Publications

  1. Athreya AP, Vande Voort JL, Shekunov J, Rackley SJ, Leffler JM, McKean AJ, Romanowicz M, Kennard BD, Emslie GJ, Mayes T, Trivedi M, Wang L, Weinshilboum RM, Bobo WV, Croarkin PE. Evidence for machine learning guided early prediction of acute outcomes in the treatment of depressed children and adolescents with antidepressants. J Child Psychol Psychiatry. 2022 Nov; 63 (11):1347-1358 Epub 2022 Mar 15
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  2. Oesterle TS, Karpyak VM, Coombes BJ, Athreya AP, Breitinger SA, Correa da Costa S, Dana Gerberi DJ. Systematic review: Wearable remote monitoring to detect nonalcohol/nonnicotine-related substance use disorder symptoms. Am J Addict. 2022 Nov; 31 (6):535-545 Epub 2022 Sept 05
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  3. Kumar R, Garzon J, Yuruk D, Hassett LC, Saliba M, Ozger C, Oztosun C, Ahern K, Athreya AP, Singh B, Croarkin PE, Vande Voort JL. Efficacy and safety of lamotrigine in pediatric mood disorders: A systematic review. Acta Psychiatr Scand. 2022 Sep 9 Epub 2022 Sept 09
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  4. Bobo WV, Van Ommeren B, Athreya AP. Machine learning, pharmacogenomics, and clinical psychiatry: predicting antidepressant response in patients with major depressive disorder. Expert Rev Clin Pharmacol. 2022 Aug; 15 (8):927-944 Epub 2022 Aug 21
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  5. Zhang L, Sarangi V, Liu D, Ho MF, Grassi AR, Wei L, Moon I, Vierkant RA, Larson NB, Lazaridis KN, Athreya AP, Wang L, Weinshilboum R. ACE2 and TMPRSS2 SARS-CoV-2 infectivity genes: deep mutational scanning and characterization of missense variants. Hum Mol Genet. 2022 Jul 21 Epub 2022 July 21
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  6. Duong SQ, Crowson CS, Athreya A, Atkinson EJ, Davis JM 3rd, Warrington KJ, Matteson EL, Weinshilboum R, Wang L, Myasoedova E. Clinical predictors of response to methotrexate in patients with rheumatoid arthritis: a machine learning approach using clinical trial data. Arthritis Res Ther. 2022 Jul 1; 24 (1):162 Epub 2022 July 01
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  7. Zhang C, Virani S, Mayes T, Carmody T, Croarkin PE, Weinshilboum R, Rush AJ, Trivedi M, Athreya AP, Bobo WV. Toward a Definition of "No Meaningful Benefit" From Antidepressant Treatment: An Equipercentile Analysis With Cross-Trial Validation Across Multiple Rating Scales. J Clin Psychiatry. 2022 Jun 27; 83 (4) Epub 2022 June 27
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  8. Myasoedova E, Athreya AP, Crowson CS, Davis JM 3rd, Warrington KJ, Walchak RC, Carlson E, Kalari KR, Bongartz T, Tak PP, van Vollenhoven RF, Padyukov L, Emery P, Morgan A, Wang L, Weinshilboum RM, Matteson EL, Pharmacogenetics of Methotrexate in Rheumatoid Arthritis Consortium. Toward Individualized Prediction of Response to Methotrexate in Early Rheumatoid Arthritis: A Pharmacogenomics-Driven Machine Learning Approach. Arthritis Care Res (Hoboken). 2022 Jun; 74 (6):879-888 Epub 2022 Apr 06
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  9. Zhang CY, Voort JLV, Yuruk D, Mills JA, Emslie GJ, Kennard BD, Mayes T, Trivedi M, Bobo WV, Strawn JR, Athreya AP, Croarkin PE. A Characterization of the Clinical Global Impression Scale Thresholds in the Treatment of Adolescent Depression Across Multiple Rating Scales. J Child Adolesc Psychopharmacol. 2022 Jun; 32 (5):278-287
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  10. Welch V, Wy TJ, Ligezka A, Hassett LC, Croarkin PE, Athreya AP, Romanowicz M. Use of Mobile and Wearable Artificial Intelligence in Child and Adolescent Psychiatry: Scoping Review. J Med Internet Res. 2022 Mar 14; 24 (3):e33560
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  11. Grant CW, Barreto EF, Kumar R, Kaddurah-Daouk R, Skime M, Mayes T, Carmody T, Biernacka J, Wang L, Weinshilboum R, Trivedi MH, Bobo WV, Croarkin PE, Athreya AP. Multi-Omics Characterization of Early- and Adult-Onset Major Depressive Disorder. J Pers Med. 2022 Mar 6; 12 (3) Epub 2022 Mar 06
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  12. Wang C, Hu Y, Nakonezny PA, Melo V, Ale C, Athreya AP, Shekunov J, Lynch R, Croarkin PE, Romanowicz M. A Retrospective Examination of the Impact of Pharmacotherapy on Parent-Child Interaction Therapy. J Child Adolesc Psychopharmacol. 2021 Dec; 31 (10):685-691 Epub 2021 July 28
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  13. Sonmez AI, Lewis CP, Port JD, Athreya AP, Choi DS, Zaccariello MJ, Shekunov J, Blacker CJ, Croarkin PE. A pilot spectroscopy study of adversity in adolescents. Biomark Neuropsychiatry. 2021 Dec; 5 Epub 2021 Oct 02
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  14. Joyce JB, Grant CW, Liu D, MahmoudianDehkordi S, Kaddurah-Daouk R, Skime M, Biernacka J, Frye MA, Mayes T, Carmody T, Croarkin PE, Wang L, Weinshilboum R, Bobo WV, Trivedi MH, Athreya AP. Multi-omics driven predictions of response to acute phase combination antidepressant therapy: a machine learning approach with cross-trial replication. Transl Psychiatry. 2021 Oct 7; 11 (1):513 Epub 2021 Oct 07
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  15. Athreya AP, Lazaridis KN. Discovery and Opportunities With Integrative Analytics Using Multiple-Omics Data. Hepatology. 2021 Aug; 74 (2):1081-1087 Epub 2021 July 04
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  16. Athreya AP, Bruckl T, Binder EB, John Rush A, Biernacka J, Frye MA, Neavin D, Skime M, Monrad D, Iyer RK, Mayes T, Trivedi M, Carter RE, Wang L, Weinshilboum RM, Croarkin PE, Bobo WV. Prediction of short-term antidepressant response using probabilistic graphical models with replication across multiple drugs and treatment settings. Neuropsychopharmacology. 2021 Jun; 46 (7):1272-1282 Epub 2021 Jan 15
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  17. Sonmez AI, Lewis CP, Athreya AP, Shekunov J, Croarkin PE. Preliminary Evidence for Anhedonia as a Marker of Sexual Trauma in Female Adolescents. Adolesc Health Med Ther. 2021; 12:67-75 Epub 2021 June 14
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  18. Zayas J, Ruddy KJ, Olson JE, Couch FJ, Bauer BA, Mallory MJ, Yang P, Zahrieh D, Athreya AP, Loprinzi CL, Cathcart-Rake EJ. Real-world experiences with acupuncture among breast cancer survivors: a cross-sectional survey study. Support Care Cancer. 2020 Dec; 28 (12):5833-5838 Epub 2020 Apr 06
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  19. Nguyen TTL, Liu D, Ho MF, Athreya AP, Weinshilboum R. Selective Serotonin Reuptake Inhibitor Pharmaco-Omics: Mechanisms and Prediction. Front Pharmacol. 2020; 11:614048 Epub 2021 Jan 11
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  20. Iyer Ravishankar, Athreya Arjun, Wang Liewei, Weinshilboum Richard. Artificial Intelligence and Pharmacogenomics: A Timely Synergy for Individualizing Medicine Advances in Molecular Pathology. 2019.
  21. Athreya AP, Neavin D, Carrillo-Roa T, Skime M, Biernacka J, Frye MA, Rush AJ, Wang L, Binder EB, Iyer RK, Weinshilboum RM, Bobo WV. Pharmacogenomics-Driven Prediction of Antidepressant Treatment Outcomes: A Machine-Learning Approach With Multi-trial Replication. Clin Pharmacol Ther. 2019 Oct; 106 (4):855-865 Epub 2019 June 29
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  22. Athreya A, Iyer R, Neavin D, Wang L, Weinshilboum R, Kaddurah-Daouk R, Rush J, Frye M, Bobo W. Augmentation of Physician Assessments with Multi-Omics Enhances Predictability of Drug Response: A Case Study of Major Depressive Disorder. IEEE Comput Intell Mag. 2018 Aug; 13 (3):20-31 Epub 2018 July 20
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  23. Athreya AP, Gaglio AJ, Cairns J, Kalari KR, Weinshilboum RM, Wang L, Kalbarczyk ZT, Iyer RK. Machine Learning Helps Identify New Drug Mechanisms in Triple-Negative Breast Cancer. IEEE Trans Nanobioscience. 2018 Jul; 17 (3):251-259 Epub 2018 July 02
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  24. Liu D, Ray B, Neavin DR, Zhang J, Athreya AP, Biernacka JM, Bobo WV, Hall-Flavin DK, Skime MK, Zhu H, Jenkins GD, Batzler A, Kalari KR, Boakye-Agyeman F, Matson WR, Bhasin SS, Mushiroda T, Nakamura Y, Kubo M, Iyer RK, Wang L, Frye MA, Kaddurah-Daouk R, Weinshilboum RM. Beta-defensin 1, aryl hydrocarbon receptor and plasma kynurenine in major depressive disorder: metabolomics-informed genomics. Transl Psychiatry. 2018 Jan 10; 8 (1):10
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  25. Athreya AP, Armstrong D, Gundling W, Wildman D, Kalbarczyk ZT, Iyer RK. Prediction of adenocarcinoma development using game theory. Conf Proc IEEE Eng Med Biol Soc. 2017 Jul; 2017:1668-1671
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  26. Athreya AP, Kalari KR, Cairns J, Gaglio AJ, Wills QF, Niu N, Weinshilboum R, Iyer RK, Wang L. Model-based unsupervised learning informs metformin-induced cell-migration inhibition through an AMPK-independent mechanism in breast cancer. Oncotarget. 2017 Apr 18; 8 (16):27199-27215
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  27. Athreya AP, Gaglio AJ, Kalbarczyk ZT, Iyer RK, Cairns J, Kalari KR, Weinshilboum RM, Wang L. Unsupervised single-cell analysis in triple-negative breast cancer: A case study Proceedings - 2016 IEEE International Conference on Bioinformatics and Biomedicine, BIBM 2016. 2017; 556-63.
  28. Athreya AP, Banerjee SS, Neavin D, Kaddurah-Daouk R, Rush AJ, Frye MA, Wang L, Weinshilboum RM, Bobo WV, Iyer RK. Data-driven longitudinal modeling and prediction of symptom dynamics in major depressive disorder: Integrating factor graphs and learning methods 2017 IEEE Conference on Computational Intelligence in Bioinformatics and Computational Biology, CIBCB 2017. 2017; 8058559
  29. Athreya A, Banerjee Subho, Mainzer Liudmila S, Jongeneel C Victor, Hwu Wen-Mei, Kalbarczyk Zbigniew T, Iyer Ravishankar K. Efficient and scalable workflows for genomic analyses Proceedings of the ACM International Workshop on Data-Intensive Distributed Computing. 2016; 27-36.
  30. Athreya A, DeBruhl Bruce, Tague Patrick. Designing for self-configuration and self-adaptation in the Internet of Things 9th IEEE International Conference on Collaborative Computing: Networking, Applications and Worksharing. 2013; 585-592.
  31. Athreya A, Tague Patrick. Network self-organization in the internet of things 2013 IEEE international workshop of internet-of-things networking and control (IoT-NC). 2013; 25-33.
  32. Athreya A, Tague Patrick. Self-organization of a mesh hierarchy for smart grid monitoring in outage scenarios 2013 IEEE PES Innovative Smart Grid Technologies Conference (ISGT). 2013; 1-6.
  33. Athreya A, Tague Patrick. Survivable smart grid communication: Smart-meters meshes to the rescue 2012 International Conference on Computing, Networking and Communications (ICNC). 2012.
  34. Athreya A, Tague Patrick. Towards secure multi-path routing for wireless mobile ad-hoc networks: a cross-layer strategy 2011 8th Annual IEEE Communications Society Conference on Sensor, Mesh and Ad Hoc Communications and Networks. 2011; 146-148.