Beiwe: A data collection platform for high-throughput digital phenotyping by JP Onnela, C Dixon, K Griffin, T Jaenicke, L Minowada, S Esterkin, A Siu, J Zagorsky, and E Jones. Journal of Open Source Software, 6(68), 3417 (2021).
Perceptions of mobile health technology in elective surgery: A qualitative study of North American surgeons by N Panda, R Sinyard, J Margo, N Henrich, CE Cauley, JP Onnela, AB Haynes, and M Brindle. Annals of Surgery. In press, 2021.
How psychiatry can develop biomarkers by D Barron, J Baker, KS Budde, D Bzdok, SB Eickhoff, K Friston, PT Fox, P Geha, S Heisig, A Holmes, JP Onnela, A Powers, D Silbersweig, and JH Krystal. Frontiers in Psychiatry. In press, 2021.
Sociodemographic characteristics of missing data in digital phenotyping by Kiang MV, Chen JT, Krieger N, Buckee CO, Alexander MJ, Baker JT, Buckner RL, Coombs G, Rich-Edwards JW, Carlson KW, and Onnela JP. Scientific Reports. In press, 2021.
Feasibility and performance of smartphone-based daily micro-surveys among patients recovering from cancer surgery by L van den Berg, P Brouwer, N Panda, MM Hoogbergen, I Solsky, JP Onnela, AB Haynes, and CJ Sidey-Gibbons CJ. Quality of Life Research. In press, 2021.
Bidirectional imputation of spatial GPS trajectories with missingness using sparse online Gaussian Process by G Liu and JP Onnela. Journal of the American Medical Informatics Association 28(8), 1777, 2021.
Expected versus experienced health-related quality of life among patients recovering from cancer surgery: a prospective cohort study by N Panda, I Solsky, B Neal, B Hawrusik, S Lipsitz, CC Lubitz, RD Sinyard, JP Onnela, CE Cauley, AB Haynes. Annals of Surgery Open 2(2), e060, 2021.
Smartphone GPS signatures of patients undergoing spine surgery correlate with mobility and current gold standard outcome measures by A Boaro, J Leung, HT Reeder, F Siddi, E Mezzalira, G Liu, RA Mekary, Y Lu, M Groff, JP Onnela*, and TR Smith*. Journal of Neurosurgery: Spine, 2021. (*joint senior authors)
Estimating longitudinal depressive symptoms from smartphone data in a transdiagnostic cohort by AM Pellegrini*, EJ Huang*, PC Staples, KL Hart, JM Lorme, HE Brown, RH Perlis**, and JP Onnela**. Brain and Behavior, e02077, 2021. (*joint first authors, **joint senior authors)
Open-source longitudinal sleep analysis from accelerometer data (DPSleep): Algorithm development and validation by HR Eichi, G Coombs III, CMV Bustamante, JP Onnela, JT Baker, and RL Buckner. JMIR Mhealth Uhealth 9(10):e29849, 2021.
Journal | medRxiv
Sociodemographic characteristics of missing data in digital phenotyping by MV Kiang, JT Chen, N Krieger, CO Buckee, MJ Alexander, JT Baker, RL Buckner, G Coombs, JW Rich-Edwards, KW Carlson, and JP Onnela. Submitted, 2020.
Increase in suicidal thinking during COVID-19 by R Fortgang, SB Wang, AJ Millner, A Reid-Russell, A Beukenhorst, EM Kleiman, KH Bentley, KL Zuromski, M Al-Suwaidi, SA Bird, R Buonopane, D Demarco, A Haim, VW Joyce, E Kastman, E Kilbury, H-I Lee, P Mair, CC Nash, JP Onnela, JW Smoller, and MK Nock. Clinical Psychological Science 2167702621993857, 2021.
Smartphone data during the COVID‐19 pandemic can quantify behavioral changes in people with ALS by AL Beukenhorst, E Collins,KM Burke, SM Rahman, M Clapp, SC Konanki, S Paganoni, TM Miller, J Chan, JP Onnela**, and JD Berry**. Muscle & Nerve 63(2), 258, 2021. (** shared senior authors)
Digital phenotyping to quantify psychosocial well-being trajectories after spinal cord injury by HW Mercier, JW Hamner, J Torous, JP Onnela, and JA Taylor. Am J Phys Med Rehabil. 99(12), 1138, 2020.
Can mHealth interventions improve quality of life of cancer patients? A systematic review and meta-analysis by I Buneviciene, RA Mekary, TR Smith, JP Onnela, A Bunevicius. Critical Reviews in Oncology/Hematology 103123, 2020.
Smartphone sensing of social interactions in people with and without schizophrenia by D Fulford, J Mote, R Gonzalez, S Abplanalp, Y Zhang, J Luckenbaugh, JP Onnela, C Busso, and D Gard. Journal of Psychiatric Research, 2020.
Consensus statement on ethical & safety practices for conducting digital monitoring studies with people at risk of suicide and related behaviors by MK Nock, E Kleiman, M Abraham, K Bentley, DA Brent, RJ Buonopane, F Castro-Ramirez, CB Cha, W Dempsey, J Draper, CR Glenn, MR Hollander, J Harkavy-Friedman, J Huffman, HUS Lee, A Millner, D Mou, JP Onnela, R Picard, HM Quay, O Rankin, S Sewards, J Torous, J Wheelis, U Whiteside, G Siegel, A Ordóñez, and J Pearson. Psychiatric Research and Clinical Practice, 2020.
Smartphone-based assessment of preoperative decision conflict and postoperative physical activity among patients undergoing cancer surgery: a prospective cohort study by N Panda*, I Solsky*, CE Cauley, S Lipsitz, EV Desai, EJ Huang, EM Benjamin, CC Lubitz, JP Onnela**, and AB Haynes**. Annals of Surgery, 2020. (** shared senior authors)
Smartphone Global Positioning System (GPS) data enhances recovery assessment after breast cancer surgery by N Panda*, I Solsky*, B Hawrusik, G Liu, H Reeder, S Lipsitz, EV Desai, KW Lowery, K Miller, MA Gadd, CC Lubitz, BL Smith, M Specht, JP Onnela**, and AB Haynes**. Annals of Surgical Oncology, 2020. (** shared senior authors)
Determining sample size and length of follow-up for smartphone-based digital phenotyping studies by I Barnett, J Torous, HT Reeder, J Baker, and JP Onnela. Journal of the American Medical Informatics Association 27(12), 1844, 2020.
Smartphone-based tracking of sleep in depression, anxiety, and psychotic disorders by T Aledavood, J Torous, AM Triana Hoyos, JA Naslund, JP Onnela, M Keshavan. Current Psychiatry Reports Jun 4;21(7):49, 2019.
Utilizing smartphones to capture novel recovery metrics after cancer surgery by N Panda*, I Solsky*, E Huang, C Lipsitz, J Pradarelli, D Delisle, J Cusack, M Gadd, C Lubitz, J Mullen, M Qadan, B Smith, M Specht, A Stephen, K Tanabe, A Gawande, JP Onnela*, A Haynes*. JAMA Surgery, 2019. (*shared senior authors)
The AURORA Study: a longitudinal, multimodal library of brain biology and function after traumatic stress exposure by S McLean et al. Molecular Psychiatry 25(2), 283, 2019.
Harnessing digital technology to predict, diagnose, monitor, and develop treatments for brain disorders by C Stroud, JP Onnela* and H Manji*. npj Digital Medicine 2:44, 2019. (*shared senior authors)
Assessing the potential of longitudinal smartphone-based cognitive assessment in schizophrenia: A naturalistic pilot study by G Liu, P Henson, M Keshavan, JP Onnela and J Torous. Schizophrenia Research: Cognition, 17:100144, 2019.
Design and results of a smartphone‐based digital phenotyping study to quantify ALS progression by J Berry, S Paganoni, K Carlson, K Burke, H Weber, P Staples, J Salinas, J Chan, J Green, K Connaghan, J Barback and JP Onnela. Annals of Clinical and Translational Neurology, 6(5):873, 2019.
Digital phenotyping in patients with spine disease: A novel approach to quantifying mobility and quality of life by J Cote, I Barnett I, JP Onnela, T Smith. World Neurosurgery 126, e241, 2019.
Digital phenotyping for the busy psychiatrist: Clinical implications and relevance by J Torous, A Gershon, R Hays, JP Onnela and J Baker. Psychiatric Annals, 2019.
Beyond smartphones and sensors: choosing appropriate statistical methods for the analysis of longitudinal data by I Barnett, J Torous, P Staples, M Keshavan M and JP Onnela JP. Journal of the American Medical Informatics Association, 25:12, 2018.
A crossroad for validating digital tools in schizophrenia and mental health by J Torous, P Staples, I Barnett, JP Onnela and M Keshavan. npj Schizophrenia 4(1), 6, 2018.
Characterizing the clinical relevance of digital phenotyping data quality with applications to a cohort with schizophrenia by P Staples, J Torous, I Barnett, L Sandoval, M Keshavan and JP Onnela. npj Digital Medicine 1, 15, 2018.
The HOPE pilot study: Harnessing patient-reported outcomes and biometric data to enhance cancer care by A Wright, N Raman, P Staples, S Schonholz, A Cronin, K Carlson, NL Keating and JP Onnela. JCO Clinical Cancer Informatics 2, 1, 2018.
Relapse prediction in schizophrenia through digital phenotyping: A pilot study by I Barnett, J Torous, P Staples, L Sandoval, M Keshavan and JP Onnela. Neuropsychopharmacology 43(8), 1660, 2018.
Working Paper | Journal | Beiwe configuration file | Code
Smartphone applications for monitoring mood disorders: A systematic review by F Or, J Torous and JP Onnela. Submitted, 2017.
High potential but limited evidence: Using voice data from smartphones to monitor and diagnose mood disorders by F Or, J Torous and JP Onnela. Psychiatric Rehabilitation Journal, 2017.
Working Paper | Journal
A comparison of passive and active estimates of sleep in a cohort with schizophrenia by P Staples, J Torous, I Barnett, K Carlson, L Sandoval, M Keshavan and JP Onnela. NPJ Schizophrenia 3 (1), 37, 2017.
Journal | PubMed | Beiwe configuration file
Methodology and reporting of mobile heath and smartphone application studies for schizophrenia by J Torous, J Firth, N Muller, JP Onnela and J Baker. Harvard review of psychiatry, 25(3), 146, 2017.
Journal | PubMed
New dimensions and new tools to realize the potential of RDoC: digital phenotyping via smartphones and connected devices by J Torous, JP Onnela, and M Keshavan. Translational Psychiatry. 7, e1053, 2017.
Journal | PubMed
New tools for new research in psychiatry: A scalable and customizable platform to empower data driven smartphone research by J Torous, MV Kiang, J Lorme, and JP Onnela. JMIR Mental Health 3(2):e16, 2016.
Journal | Figure 3 (Multimedia)
Utilizing a personal smartphone custom app to assess the Patient Health Questionnaire-9 (PHQ-9) depressive symptoms in patients with major depressive disorder by J Torous, P Staples, M Shanahan, C Lin, P Peck, M Keshavan, and JP Onnela. JMIR Mental Health 2(1), e8, 2015.
Journal | PubMed
Maximum likelihood estimation for mechanistic network models by J Larson, JP Onnela. Submitted, 2021.
Examining SARS-CoV-2 interventions in residential colleges using an empirical network by HL Hambridge, R Kahn, and JP Onnela. International Journal of Infectious Diseases 113, 325, 2021.
Journal | medRxiv
Inferring the minimum spanning tree from a sample network by J Larson and JP Onnela. Submitted, 2021.
Selection of summary statistics for network model choice with approximate Bayesian computation by L Raynal, JP Onnela. Submitted, 2021.
Edge overlap in weighted and directed social networks by H Mattie, JP Onnela. Network Science, 9(2), 179, 2021.
Scalable approximate Bayesian computation for growing network models via extrapolated and sampled summaries by L Raynal, S Chen, A Mira, JP Onnela. Bayesian Analysis 1(1), 2021.
Journal | arXiv
Assessment of racial disparities in primary care physician subspecialty referrals by BE Landon, JP Onnela, L Meneades, AJ O’Malley, NL Keating. JAMA Network Open 4(1):e2029238, 2020.
The impact of sampling patients on measuring physician patient-sharing networks using Medicare data by AJ O’Malley, JP Onnela, NL Keating, BE Landon. Health Services Research 56(2), 323, 2020.
Evaluating spillover of HIV knowledge from study participants to their network members in a stepped-wedge behavioral intervention in Tanzania by J Rewley, M Smith-Fawzi, SF Kaaya, S Haberlen, H Siril, N Li, K McAdam, D Ainebyona, M Somba, E McAdam, K Oljemark, J Todd, I Andrew, A Simwinga, N Mleli, S Makongwa, G Arthur, Y Liu, JP Onnela. BMJ Open 10:e033759, 2020.
Bayesian method for inferring the impact of geographical distance on intensity of communication by F Ozga, JP Onnela, V DeGruttola. Scientific Reports 10(1), 1, 2020.
Feature-based classification of networks by I Barnett, N Malek, M Kuijjer, P Mucha, JP Onnela. Network Science 7(3), 438, 2019.
A network approach to stroke systems of care by K Zachrison, A Dhand, L Schwamm, JP Onnela. Circulation: Cardiovascular Quality and Outcomes 12, e005526, 2019.
Introduction to Social Network Analysis by AJ O’Malley, JP Onnela. In: Levy A., Goring S., Gatsonis C., Sobolev B., van Ginneken E., Busse R. (eds) Health Services Evaluation. Health Services Research, 2019.
Influence of peer physicians on intensity of end-of-life care for cancer decedents by N Keating, AJ O’Malley, JP Onnela, S Gray, B Landon. Medical Care 7(6), 468, 2019.
Comparison of physician networks constructed from thresholded ties versus shared clinical episodes by JP Onnela, J O’Malley, N Keating, B Landon. Network Science 3(1), 28, 2018.
Simulations for designing and interpreting intervention trials in infectious diseases by ME Halloran, K Auranen, S Baird, NE Basta, SE Bellan, R Brookmeyer, BS Cooper, V DeGruttola, JP Hughes, J Lessler, ET Lofgren, IM Longini, JP Onnela, B Özler, GR Seage, TA Smith, A Vespignani, E Vynnycky, and M Lipsitch. BMC Med 15 (1), 2017.
Impact of degree truncation on the spread of a contagious process on networks by G Harling and JP Onnela. Network Science 1, 2017.
ABCpy: A user-friendly, extensible, and parallel library for approximate Bayesian computation by R Dutta, M Schoengens, JP Onnela, and A Mira. Proceedings of the Platform for Advanced Scientific Computing Conference. Article No. 8, 2017.
Leveraging contact network information in clustered randomized trials of infectious processes by P Staples, M Prague, V DeGruttola, and JP Onnela. Submitted, 2016.
The social geography of American medicine by D Kim, AJ O’Malley, and JP Onnela. Submitted (2016).
Working paper | Interactive figures: 1, 3, 4a, 4b, 4c, 4d | Code
Data: NPPES, Physician networks, Physician billing, Physician prescribing
Polio vaccine hesitancy in the networks and neighborhoods of Malegaon, India by JP Onnela, BE Landon, AL Kahn, D Ahmed, H Verma, AJ O’Malley, S Bahl, RW Sutter, and NA Christakis. Social Science and Medicine 153, 999, 2016.
Journal | Working paper | High-resolution network figure
Multiple contexts and adolescent body mass index: schools, neighborhoods, and social networks by CR Evans, JP Onnela, DR Williams, and SV Subramanian. Social Science and Medicine 162, 21, 2016.
Investigating population dynamics of the Kumbh through the lens of cell phone data by JP Onnela and T Khanna. In T Khanna, R Mehrotra, F Vera, and D Eck (Eds.), Kumbh Mela: Mapping the ephemeral mega city. Hatje Cantz, 2015.
Mapping Ebola: Why cell phone data could be the key to tracking the next pandemic by S Balsari, J Leaning, JP Onnela, and T Khanna. Emergency Physicians International 15, 30, 2014.
Topics in social network analysis and network science by AJ O’Malley and JP Onnela. Submitted to Handbook of Health Services Research, 2014.
Using administrative data to identify naturally occurring networks of physicians by B Landon, JP Onnela, NL Keating, M Barnett, S Paul, AJ O’Malley, T Keegan, and NA Christakis. Medical Care 51 (8), 715, 2013.
PubMed | ArXiv
Establishing a culture of reproducibility and openness in medical research with an emphasis on the training years by CD Barr and JP Onnela. Chance 25 (3), 8, 2012.
Variation in patient-sharing networks of physicians across the United States by B Landon, NL Keating, M Barnett, JP Onnela, S Paul, AJ O’Malley, and NA Christakis. JAMA 308 (3), 265, 2012.
Journal | PubMed
Physician patient-sharing networks and the cost and intensity of care in US hospitals by M Barnett, NA Christakis, AJ O’Malley, JP Onnela, NL Keating, and B Landon. Medical Care 50 (2), 152, 2012.
Network automata: Coupling structure and function in real-world networks by DMD Smith, JP Onnela, CF Lee, M Fricker, and NF Johnson. Advances in Complex Systems 14, 317, 2011.
Understanding the demographics of Twitter users by A Mislove, S Lehmann, YY Ahn, JP Onnela, and JN Rosenquist. Proceedings of the Fifth International AAAI Conference on Weblogs and Social Media (ICWSM’11), Barcelona, Spain, 2011.
Tick size and stock returns by JP Onnela, J Töyli, and K Kaski. Physica A 388, 441, 2009.
Bias in epidemiological studies of conflict mortality by NF Johnson, M Spagat, S Gourley, JP Onnela, and G Reinert. Journal of Peace Research 45 (5), 653, 2008.
Analysis of a large-scale weighted network of one-to-one human communication by JP Onnela, J Saramäki, J Hyvönen, G Szabó, M Argollo de Menezes, K Kaski, AL Barabási, and J Kertész. New Journal of Physics 9, 179, 2007.
Journal | ArXiv