Lindsay Berry

Lindsay Berry

PhD Statistician. Designer of innovative clinical trials. Lover of dogs.

Sitemap

A list of all the posts and pages found on the site. For you robots out there is an XML version available for digesting as well.

Pages

Posts

PyBATS package for Bayesian forecasting

less than 1 minute read

Published:

Isaac Lavine and Andrew Cron have developed an open-source Python package to implement Bayesian time series models including the DGLM and DLM. This package can be used to implement the dynamic count mixture model proposed in Berry and West (2019). If you have a project involving time series of counts, binary events, or continuous outcomes, then I highly recommend checking out PyBATS.

portfolio

publications

Line-of-sight pursuit in monotone and scallop polygons

Published in International Journal of Computational Geometry & Applications, 2015

This paper was the result of a 2012 Math REU jointly run by Macalester College and the Institute for Mathematics and its Applications at the University of Minnesota.

Recommended citation: Berry, L., Beveridge, A., Butterfield, J., Isler, I., Keller, Z., Shine, A., Wang, J. "Line-of-site pursuit in monotone and scallop polygons." 2019. International Journal of Computational Geometry & Applications. 29(4): 307-351. https://www.worldscientific.com/doi/abs/10.1142/S0218195919500122

Probabilistic forecasting of heterogeneous consumer transaction-sales time series

Published in International Journal of Forecasting, 2020

This paper proposes the dynamic binary cascade model (DBCM) and an extension of the DCMM to forecast transaction-sales time series in consumer sales forecasting contexts.

Recommended citation: Berry, L.R., Helman, P., West, M. "Probabilistic forecasting of heterogeneous consumer transaction-sales time series." 2020. International Journal of Forecasting. https://www.sciencedirect.com/science/article/abs/pii/S0169207019302055

Effect of Hydrocortisone on Mortality and Organ Support in Patients With Severe COVID-19: The REMAP-CAP COVID-19 Corticosteroid Domain Randomized Clinical Trial

Published in JAMA, 2020

The first results of the REMAP-CAP study reported in JAMA on corticosteroid use for COVID-19.

Recommended citation: The Writing Committee for the REMAP-CAP Investigators. Effect of Hydrocortisone on Mortality and Organ Support in Patients With Severe COVID-19: The REMAP-CAP COVID-19 Corticosteroid Domain Randomized Clinical Trial. JAMA. 2020;324(13):1317–1329. doi:10.1001/jama.2020.17022 https://jamanetwork.com/journals/jama/fullarticle/2770278

The UPMC OPTIMISE-C19 (OPtimizing Treatment and Impact of Monoclonal antIbodieS through Evaluation for COVID-19) trial: a structured summary of a study protocol for an open-label, pragmatic, comparative effectiveness platform trial with response-adaptive randomization

Published in Trials, 2021

Summary of a study of comparative effectiveness of COVID-19 monoclonal antibodies with FDA EUA in the UPMC Health System.

Recommended citation: Huang, D.T., McCreary, E.K., Bariola, J.R. et al. The UPMC OPTIMISE-C19 (OPtimizing Treatment and Impact of Monoclonal antIbodieS through Evaluation for COVID-19) trial: a structured summary of a study protocol for an open-label, pragmatic, comparative effectiveness platform trial with response-adaptive randomization. Trials 22, 363 (2021). https://trialsjournal.biomedcentral.com/articles/10.1186/s13063-021-05316-3

Association Between Administration of IL-6 Antagonists and Mortality Among Patients Hospitalized for COVID-19: A Meta-analysis

Published in Journal of the American Medical Association, 2021

Meta-analysis estimating the association between administration of IL-6 antagonists compared with usual care or placebo and 28-day all-cause mortality and other outcomes.

Recommended citation: The WHO Rapid Evidence Appraisal for COVID-19 Therapies (REACT) Working Group. Association Between Administration of IL-6 Antagonists and Mortality Among Patients Hospitalized for COVID-19: A Meta-analysis. JAMA. Published online July 06, 2021. doi:10.1001/jama.2021.11330 https://jamanetwork.com/journals/jama/fullarticle/2781880

Lopinavir-ritonavir and hydroxychloroquine for critically ill patients with COVID-19: REMAP-CAP randomized controlled trial

Published in Intensive Care Medicine, 2021

Results from the REMAP-CAP trial: Among critically ill patients with COVID-19, lopinavir-ritonavir, hydroxychloroquine, or combination therapy worsened outcomes compared to no antiviral therapy.

Recommended citation: Arabi, Y.M., Gordon, A.C., Derde, L.P.G. et al. Lopinavir-ritonavir and hydroxychloroquine for critically ill patients with COVID-19: REMAP-CAP randomized controlled trial. Intensive Care Med 47, 867–886 (2021). https://link.springer.com/article/10.1007/s00134-021-06448-5

Therapeutic Anticoagulation with Heparin in Noncritically Ill Patients with Covid-19

Published in New England Journal of Medicine, 2021

In noncritically ill patients with Covid-19, an initial strategy of therapeutic-dose anticoagulation with heparin increased the probability of survival to hospital discharge with reduced use of cardiovascular or respiratory organ support as compared with usual-care thromboprophylaxis..

Recommended citation: The REMAP-CAP, ACTIV-4a, and ATTACC Investigators. Therapeutic Anticoagulation with Heparin in Noncritically Ill Patients with Covid-19. NEJM. Published online August 04, 2021. doi:10.1056/NEJMoa2105911 https://www.nejm.org/doi/full/10.1056/NEJMoa2105911

Therapeutic Anticoagulation with Heparin in Critically Ill Patients with Covid-19

Published in New England Journal of Medicine, 2021

In critically ill patients with Covid-19, an initial strategy of therapeutic-dose anticoagulation with heparin did not result in a greater probability of survival to hospital discharge or a greater number of days free of cardiovascular or respiratory organ support than did usual-care pharmacologic thromboprophylaxis.

Recommended citation: The REMAP-CAP, ACTIV-4a, and ATTACC Investigators. Therapeutic Anticoagulation with Heparin in Critically Ill Patients with Covid-19. NEJM. Published online August 04, 2021. doi:10.1056/NEJMoa2103417 https://www.nejm.org/doi/full/10.1056/NEJMoa2103417

talks

Savage Award Session

Published:

Invited session for the finalists of the Savage award. I presented an overview of my doctoral research on Bayesian modeling and forecasting of time series of counts.

teaching

Teaching experience 1

Undergraduate course, University 1, Department, 2014

This is a description of a teaching experience. You can use markdown like any other post.

Teaching experience 2

Workshop, University 1, Department, 2015

This is a description of a teaching experience. You can use markdown like any other post.