By Dr Matthew Scotch

Journal articles

Scotch M; Parmanto B; Monaco V, 2007, 'Usability evaluation of the Spatial OLAP Visualization and Analysis Tool (SOVAT)', Journal of Usability Studies, 2, pp. 76 - 95

Scotch M; Parmanto B; Gadd CS; Sharma RK, 2006, 'Exploring the role of GIS during community health assessment problem solving: experiences of public health professionals', International Journal of Health Geographics, 5, pp. 39 - 39

Scotch M; Parmanto B, 2006, 'Development of SOVAT: a numerical-spatial decision support system for community health assessment research', International Journal of Medical Informatics, 75, pp. 771 - 784

Parmanto B; Scotch M; Ahmad S, 2005, 'A framework for designing a healthcare outcome data warehouse', Perspectives in health information management / AHIMA, American Health Information Management Association, 2, pp. 3 - 3

Conference Papers

Wu Y; Namilae S; Mubayi A; Scotch M; Srinivasan A, 2022, 'Incorporating Pedestrian Movement in Computational Models of COVID-19 Spread during Air-travel', in IEEE Aerospace Conference Proceedings, http://dx.doi.org/10.1109/AERO53065.2022.9843497

Weissenbacher D; Magge A; O'Connor K; Scotch M; Gonzalez-Hernandez G, 2019, 'SemEval-2019 task 12: Toponym resolution in scientific papers', in NAACL HLT 2019 - International Workshop on Semantic Evaluation, SemEval 2019, Proceedings of the 13th Workshop, pp. 907 - 916

Magge A; Weissenbacher D; Sarker A; Scotch M; Gonzalez-Hernandez G, 2018, 'Deep neural networks and distant supervision for geographic location mention extraction', in Bioinformatics, pp. i565 - i573, http://dx.doi.org/10.1093/bioinformatics/bty273

Magge A; Scotch M; Gonzalez-Hernandez G, 2018, 'Clinical NER and Relation Extraction using Bi-Char-LSTMs and Random Forest Classifiers', in Proceedings of Machine Learning Research, pp. 25 - 30

Magge A; Scotch M; Gonzalez G, 2017, 'CSaRUS-CNN at AMIA-2017 Tasks 1, 2: Under sampled CNN for text classification', in CEUR Workshop Proceedings, pp. 76 - 78

Paul MJ; Sarker A; Brownstein JS; Nikfarjam A; Scotch M; Smith KL; Gonzalez G, 2016, 'Social media mining for public health monitoring and surveillance', in Pacific Symposium on Biocomputing 2016, PSB 2016, Kohala Coast, Hawaii, USA, pp. 468 - 479, presented at Pacific Symposium on Biocomputing (PSB) 2016, Kohala Coast, Hawaii, USA, 04 January 2016 - 08 January 2016, https://psb.stanford.edu/psb-online/proceedings/psb16/intro-smm.pdf

Magee D; Beard R; Scotch M, 2015, 'Analyses of Merging Clinical and Viral Genetic Data for Influenza Surveillance', in Proceedings - a conference of the American Medical Informatics Association / . AMIA Annual Fall Symposium. AMIA Fall Symposium, San Francisco, CA, pp. 1995 - 2004, presented at American Medical Informatics Association Annual Conference, San Francisco, CA, 14 November 2015 - 18 November 2015

Magee D; Scotch M, 2015, 'Conceptualizing a Novel Quasi-Continuous Bayesian Phylogeographic Framework for Spatiotemporal Hypothesis Testing.', San Francisco, CA, presented at AMIA Jt Summits Transl Sci Proc, San Francisco, CA, 23 March 2015 - 27 March 2015, https://www.ncbi.nlm.nih.gov/pubmed/26306274

Scotch M; Suchard MA; Rabinowitz PM, 2015, 'Analysis of Viral Genetics for Estimating Diffusion of Influenza A H6N1', in American Medical Informatics Association Joint Summits on Translational Science, San Francisco, CA, pp. 36 - 40, presented at American Medical Informatics Association Joint Summints on Translational Science, San Francisco, CA, 23 March 2015 - 27 March 2015

Beard R; Magee D; Suchard MA; Lemey P; Scotch M, 2014, 'Generalized linear models for identifying predictors of the evolutionary diffusion of viruses.', San Francisco, CA, pp. 23 - 28, presented at American Medical Informatics Association Joint Summits on Translational Science, San Francisco, CA, 07 April 2014 - 11 April 2014, https://www.ncbi.nlm.nih.gov/pmc/articles/PMC4333690/

Tahsin T; Beard R; Rivera R; Lauder R; Wallstrom G; Scotch M; Gonzalez G, 2014, 'Natural language processing methods for enhancing geographic metadata for phylogeography of zoonotic viruses.', San Francisco, CA, pp. 102 - 111, presented at American Medical Informatics Association Joint Summints on Translational Science, San Francisco, CA, 07 April 2014 - 11 April 2014, https://www.ncbi.nlm.nih.gov/pmc/articles/PMC4333696/

Tahsin T; Lauder R; Beard R; Weissenbacher D; Rivera R; Wallstrom G; Scotch M; Gonzalez G, 2014, 'Natural Language Processing Methods for Enhancing Geographic Metadata for Phylogeography of Zoonotic Viruses', in Proceedings of the Annual Meeting of the Association for Computational Linguistics, pp. 1 - 9

Tahsin T; Beard R; Rivera R; Lauder R; Wallstrom G; Scotch M; Gonzalez G, 2014, 'Natural language processing methods for enhancing geographic metadata for phylogeography of zoonotic viruses.', in AMIA Jt Summits Transl Sci Proc, United States, pp. 102 - 111, United States, https://www.ncbi.nlm.nih.gov/pubmed/25717409

Duggal M; Ebisu K; Scotch M; Anderson D; Brandt CA; Justice AC, 2010, 'GEOGRAPHIC VARIATION OF MISSED VISITS AMONG HIV INFECTED VETERANS', in JOURNAL OF GENERAL INTERNAL MEDICINE, SPRINGER, MN, Minneapolis, pp. 285 - 285, presented at 33rd Annual Meeting of the Society-of-General-Internal-Medicine, MN, Minneapolis, 18 April 2010 - 01 May 2010, https://www.webofscience.com/api/gateway?GWVersion=2&SrcApp=PARTNER_APP&SrcAuth=LinksAMR&KeyUT=WOS:000277282300181&DestLinkType=FullRecord&DestApp=ALL_WOS&UsrCustomerID=891bb5ab6ba270e68a29b250adbe88d1

Ohl M; Vaughan-Sarrazin M; Kaboli P; Scotch M; Skanderson M; Tate J; Duggal M; Justice A, 2010, 'RURAL RESIDENCE IS ASSOCIATED WITH INCREASED MORTALITY AMONG VETERANS INITIATING HIGHLY ACTIVE ANTIRETROVIRAL THERAPY FOR HIV INFECTION', in JOURNAL OF GENERAL INTERNAL MEDICINE, SPRINGER, MN, Minneapolis, pp. 386 - 387, presented at 33rd Annual Meeting of the Society-of-General-Internal-Medicine, MN, Minneapolis, 18 April 2010 - 01 May 2010, https://www.webofscience.com/api/gateway?GWVersion=2&SrcApp=PARTNER_APP&SrcAuth=LinksAMR&KeyUT=WOS:000277282300397&DestLinkType=FullRecord&DestApp=ALL_WOS&UsrCustomerID=891bb5ab6ba270e68a29b250adbe88d1

Scotch M; Parmanto B, 2005, 'SOVAT: Spatial OLAP visualization and analysis tool', in Proceedings of the Annual Hawaii International Conference on System Sciences, pp. 142

Scotch M; Hripcsak G, 2002, 'The companion project - A wearable computing device for the patient for reducing medical errors and improving patient care', in Kohane IS (ed.), AMIA 2002 SYMPOSIUM, PROCEEDINGS, HANLEY & BELFUS INC MED PUBLISHERS, TX, San Antonio, pp. 1157 - 1157, presented at Annual Symposium of the American-Medical-Informatics-Association, TX, San Antonio, 09 November 2002 - 09 November 2002, https://www.webofscience.com/api/gateway?GWVersion=2&SrcApp=PARTNER_APP&SrcAuth=LinksAMR&KeyUT=WOS:000189418100390&DestLinkType=FullRecord&DestApp=ALL_WOS&UsrCustomerID=891bb5ab6ba270e68a29b250adbe88d1

Scotch M; Parmanto B, 'SOVAT: Spatial OLAP Visualization and Analysis Tool', in Proceedings of the 38th Annual Hawaii International Conference on System Sciences, IEEE, pp. 142b - 142b, presented at 38th Annual Hawaii International Conference on System Sciences, http://dx.doi.org/10.1109/hicss.2005.550

Preprints

O'Connor K; Weissenbacher D; Elyaderani A; Lautenbach E; Scotch M; Gonzalez-Hernandez G, 2024, Patient-Related Metadata Reported in Sequencing Studies of SARS-CoV-2: Protocol for a Scoping Review and Bibliometric Analysis., http://dx.doi.org/10.1101/2023.07.14.23292681

Stone H; Jindal M; Lim S; Dawson R; Quigley A; Scotch M; MacIntyre R, 2024, Potential Pathways of Spread of Highly Pathogenic Avian Influenza A/H5N1 Clade 2.3.4.4b Across Dairy Farms in the United States, http://dx.doi.org/10.1101/2024.05.02.24306785

Weissenbacher D; O'Connor K; Klein A; Golder S; Flores I; Elyaderani A; Scotch M; Gonzalez-Hernandez G, 2023, Text mining biomedical literature to identify extremely unbalanced data for digital epidemiology and systematic reviews: dataset and methods for a SARS-CoV-2 genomic epidemiology study., http://dx.doi.org/10.1101/2023.07.29.23293370

Magge A; Weissenbacher D; O'Connor K; Scotch M; Gonzalez-Hernandez G, 2022, SEED: Symptom Extraction from English Social Media Posts using Deep Learning and Transfer Learning., http://dx.doi.org/10.1101/2021.02.09.21251454

Bowes DA; Driver EM; Kraberger S; Fontenele RS; Holland LA; Wright J; Johnston B; Savic S; Newell ME; Adhikari S; Kumar R; Goetz H; Binsfeld A; Nessi K; Watkins P; Mahant A; Zevitz J; Deitrick S; Brown P; Dalton R; Garcia C; Inchausti R; Holmes W; Tian X-J; Varsani A; Lim ES; Scotch M; Halden RU, 2021, Unrestricted Online Sharing of High-frequency, High-resolution Data on SARS-CoV-2 in Wastewater to Inform the COVID-19 Public Health Response in Greater Tempe, Arizona, http://dx.doi.org/10.1101/2021.07.29.21261338

Namilae S; Wu Y; Mubayi A; Srinivasan A; Scotch M, 2021, Identifying Mitigation Strategies for COVID-19 Superspreading on Flights using Models that Account for Passenger Movement, http://dx.doi.org/10.48550/arxiv.2106.10313

Adam D; Chen X; Scotch M; MacIntyre CR; Dwyer D; Kok J, 2020, The Molecular Epidemiology and Clinical Phylogenetics of Rhinoviruses among Paediatric Cases in Sydney, Australia., http://dx.doi.org/10.22541/au.160614561.14239652/v1

Islam T; Lahijani MS; Srinivasan A; Namilae S; Mubayi A; Scotch M, 2020, From Bad to Worse: Airline Boarding Changes in Response to COVID-19, http://dx.doi.org/10.48550/arxiv.2006.06403

Holland LA; Kaelin EA; Maqsood R; Estifanos B; Wu LI; Varsani A; Halden RU; Hogue BG; Scotch M; Lim ES, 2020, An 81 base-pair deletion in SARS-CoV-2 ORF7a identified from sentinel surveillance in Arizona (Jan-Mar 2020)., http://dx.doi.org/10.1101/2020.04.17.20069641

Ngonghala CN; Iboi E; Eikenberry S; Scotch M; MacIntyre CR; Bonds MH; Gumel AB, 2020, Mathematical assessment of the impact of non-pharmaceutical interventions on curtailing the 2019 novel Coronavirus, http://dx.doi.org/10.48550/arxiv.2004.07391

Ngonghala C; Iboi E; Eikenberry S; Scotch M; MacIntyre CR; Bonds M; Gumel A, 2020, Mathematical assessment of the impact of non-pharmaceutical interventions on curtailing the 2019 novel Coronavirus, http://dx.doi.org/10.1101/2020.04.15.20066480

Namilae S; Srinivasan A; Mubayi A; Scotch M; Pahle R, 2016, Self-Propelled Pedestrian Dynamics Model: Application to Passenger Movement and Infection Propagation in Airplanes, http://dx.doi.org/10.48550/arxiv.1603.08380

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