Publications
Browse the list below to see the latest scientific publications stemming from our center faculty’s work. To view publications of specific CHIP faculty, please visit About Us and select a profile link.
- Canning C, Guo J, Narang A, Thomas JD, Ahmad FS The Emerging Role of Artificial Intelligence in Valvular Heart Disease. Heart Fail Clin 2023 Jul;19(3):391-405. doi:10.1016/j.hfc.2023.03.001
- Joo YY, Pacheco JA, Thompson WK, Rasmussen-Torvik LJ, Rasmussen LV, Lin FTJ, Andrade M, Borthwick KM, Bottinger E, Cagan A et al. Multi-ancestry genome- and phenome-wide association studies of diverticular disease in electronic health records with natural language processing enriched phenotyping algorithm. PLoS One 2023;18(5):e0283553. pii:e0283553
- Hoffmann AD, Weinberg SE, Swaminathan S, Chaudhuri S, Almubarak HF, Schipma MJ, Mao C, Wang X, El-Shennawy L, Dashzeveg NK et al. Unique molecular signatures sustained in circulating monocytes and regulatory T cells in convalescent COVID-19 patients. Clin Immunol 2023 May 05;252:109634. doi:10.1016/j.clim.2023.109634
- Patterson V, Ullah F, Bryant L, Griffin JN, Sidhu A, Saliganan S, Blaile M, Saenz MS, Smith R, Ellingwood S et al. Abrogation of MAP4K4 protein function causes congenital anomalies in humans and zebrafish. Sci Adv 2023 Apr 28;9(17):eade0631. pii:eade0631
- Gao CA, Markov NS, Stoeger T, Pawlowski AE, Kang M, Nannapaneni P, Grant RA, Pickens C, Walter JM, Kruser JM et al. Machine learning links unresolving secondary pneumonia to mortality in patients with severe pneumonia, including COVID-19. J Clin Invest 2023 Apr 27;. pii:e170682
- Gao CA, Howard FM, Markov NS, Dyer EC, Ramesh S, Luo Y, Pearson AT Comparing scientific abstracts generated by ChatGPT to real abstracts with detectors and blinded human reviewers. NPJ Digit Med 2023 Apr 26;6(1):75. pii:75
- Bilaver LA, Wang H, Naidech AM, Luo Y, Das R, Sehgal S, Gupta R Natural language processing of pediatric progress notes for the identification of food allergy. J Allergy Clin Immunol Pract 2023 Apr 23;. pii:S2213-2198(23)00421-X
- Wang H, Li Y, Hutch MR, Kline AS, Otero S, Mithal LB, Miller ES, Naidech A, Luo Y Patterns of diverse and changing sentiments towards COVID-19 vaccines: a sentiment analysis study integrating 11 million tweets and surveillance data across over 180 countries. J Am Med Inform Assoc 2023 Apr 19;30(5):923-931. doi:10.1093/jamia/ocad029
- Lutgendorf SK, Zia S, Luo Y, O'Donnell M, van Bokhoven A, Bradley CS, Gallup R, Pierce J, Taple BJ, Naliboff BD et al. Early and recent exposure to adversity, TLR-4 stimulated inflammation, and diurnal cortisol in women with interstitial cystitis/bladder pain syndrome: A MAPP research network study. Brain Behav Immun 2023 Mar 29;111:116-123. doi:10.1016/j.bbi.2023.03.024
- Ross SM, Wang A, Anthony L, Persell SD, Yu J, Kho AN Is more better? The impact of implementing more interventions for hypertension control in a practice facilitation study for small- and medium-sized practices. J Hum Hypertens 2023 Mar 22;. doi:10.1038/s41371-023-00813-1
- Liu Y, Luo Y, Naidech AM Big Data in Stroke: How to Use Big Data to Make the Next Management Decision. Neurotherapeutics 2023 Mar 10;. doi:10.1007/s13311-023-01358-4
- Xiao B, Velez Edwards DR, Lucas A, Drivas T, Gray K, Keating B, Weng C, Jarvik GP, Hakonarson H, Kottyan L et al. Inference of Causal Relationships Between Genetic Risk Factors for Cardiometabolic Phenotypes and Female-Specific Health Conditions. J Am Heart Assoc 2023 Mar 07;12(5):e026561. pii:e026561
- Bunney G, Tran S, Han S, Gu C, Wang H, Luo Y, Dresden S Using Machine Learning to Predict Hospital Disposition With Geriatric Emergency Department Innovation Intervention. Ann Emerg Med 2023 Mar;81(3):353-363. doi:10.1016/j.annemergmed.2022.07.026
- Kim M, Kwasny MJ, Bailey SC, Benavente JY, Zheng P, Bonham M, Luu HQ, Cecil P, Agyare P, O'Conor R et al. MidCog study: a prospective, observational cohort study investigating health literacy, self-management skills and cognitive function in middle-aged adults. BMJ Open 2023 Feb 23;13(2):e071899. pii:e071899
- Brandt PS, Kho A, Luo Y, Pacheco JA, Walunas TL, Hakonarson H, Hripcsak G, Liu C, Shang N, Weng C et al. Characterizing variability of electronic health record-driven phenotype definitions. J Am Med Inform Assoc 2023 Feb 16;30(3):427-437. doi:10.1093/jamia/ocac235
- Gay HC, Yu J, Persell SD, Linder JA, Srivastava A, Isakova T, Huffman MD, Khan SS, Mutharasan RK, Petito LC et al. Comparison of Sodium-Glucose Cotransporter-2 Inhibitor and Glucagon-Like Peptide-1 Receptor Agonist Prescribing in Patients With Diabetes Mellitus With and Without Cardiovascular Disease. Am J Cardiol 2023 Feb 15;189:121-130. doi:10.1016/j.amjcard.2022.10.041
- Ahmad FS, Ahmad T, Allen LA When the Whole Is the Sum of Its Parts: Validation of the Heart Failure Collaboratory Medication Composite Score in Denmark. Circ Heart Fail 2023 Feb;16(2):e010309. doi:10.1161/CIRCHEARTFAILURE.122.010309
- Li Y, Wehbe RM, Ahmad FS, Wang H, Luo Y A comparative study of pretrained language models for long clinical text. J Am Med Inform Assoc 2023 Jan 18;30(2):340-347. doi:10.1093/jamia/ocac225
- Ahmad FS, Persell SD Nudging to Improve Cardiovascular Care-Clinicians, Patients, or Both. JAMA Cardiol 2023 Jan 01;8(1):31-32. doi:10.1001/jamacardio.2022.4382
- Ramgopal S, Sanchez-Pinto LN, Horvat CM, Carroll MS, Luo Y, Florin TA Artificial intelligence-based clinical decision support in pediatrics. Pediatr Res 2023 Jan;93(2):334-341. doi:10.1038/s41390-022-02226-1
- Zeng X, Wang F, Luo Y, Kang SG, Tang J, Lightstone FC, Fang EF, Cornell W, Nussinov R, Cheng F Deep generative molecular design reshapes drug discovery. Cell Rep Med 2022 Dec 20;3(12):100794. pii:100794
- Deng Y, Ghamsari F, Lu A, Yu J, Zhao L, Kho AN Use of real-world evidence data to evaluate the comparative effectiveness of second-line type 2 diabetes medications on chronic kidney disease. J Clin Transl Endocrinol 2022 Dec;30:100309. pii:100309
- Gutiérrez-Sacristán A, Serret-Larmande A, Hutch MR, Sáez C, Aronow BJ, Bhatnagar S, Bonzel CL, Cai T, Devkota B, Hanauer DA et al. Hospitalizations Associated With Mental Health Conditions Among Adolescents in the US and France During the COVID-19 Pandemic. JAMA Netw Open 2022 Dec 01;5(12):e2246548. pii:e2246548
- Xu J, Mao C, Hou Y, Luo Y, Binder JL, Zhou Y, Bekris LM, Shin J, Hu M, Wang F et al. Interpretable deep learning translation of GWAS and multi-omics findings to identify pathobiology and drug repurposing in Alzheimer's disease. Cell Rep 2022 Nov 29;41(9):111717. doi:10.1016/j.celrep.2022.111717
- Levin MG, Tsao NL, Singhal P, Liu C, Vy HMT, Paranjpe I, Backman JD, Bellomo TR, Bone WP, Biddinger KJ et al. Genome-wide association and multi-trait analyses characterize the common genetic architecture of heart failure. Nat Commun 2022 Nov 14;13(1):6914. pii:6914
- Li Y, Wang H, Luo Y Improving Fairness in the Prediction of Heart Failure Length of Stay and Mortality by Integrating Social Determinants of Health. Circ Heart Fail 2022 Nov;15(11):e009473. doi:10.1161/CIRCHEARTFAILURE.122.009473
- Namjou B, Lape M, Malolepsza E, DeVore SB, Weirauch MT, Dikilitas O, Jarvik GP, Kiryluk K, Kullo IJ, Liu C et al. Multiancestral polygenic risk score for pediatric asthma. J Allergy Clin Immunol 2022 Nov;150(5):1086-1096. doi:10.1016/j.jaci.2022.03.035
- Piunti A, Meghani K, Yu Y, Robertson AG, Podojil JR, McLaughlin KA, You Z, Fantini D, Chiang M, Luo Y et al. Immune activation is essential for the antitumor activity of EZH2 inhibition in urothelial carcinoma. Sci Adv 2022 Oct 07;8(40):eabo8043. pii:eabo8043
- Cheema B, Mutharasan RK, Sharma A, Jacobs M, Powers K, Lehrer S, Wehbe FH, Ronald J, Pifer L, Rich JD et al. Augmented Intelligence to Identify Patients With Advanced Heart Failure in an Integrated Health System. JACC Adv 2022 Oct;1(4). pii:100123
- Li Y, Wu X, Yang P, Jiang G, Luo Y Machine Learning for Lung Cancer Diagnosis, Treatment, and Prognosis. Genomics Proteomics Bioinformatics 2022 Oct;20(5):850-866. doi:10.1016/j.gpb.2022.11.003
- Ko D, Forrest N, Mai Q, Pawlowski A, Balsley K, Chung A, Ramsey-Goldman R, Walunas TL Electronic health record data use in the assessment of quality indicators for glucocorticoid osteoporosis screening in systemic lupus erythematosus. Lupus 2022 Oct;31(12):1516-1522. doi:10.1177/09612033221116726
- Ahmad FS, Jackson KL, Yount SE, Rothrock NE, Kallen MA, Lacson L, Bilimoria KY, Kho AN, Mutharasan RK, McCullough PA et al. The development and initial validation of the PROMIS®+HF-27 and PROMIS+HF-10 profiles. ESC Heart Fail 2022 Oct;9(5):3380-3392. doi:10.1002/ehf2.14061
- Kim M, Opsasnick L, Batio S, Benavente JY, Zheng P, Lovett RM, Bailey SC, Kwasny MJ, Ladner DP, Chou SHY et al. Prevalence and risk factors of sleep disturbance in adults with underlying health conditions during the ongoing COVID-19 pandemic. Medicine (Baltimore) 2022 Sep 16;101(37):e30637. pii:e30637
- Luo Y, Paunesku T, Antipova O, Liu Y, Zaluzec NJ, Di Z, Woloschak G, Chen S A reliable workflow for improving nanoscale X-ray fluorescence tomographic analysis on nanoparticle-treated HeLa cells. Metallomics 2022 Sep 01;14(9). pii:mfac025
- Huang S, Lewis MO, Bao Y, Adekkanattu P, Adkins LE, Banerjee S, Bian J, Gellad WF, Goodin AJ, Luo Y et al. Predictive Modeling for Suicide-Related Outcomes and Risk Factors among Patients with Pain Conditions: A Systematic Review. J Clin Med 2022 Aug 17;11(16). pii:4813
- Brandt PS, Pacheco JA, Adekkanattu P, Sholle ET, Abedian S, Stone DJ, Knaack DM, Xu J, Xu Z, Peng Y et al. Design and validation of a FHIR-based EHR-driven phenotyping toolbox. J Am Med Inform Assoc 2022 Aug 16;29(9):1449-1460. doi:10.1093/jamia/ocac063
- Zhao Y, Yu Y, Wang H, Li Y, Deng Y, Jiang G, Luo Y Correction to: Machine Learning in Causal Inference: Application in Pharmacovigilance. Drug Saf 2022 Aug;45(8):927. doi:10.1007/s40264-022-01199-8
- Xu Z, Mao C, Su C, Zhang H, Siempos I, Torres LK, Pan D, Luo Y, Schenck EJ, Wang F Sepsis subphenotyping based on organ dysfunction trajectory. Crit Care 2022 Jul 03;26(1):197. pii:197
- Eickelberg G, Luo Y, Sanchez-Pinto LN Development and validation of MicrobEx: an open-source package for microbiology culture concept extraction. JAMIA Open 2022 Jul;5(2):ooac026. pii:ooac026
- Wang H, Li Y, Naidech A, Luo Y Comparison between machine learning methods for mortality prediction for sepsis patients with different social determinants. BMC Med Inform Decis Mak 2022 Jun 16;22(Suppl 2):156. pii:156
- Zeng C, Bastarache LA, Tao R, Venner E, Hebbring S, Andujar JD, Bland ST, Crosslin DR, Pratap S, Cooley A et al. Association of Pathogenic Variants in Hereditary Cancer Genes With Multiple Diseases. JAMA Oncol 2022 Jun 01;8(6):835-844. doi:10.1001/jamaoncol.2022.0373
- Yu J, Wang AA, Zimmerman LP, Deng Y, Vu TT, Tedla YG, Soulakis ND, Ahmad FS, Kho AN A Cohort Analysis of Statin Treatment Patterns Among Small-Sized Primary Care Practices. J Gen Intern Med 2022 Jun;37(8):1845-1852. doi:10.1007/s11606-021-07191-9
- Tang M, Shin HJ, Metcalf-Doetsch W, Luo Y, Lindholm PF, Kwaan H, Naidech AM Antiplatelet Medications and Biomarkers of Hemostasis May Explain the Association of Hematoma Appearance and Subsequent Hematoma Expansion After Intracerebral Hemorrhage. Neurocrit Care 2022 Jun;36(3):791-796. doi:10.1007/s12028-021-01369-z
- Feng YA, Stanaway IB, Connolly JJ, Denny JC, Luo Y, Weng C, Wei WQ, Weiss ST, Karlson EW, Smoller JW Psychiatric manifestations of rare variation in medically actionable genes: a PheWAS approach. BMC Genomics 2022 May 19;23(1):385. pii:385
- Nguyen AM, Cleland CM, Dickinson LM, Barry MP, Cykert S, Duffy FD, Kuzel AJ, Lindner SR, Parchman ML, Shelley DR et al. Considerations Before Selecting a Stepped-Wedge Cluster Randomized Trial Design for a Practice Improvement Study. Ann Fam Med 2022;20(3):255-261. doi:10.1370/afm.2810
- Zhao Y, Yu Y, Wang H, Li Y, Deng Y, Jiang G, Luo Y Machine Learning in Causal Inference: Application in Pharmacovigilance. Drug Saf 2022 May;45(5):459-476. doi:10.1007/s40264-022-01155-6
- Li Y, Liu Q, Zeng Z, Luo Y Using an Unsupervised Clustering Model to Detect the Early Spread of SARS-CoV-2 Worldwide. Genes (Basel) 2022 Apr 07;13(4). pii:648
- Ahmad FS, Luo Y, Wehbe RM, Thomas JD, Shah SJ Advances in Machine Learning Approaches to Heart Failure with Preserved Ejection Fraction. Heart Fail Clin 2022 Apr;18(2):287-300. doi:10.1016/j.hfc.2021.12.002
- Hophan SL, Odnokoz O, Liu H, Luo Y, Khan S, Gradishar W, Zhou Z, Badve S, Torres MA, Wan Y Ductal Carcinoma In Situ of Breast: From Molecular Etiology to Therapeutic Management. Endocrinology 2022 Apr 01;163(4). pii:bqac027
- Zeng Z, Li Y, Li Y, Luo Y Statistical and machine learning methods for spatially resolved transcriptomics data analysis. Genome Biol 2022 Mar 25;23(1):83. pii:83