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.

  1. 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
  2. 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
  3. 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
  4. 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
  5. 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
  6. 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
  7. 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
  8. 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
  9. 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
  10. 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
  11. 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
  12. 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
  13. 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
  14. 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
  15. 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
  16. 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
  17. 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
  18. 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
  19. 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
  20. 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
  21. 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
  22. 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
  23. 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
  24. 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
  25. 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
  26. 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
  27. 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
  28. 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
  29. 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
  30. 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
  31. 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
  32. 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
  33. 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
  34. 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
  35. 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
  36. 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
  37. 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
  38. 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
  39. 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
  40. 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
  41. 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
  42. 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
  43. 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
  44. 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
  45. 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
  46. 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
  47. 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
  48. 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
  49. 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
  50. 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

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