić, Liaqat Ali, Francisco Aresta-Branco, Mirjana Lilic, Shanin Chowdhury, Hee-Sook Kim, Joseph Verdi, Jayne Raper, Michael A. J. Ferguson, F. Nina Papavasiliou, and C. Erec Stebbins
Predicting serious rare adverse reactions of novel chemicals, Aleksandar Poleksic and Lei Xie
Nanoparticles as multimodal photon transducers of ionizing radiation, Edwin C. Pratt, Travis M. Shaffer, Qize Zhang, Charles Michael Drain, and Jan Grimm
Essential Methods for Planning Practitioners: Skills and Techniques for Data Analysis, Visualization, and Communication, Laxmi Ramasubramanian and Jochen Albrecht
Factors associated with perceived accuracy of the Undetectable = Untransmittable slogan among men who have sex with men: Implications for messaging scale-up and implementation, H Jonathon Rendina and J T. Parsons
Strains of bacterial species induce a greatly varied acute adaptive immune response: The contribution of the accessory genome, Uri Sela, Chad W. Euler, Joel Correa da Rosa, and Vincent A. Fischetti
The Microbe Directory: An annotated, searchable inventory of microbes’ characteristics, Heba Shaaban, David A. Westfall, Rawhi Mohammad, David Danko, Daniela Bezdan, Ebrahim Afshinnekoo, Nicola Segata, and Christopher E. Mason
Explaining the Illusion of Phenomenal Consciousness, Daniel S. Shabasson
Microtubule Imaging Reveals Cytoskeletal Deficit Predisposing the Retinal Ganglion Cell Axons to Atrophy in DBA/2J, Denis Sharoukhov, Festa Bucinca-Cupallari, and Hyungsik Lim
Challenges to the Study of Long Wars, Zachary C. Shirkey
Introduction: The Puzzle of War Duration, Zachary C. Shirkey
Which Wars Spread? Commitment Problems and Military Intervention, Zachary C. Shirkey
Maternal experiences of intimate partner violence and C-reactive protein levels in young children in Tanzania, Natalie Slopen, Jing Zhang, Samuel S. Urlacher, Gretchen De Silva, and Mona Mittal
The Sociality of Post-Truth: Neoliberal Culture and its Rationality, Debbie Sonu
Stranger-Making as Difference: Childhood Memories of Belonging and Exclusion by Undergraduates of Color, Debbie Sonu and Marissa Bellino
The Hidden Curriculum in Financial Literacy: Economics, Standards, and the Teaching of Young Children, Debbie Sonu and Anand R. Marri
Market Integration Predicts Human Gut Microbiome Attributes across a Gradient of Economic Development, Keaton Stagaman, Tara J. Cepon-Robins, Melissa A. Liebert, Theresa E. Gildner, Samuel S. Urlacher, Felicia C. Madimenos, Karen Guillemin, J. Josh Snodgrass, Lawrence S. Sugiyama, and Brendan J. M. Bohannan
GoFish: A versatile nested PCR strategy for environmental DNA assays for marine vertebrates, Mark Y. Stoeckle, Mithun Das Mishu, and Zachary Charlop-Powers
Poster: Towards safe refactoring for intelligent parallelization of Java 8 streams, Yiming Tang, Raffi T. Khatchadourian, Mehdi Bagherzadeh, and Syed Ahmed
Poster: Towards safe refactoring for intelligent parallelization of Java 8 streams, Yiming Tang, Raffi T. Khatchadourian, Mehdi Bagherzadeh, and Syed Ahmed
Chinese Garden of Friendship and Sydney’s Chinatown : Friendship and Something Beyond at Darling Harbor, Wendy W. Tan
Melbourne’s Chinatown: Continuous Chinese Enclave For 168 Years In Australia, Wendy W. Tan
Evidence for energetic tradeoffs between physical activity and childhood growth across the nutritional transition, Samuel S. Urlacher and Karen L. Kramer
A Web-Based Interactive Tool to Reduce Childhood Obesity Risk in Urban Minority Youth: Usability Testing Study, Sandra Verdaguer, Katrina F. Mateo, Katarzyna Wyka, Tracy A. Dennis, and May May Leung