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For: Wei WQ, Bastarache LA, Carroll RJ, Marlo JE, Osterman TJ, Gamazon ER, Cox NJ, Roden DM, Denny JC. Evaluating phecodes, clinical classification software, and ICD-9-CM codes for phenome-wide association studies in the electronic health record. PLoS One 2017;12:e0175508. [PMID: 28686612 PMCID: PMC5501393 DOI: 10.1371/journal.pone.0175508] [Citation(s) in RCA: 250] [Impact Index Per Article: 31.3] [Reference Citation Analysis] [What about the content of this article? (0)] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 09/13/2016] [Accepted: 03/27/2017] [Indexed: 12/20/2022]  Open
Number Cited by Other Article(s)
1
Dai L, Liu Z, Guo C, Fan H, Zhang C, Huang J, Zhang X, Zhao S, Wang H, Zhang T. Proteomic insights into metabolic dysfunction-associated steatotic disease: Identifying therapeutic targets and assessing on-target side effects. Life Sci 2025;373:123665. [PMID: 40287056 DOI: 10.1016/j.lfs.2025.123665] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 09/05/2024] [Revised: 03/24/2025] [Accepted: 04/21/2025] [Indexed: 04/29/2025]
2
Yan C, Grabowska ME, Thakkar R, Dickson AL, Embí PJ, Feng Q, Denny JC, Kerchberger VE, Malin BA, Wei WQ. Beyond Phecodes: leveraging PheMAP to identify patients lacking diagnosis codes in electronic health records. J Am Med Inform Assoc 2025;32:1007-1014. [PMID: 40156924 DOI: 10.1093/jamia/ocaf055] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 11/22/2024] [Revised: 02/16/2025] [Accepted: 03/18/2025] [Indexed: 04/01/2025]  Open
3
Zhang R, Hou Y, Cui E, Lim K, Chow L, Howell M, Ikramuddin S. Association of Physical Activity from Wearable Devices and Chronic Disease Risk: Insights from the All of Us Research Program. RESEARCH SQUARE 2025:rs.3.rs-6263507. [PMID: 40386402 PMCID: PMC12083687 DOI: 10.21203/rs.3.rs-6263507/v1] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Grants] [Track Full Text] [Download PDF] [Figures] [Subscribe] [Scholar Register] [Indexed: 05/25/2025]
4
Paz V, Wilcox H, Goodman M, Wang H, Garfield V, Saxena R, Dashti HS. Associations of a multidimensional polygenic sleep health score and a sleep lifestyle index with disease outcomes and their interaction in a clinical biobank. Sleep Health 2025:S2352-7218(25)00041-5. [PMID: 40222844 DOI: 10.1016/j.sleh.2025.02.009] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 06/17/2024] [Revised: 02/10/2025] [Accepted: 02/24/2025] [Indexed: 04/15/2025]
5
Allaire P, Fox J, Kitchner T, Gabor R, Folz C, Bettadahalli S, Hebbring S. Familial Renal Glucosuria and Potential Pharmacogenetic Impact on Sodium-Glucose Cotransporter-2 Inhibitors. KIDNEY360 2025;6:521-530. [PMID: 39412882 PMCID: PMC12045503 DOI: 10.34067/kid.0000000621] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Received: 01/17/2024] [Accepted: 10/09/2024] [Indexed: 10/18/2024]
6
Neylan CJ, Levin MG, Hartmann K, Beigel K, Khodursky S, DePaolo JS, Abramowitz S, Furth EE, Heuckeroth RO, Damrauer SM, Maguire LH. Genome-wide association meta-analysis identifies 126 novel loci for diverticular disease and implicates connective tissue and colonic motility. MEDRXIV : THE PREPRINT SERVER FOR HEALTH SCIENCES 2025:2025.03.27.25324777. [PMID: 40196262 PMCID: PMC11974943 DOI: 10.1101/2025.03.27.25324777] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Grants] [Track Full Text] [Download PDF] [Subscribe] [Scholar Register] [Indexed: 04/09/2025]
7
Tozzo V, Zhang LH, Ranganath R, Higgins JM. Transformer-based artificial intelligence on single-cell clinical data for homeostatic mechanism inference and rational biomarker discovery. MEDRXIV : THE PREPRINT SERVER FOR HEALTH SCIENCES 2025:2025.03.24.25324556. [PMID: 40196278 PMCID: PMC11974774 DOI: 10.1101/2025.03.24.25324556] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Subscribe] [Scholar Register] [Indexed: 04/09/2025]
8
Zhong X, Jia G, Yin Z, Cheng K, Rzhetsky A, Li B, Cox NJ. Longitudinal Analysis of Electronic Health Records Reveals Medical Conditions Associated with Subsequent Alzheimer's Disease Development. MEDRXIV : THE PREPRINT SERVER FOR HEALTH SCIENCES 2025:2025.03.22.25324197. [PMID: 40196258 PMCID: PMC11974777 DOI: 10.1101/2025.03.22.25324197] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Grants] [Track Full Text] [Download PDF] [Subscribe] [Scholar Register] [Indexed: 04/09/2025]
9
Yang L, Sadler MC, Altman RB. Genetic association studies using disease liabilities from deep neural networks. Am J Hum Genet 2025;112:675-692. [PMID: 39986278 PMCID: PMC11948217 DOI: 10.1016/j.ajhg.2025.01.019] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 09/05/2024] [Revised: 01/23/2025] [Accepted: 01/24/2025] [Indexed: 02/24/2025]  Open
10
Zheng SL, Jurgens SJ, McGurk KA, Xu X, Grace C, Theotokis PI, Buchan RJ, Francis C, de Marvao A, Curran L, Bai W, Pua CJ, Tang HC, Jorda P, van Slegtenhorst MA, Verhagen JMA, Harper AR, Ormondroyd E, Chin CWL, Pantazis A, Baksi J, Halliday BP, Matthews P, Pinto YM, Walsh R, Amin AS, Wilde AAM, Cook SA, Prasad SK, Barton PJR, O'Regan DP, Lumbers RT, Goel A, Tadros R, Michels M, Watkins H, Bezzina CR, Ware JS. Evaluation of polygenic scores for hypertrophic cardiomyopathy in the general population and across clinical settings. Nat Genet 2025;57:563-571. [PMID: 39966645 PMCID: PMC11906360 DOI: 10.1038/s41588-025-02094-5] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 03/30/2023] [Accepted: 01/21/2025] [Indexed: 02/20/2025]
11
Zhou Y, Xiang B, Yang X, Ren Y, Gu X, Zhou X. Unsupervised Learning-Derived Complex Metabolic Signatures Refine Cardiometabolic Risk. JACC. ADVANCES 2025;4:101620. [PMID: 39983615 PMCID: PMC11891690 DOI: 10.1016/j.jacadv.2025.101620] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Subscribe] [Scholar Register] [Received: 09/26/2024] [Revised: 01/14/2025] [Accepted: 01/17/2025] [Indexed: 02/23/2025]
12
Xin Y, Grabowska ME, Gangireddy S, Krantz MS, Kerchberger VE, Dickson AL, Feng Q, Yin Z, Wei WQ. Improving topic modeling performance on social media through semantic relationships within biomedical terminology. PLoS One 2025;20:e0318702. [PMID: 39982945 PMCID: PMC11845042 DOI: 10.1371/journal.pone.0318702] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [MESH Headings] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 09/18/2024] [Accepted: 01/20/2025] [Indexed: 02/23/2025]  Open
13
Thapa R, Kjær MR, He B, Covert I, Moore H, Hanif U, Ganjoo G, Westover MB, Jennum P, Brink-Kjær A, Mignot E, Zou J. A Multimodal Sleep Foundation Model Developed with 500K Hours of Sleep Recordings for Disease Predictions. MEDRXIV : THE PREPRINT SERVER FOR HEALTH SCIENCES 2025:2025.02.04.25321675. [PMID: 39974074 PMCID: PMC11838666 DOI: 10.1101/2025.02.04.25321675] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Grants] [Track Full Text] [Download PDF] [Subscribe] [Scholar Register] [Indexed: 02/21/2025]
14
Wan NC, Grabowska ME, Kerchberger VE, Wei WQ. Exploring beyond diagnoses in electronic health records to improve discovery: a review of the phenome-wide association study. JAMIA Open 2025;8:ooaf006. [PMID: 40041255 PMCID: PMC11879097 DOI: 10.1093/jamiaopen/ooaf006] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Grants] [Track Full Text] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 10/11/2024] [Revised: 12/30/2024] [Accepted: 01/24/2025] [Indexed: 03/06/2025]  Open
15
Wheless L, Mosley D, Dochtermann D, Pyarajan S, Gonzalez K, Weiss R, Maas K, Zhang S, Yao L, Xu Y, Madden C, Ike J, Smith IT, Grossarth S, Wilson O, Hung A, Fillmore NR, Brown K, Landi MT, Hartman RI. The impact of imprecise case definitions in electronic health record research: a melanoma case-study from the Million Veteran Program. Arch Dermatol Res 2025;317:308. [PMID: 39853431 DOI: 10.1007/s00403-024-03780-w] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 09/27/2024] [Revised: 12/26/2024] [Accepted: 12/29/2024] [Indexed: 01/26/2025]
16
Steinfeldt J, Wild B, Buergel T, Pietzner M, Upmeier Zu Belzen J, Vauvelle A, Hegselmann S, Denaxas S, Hemingway H, Langenberg C, Landmesser U, Deanfield J, Eils R. Medical history predicts phenome-wide disease onset and enables the rapid response to emerging health threats. Nat Commun 2025;16:585. [PMID: 39794311 PMCID: PMC11724087 DOI: 10.1038/s41467-025-55879-x] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 08/14/2024] [Accepted: 01/02/2025] [Indexed: 01/13/2025]  Open
17
Gunn S, Wang X, Posner DC, Cho K, Huffman JE, Gaziano M, Wilson PW, Sun YV, Peloso G, Lunetta KL. Comparison of methods for building polygenic scores for diverse populations. HGG ADVANCES 2025;6:100355. [PMID: 39323095 PMCID: PMC11532986 DOI: 10.1016/j.xhgg.2024.100355] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 02/13/2024] [Revised: 09/22/2024] [Accepted: 09/22/2024] [Indexed: 09/27/2024]  Open
18
Justice A, Kelly MA, Bellus G, Green JD, Zaidi R, Kerrins T, Josyula N, Luperchio TR, Kozel BA, Williams MS. Phenotypic findings associated with variation in elastin. HGG ADVANCES 2025;6:100388. [PMID: 39604264 PMCID: PMC11730535 DOI: 10.1016/j.xhgg.2024.100388] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 05/07/2024] [Revised: 11/25/2024] [Accepted: 11/25/2024] [Indexed: 11/29/2024]  Open
19
Weng LC, Rämö JT, Jurgens SJ, Khurshid S, Chaffin M, Hall AW, Morrill VN, Wang X, Nauffal V, Sun YV, Beer D, Lee S, Nadkarni GN, Duong T, Wang B, Czuba T, Austin TR, Yoneda ZT, Friedman DJ, Clayton A, Hyman MC, Judy RL, Skanes AC, Orland KM, Treu TM, Oetjens MT, Alonso A, Soliman EZ, Lin H, Lunetta KL, van der Pals J, Issa TZ, Nafissi NA, May HT, Leong-Sit P, Roselli C, Choi SH, Khan HR, Knight S, Karlsson Linnér R, Bezzina CR, Ripatti S, Heckbert SR, Gaziano JM, Loos RJF, Psaty BM, Smith JG, Benjamin EJ, Arking DE, Rader DJ, Shah SH, Roden DM, Damrauer SM, Eckhardt LL, Roberts JD, Cutler MJ, Shoemaker MB, Haggerty CM, Cho K, Palotie A, Wilson PWF, Ellinor PT, Lubitz SA. The impact of common and rare genetic variants on bradyarrhythmia development. Nat Genet 2025;57:53-64. [PMID: 39747593 PMCID: PMC11735381 DOI: 10.1038/s41588-024-01978-2] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 09/24/2023] [Accepted: 10/09/2024] [Indexed: 01/04/2025]
20
Wilcox H, Saxena R, Winkelman JW, Dashti HS. Clinical and genetic associations for night eating syndrome in a patient biobank. J Eat Disord 2024;12:211. [PMID: 39716312 DOI: 10.1186/s40337-024-01180-z] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Grants] [Track Full Text] [Journal Information] [Submit a Manuscript] [Subscribe] [Scholar Register] [Received: 05/03/2024] [Accepted: 12/12/2024] [Indexed: 12/25/2024]  Open
21
Barron DS, Saltoun K, Kiesow H, Fu M, Cohen-Tanugi J, Geha P, Scheinost D, Isaac Z, Silbersweig D, Bzdok D. Pain can't be carved at the joints: defining function-based pain profiles and their relevance to chronic disease management in healthcare delivery design. BMC Med 2024;22:594. [PMID: 39696368 PMCID: PMC11656997 DOI: 10.1186/s12916-024-03807-z] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Journal Information] [Submit a Manuscript] [Subscribe] [Scholar Register] [Received: 05/10/2024] [Accepted: 12/02/2024] [Indexed: 12/20/2024]  Open
22
Barr PB, Neale ZE, Bigdeli TB, Chatzinakos C, Harvey PD, Peterson RE, Meyers JL. Social and Polygenic Risk Factors for Time to Comorbid Diagnoses in Individuals with Substance Use Disorders: A Phenome-Wide Survival Analysis. MEDRXIV : THE PREPRINT SERVER FOR HEALTH SCIENCES 2024:2024.12.13.24319000. [PMID: 39711727 PMCID: PMC11661425 DOI: 10.1101/2024.12.13.24319000] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Subscribe] [Scholar Register] [Indexed: 12/24/2024]
23
Johnson R, Gottlieb U, Shaham G, Eisen L, Waxman J, Devons-Sberro S, Ginder CR, Hong P, Sayeed R, Reis BY, Balicer RD, Dagan N, Zitnik M. Unified Clinical Vocabulary Embeddings for Advancing Precision Medicine. MEDRXIV : THE PREPRINT SERVER FOR HEALTH SCIENCES 2024:2024.12.03.24318322. [PMID: 39677476 PMCID: PMC11643188 DOI: 10.1101/2024.12.03.24318322] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Subscribe] [Scholar Register] [Indexed: 12/17/2024]
24
Wang W, Feng Y, Zhao H, Wang X, Cai R, Cai W, Zhang X. Mdpg: a novel multi-disease diagnosis prediction method based on patient knowledge graphs. Health Inf Sci Syst 2024;12:15. [PMID: 38440103 PMCID: PMC10908733 DOI: 10.1007/s13755-024-00278-7] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 07/19/2023] [Accepted: 01/23/2024] [Indexed: 03/06/2024]  Open
25
Zheng SL, Henry A, Cannie D, Lee M, Miller D, McGurk KA, Bond I, Xu X, Issa H, Francis C, De Marvao A, Theotokis PI, Buchan RJ, Speed D, Abner E, Adams L, Aragam KG, Ärnlöv J, Raja AA, Backman JD, Baksi J, Barton PJR, Biddinger KJ, Boersma E, Brandimarto J, Brunak S, Bundgaard H, Carey DJ, Charron P, Cook JP, Cook SA, Denaxas S, Deleuze JF, Doney AS, Elliott P, Erikstrup C, Esko T, Farber-Eger EH, Finan C, Garnier S, Ghouse J, Giedraitis V, Guðbjartsson DF, Haggerty CM, Halliday BP, Helgadottir A, Hemingway H, Hillege HL, Kardys I, Lind L, Lindgren CM, Lowery BD, Manisty C, Margulies KB, Moon JC, Mordi IR, Morley MP, Morris AD, Morris AP, Morton L, Noursadeghi M, Ostrowski SR, Owens AT, Palmer CNA, Pantazis A, Pedersen OBV, Prasad SK, Shekhar A, Smelser DT, Srinivasan S, Stefansson K, Sveinbjörnsson G, Syrris P, Tammesoo ML, Tayal U, Teder-Laving M, Thorgeirsson G, Thorsteinsdottir U, Tragante V, Trégouët DA, Treibel TA, Ullum H, Valdes AM, van Setten J, van Vugt M, Veluchamy A, Verschuren WMM, Villard E, Yang Y, Asselbergs FW, Cappola TP, Dube MP, Dunn ME, Ellinor PT, Hingorani AD, Lang CC, Samani NJ, Shah SH, Smith JG, Vasan RS, et alZheng SL, Henry A, Cannie D, Lee M, Miller D, McGurk KA, Bond I, Xu X, Issa H, Francis C, De Marvao A, Theotokis PI, Buchan RJ, Speed D, Abner E, Adams L, Aragam KG, Ärnlöv J, Raja AA, Backman JD, Baksi J, Barton PJR, Biddinger KJ, Boersma E, Brandimarto J, Brunak S, Bundgaard H, Carey DJ, Charron P, Cook JP, Cook SA, Denaxas S, Deleuze JF, Doney AS, Elliott P, Erikstrup C, Esko T, Farber-Eger EH, Finan C, Garnier S, Ghouse J, Giedraitis V, Guðbjartsson DF, Haggerty CM, Halliday BP, Helgadottir A, Hemingway H, Hillege HL, Kardys I, Lind L, Lindgren CM, Lowery BD, Manisty C, Margulies KB, Moon JC, Mordi IR, Morley MP, Morris AD, Morris AP, Morton L, Noursadeghi M, Ostrowski SR, Owens AT, Palmer CNA, Pantazis A, Pedersen OBV, Prasad SK, Shekhar A, Smelser DT, Srinivasan S, Stefansson K, Sveinbjörnsson G, Syrris P, Tammesoo ML, Tayal U, Teder-Laving M, Thorgeirsson G, Thorsteinsdottir U, Tragante V, Trégouët DA, Treibel TA, Ullum H, Valdes AM, van Setten J, van Vugt M, Veluchamy A, Verschuren WMM, Villard E, Yang Y, Asselbergs FW, Cappola TP, Dube MP, Dunn ME, Ellinor PT, Hingorani AD, Lang CC, Samani NJ, Shah SH, Smith JG, Vasan RS, O'Regan DP, Holm H, Noseda M, Wells Q, Ware JS, Lumbers RT. Genome-wide association analysis provides insights into the molecular etiology of dilated cardiomyopathy. Nat Genet 2024;56:2646-2658. [PMID: 39572783 PMCID: PMC11631752 DOI: 10.1038/s41588-024-01952-y] [Show More Authors] [Citation(s) in RCA: 1] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 09/13/2023] [Accepted: 09/18/2024] [Indexed: 12/12/2024]
26
Coombes BJ, Sanchez-Ruiz JA, Fennessy B, Pazdernik VK, Adekkanattu P, Nuñez NA, Lepow L, Melhuish Beaupre LM, Ryu E, Talati A, Mann JJ, Weissman MM, Olfson M, Pathak J, Charney AW, Biernacka JM. Clinical associations with treatment resistance in depression: An electronic health record study. Psychiatry Res 2024;342:116203. [PMID: 39321638 PMCID: PMC11617277 DOI: 10.1016/j.psychres.2024.116203] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Journal Information] [Submit a Manuscript] [Subscribe] [Scholar Register] [Received: 06/25/2024] [Revised: 09/03/2024] [Accepted: 09/15/2024] [Indexed: 09/27/2024]
27
Goldstein JA, Gernand AD, Gallagher K, Shanes ED, Bebell LM, Yee LM. Defining Appropriate Comparator Populations for Placental Pathology for Pregnant People With HIV. Int J Surg Pathol 2024:10668969241295351. [PMID: 39552457 DOI: 10.1177/10668969241295351] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/19/2024]
28
Hou Y, Cui E, Ikramuddin S, Zhang R. Association of Physical Activity from Wearable Devices and Chronic Disease Risk: Insights from the All of Us Research Program. MEDRXIV : THE PREPRINT SERVER FOR HEALTH SCIENCES 2024:2024.11.11.24317124. [PMID: 39606327 PMCID: PMC11601689 DOI: 10.1101/2024.11.11.24317124] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 11/29/2024]
29
Breeyear JH, Mitchell SL, Nealon CL, Hellwege JN, Charest B, Khakharia A, Halladay CW, Yang J, Garriga GA, Wilson OD, Basnet TB, Hung AM, Reaven PD, Meigs JB, Rhee MK, Sun Y, Lynch MG, Sobrin L, Brantley MA, Sun YV, Wilson PW, Iyengar SK, Peachey NS, Phillips LS, Edwards TL, Giri A. Development of electronic health record based algorithms to identify individuals with diabetic retinopathy. J Am Med Inform Assoc 2024;31:2560-2570. [PMID: 39158361 PMCID: PMC11491608 DOI: 10.1093/jamia/ocae213] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 01/08/2024] [Revised: 07/17/2024] [Accepted: 07/30/2024] [Indexed: 08/20/2024]  Open
30
Gaitanidis A, Christensen MA, Breen KA, Kambadakone AR, Joshipura ND, Fernandez-Del Castillo C, Hernandez-Barco YG, Kaafarani HMA, Velmahos GC, Farhat MR, Fagenholz PJ. A Genome-Wide Association Study Reveals a Novel Susceptibility Locus for Pancreas Divisum at 3q29. J Surg Res 2024;303:287-294. [PMID: 39393116 DOI: 10.1016/j.jss.2024.09.028] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 08/13/2023] [Revised: 05/17/2024] [Accepted: 09/12/2024] [Indexed: 10/13/2024]
31
Mak JKL, Chau YP, Tan KCB, Kung AWC, Cheung CL. Phenome-Wide Analysis of Coffee Intake on Health over 20 Years of Follow-Up Among Adults in Hong Kong Osteoporosis Study. Nutrients 2024;16:3536. [PMID: 39458530 PMCID: PMC11509949 DOI: 10.3390/nu16203536] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 09/25/2024] [Revised: 10/11/2024] [Accepted: 10/16/2024] [Indexed: 10/28/2024]  Open
32
Friedman SF, Moran GE, Rakic M, Phillipakis A. Genetic Architectures of Medical Images Revealed by Registration of Multiple Modalities. Bioinform Biol Insights 2024;18:11779322241282489. [PMID: 39372505 PMCID: PMC11450573 DOI: 10.1177/11779322241282489] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Grants] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 01/16/2024] [Accepted: 08/16/2024] [Indexed: 10/08/2024]  Open
33
Tahir UA, Barber JL, Cruz DE, Kars ME, Deng S, Tuftin B, Gillman MG, Benson MD, Robbins JM, Chen ZZ, Rao P, Katz DH, Farrell L, Sofer T, Hall ME, Ekunwe L, Tracy RP, Durda P, Taylor KD, Liu Y, Johnson WC, Guo X, Chen YDI, Manichaikul AW, Jain D, NHLBI Trans-Omics for Precision Medicine Consortium, Wang TJ, Reiner AP, Natarajan P, Itan Y, Rich SS, Rotter JI, Wilson JG, Raffield LM, Gerszten RE. Proteogenomic analysis integrated with electronic health records data reveals disease-associated variants in Black Americans. J Clin Invest 2024;134:e181802. [PMID: 39316441 PMCID: PMC11527441 DOI: 10.1172/jci181802] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 04/12/2024] [Accepted: 09/11/2024] [Indexed: 09/26/2024]  Open
34
Xian S, Grabowska ME, Kullo IJ, Luo Y, Smoller JW, Wei WQ, Jarvik G, Mooney S, Crosslin D. Language-model-based patient embedding using electronic health records facilitates phenotyping, disease forecasting, and progression analysis. RESEARCH SQUARE 2024:rs.3.rs-4708839. [PMID: 39399661 PMCID: PMC11469380 DOI: 10.21203/rs.3.rs-4708839/v1] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 10/15/2024]
35
Justice A, Kelly MA, Bellus G, Green JD, Zaidi R, Kerrins T, Josyula N, Luperchio TR, Kozel BA, Williams MS. Phenotypic Findings Associated with Variation in Elastin. MEDRXIV : THE PREPRINT SERVER FOR HEALTH SCIENCES 2024:2024.09.10.24313340. [PMID: 39314928 PMCID: PMC11419209 DOI: 10.1101/2024.09.10.24313340] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 09/25/2024]
36
Yang L, Sadler MC, Altman RB. Genetic association studies using disease liabilities from deep neural networks. MEDRXIV : THE PREPRINT SERVER FOR HEALTH SCIENCES 2024:2023.01.18.23284383. [PMID: 36712099 PMCID: PMC9882423 DOI: 10.1101/2023.01.18.23284383] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Grants] [Track Full Text] [Figures] [Subscribe] [Scholar Register] [Indexed: 01/21/2023]
37
Sanchez-Ruiz JA, Coombes BJ, Pazdernik VM, Melhuish Beaupre LM, Jenkins GD, Pendegraft RS, Batzler A, Ozerdem A, McElroy SL, Gardea-Resendez MA, Cuellar-Barboza AB, Prieto ML, Frye MA, Biernacka JM. Clinical and genetic contributions to medical comorbidity in bipolar disorder: a study using electronic health records-linked biobank data. Mol Psychiatry 2024;29:2701-2713. [PMID: 38548982 PMCID: PMC11544602 DOI: 10.1038/s41380-024-02530-8] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [MESH Headings] [Grants] [Track Full Text] [Journal Information] [Submit a Manuscript] [Subscribe] [Scholar Register] [Received: 07/12/2023] [Revised: 02/21/2024] [Accepted: 03/13/2024] [Indexed: 06/14/2024]
38
Cao T, Brady V, Whisenant M, Wang X, Gu Y, Wu H. Toward Reliable Symptom Coding in Electronic Health Records for Symptom Assessment and Research: Identification and Categorization of International Classification of Diseases, Ninth Revision, Clinical Modification Symptom Codes. Comput Inform Nurs 2024;42:636-647. [PMID: 38968447 PMCID: PMC11377150 DOI: 10.1097/cin.0000000000001146] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [MESH Headings] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 07/07/2024]
39
Lin Z, Xiong J, Yang J, Huang Y, Li J, Zhao G, Li B. A comprehensive analysis of the health effects associated with smoking in the largest population using UK Biobank genotypic and phenotypic data. Heliyon 2024;10:e35649. [PMID: 39220930 PMCID: PMC11365339 DOI: 10.1016/j.heliyon.2024.e35649] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 03/10/2024] [Revised: 07/29/2024] [Accepted: 08/01/2024] [Indexed: 09/04/2024]  Open
40
Carey CE, Shafee R, Wedow R, Elliott A, Palmer DS, Compitello J, Kanai M, Abbott L, Schultz P, Karczewski KJ, Bryant SC, Cusick CM, Churchhouse C, Howrigan DP, King D, Davey Smith G, Neale BM, Walters RK, Robinson EB. Principled distillation of UK Biobank phenotype data reveals underlying structure in human variation. Nat Hum Behav 2024;8:1599-1615. [PMID: 38965376 PMCID: PMC11343713 DOI: 10.1038/s41562-024-01909-5] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 10/26/2022] [Accepted: 05/14/2024] [Indexed: 07/06/2024]
41
Pietzner M, Denaxas S, Yasmeen S, Ulmer MA, Nakanishi T, Arnold M, Kastenmüller G, Hemingway H, Langenberg C. Complex patterns of multimorbidity associated with severe COVID-19 and long COVID. COMMUNICATIONS MEDICINE 2024;4:94. [PMID: 38977844 PMCID: PMC11231221 DOI: 10.1038/s43856-024-00506-x] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 11/09/2023] [Accepted: 04/19/2024] [Indexed: 07/10/2024]  Open
42
Allaire P, Elsayed NS, Berg RL, Rose W, Shukla SK. Phenome-wide association study identifies new clinical phenotypes associated with Staphylococcus aureus infections. PLoS One 2024;19:e0303395. [PMID: 38968223 PMCID: PMC11226111 DOI: 10.1371/journal.pone.0303395] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [MESH Headings] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 10/05/2023] [Accepted: 04/23/2024] [Indexed: 07/07/2024]  Open
43
Gilliland T, Dron JS, Selvaraj MS, Trinder M, Paruchuri K, Urbut SM, Haidermota S, Bernardo R, Uddin MM, Honigberg MC, Peloso GM, Natarajan P. Genetic Architecture and Clinical Outcomes of Combined Lipid Disturbances. Circ Res 2024;135:265-276. [PMID: 38828614 PMCID: PMC11223949 DOI: 10.1161/circresaha.123.323973] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Journal Information] [Submit a Manuscript] [Subscribe] [Scholar Register] [Received: 11/10/2023] [Accepted: 05/20/2024] [Indexed: 06/05/2024]
44
Pietzner M, Denaxas S, Yasmeen S, Ulmer MA, Nakanishi T, Arnold M, Kastenmüller G, Hemingway H, Langenberg C. Complex patterns of multimorbidity associated with severe COVID-19 and Long COVID. MEDRXIV : THE PREPRINT SERVER FOR HEALTH SCIENCES 2024:2023.05.23.23290408. [PMID: 39006431 PMCID: PMC11245059 DOI: 10.1101/2023.05.23.23290408] [Citation(s) in RCA: 1] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 07/16/2024]
45
Løkhammer S, Koller D, Wendt FR, Choi KW, He J, Friligkou E, Overstreet C, Gelernter J, Hellard SL, Polimanti R. Distinguishing vulnerability and resilience to posttraumatic stress disorder evaluating traumatic experiences, genetic risk and electronic health records. Psychiatry Res 2024;337:115950. [PMID: 38744179 PMCID: PMC11156529 DOI: 10.1016/j.psychres.2024.115950] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Journal Information] [Submit a Manuscript] [Subscribe] [Scholar Register] [Received: 03/11/2024] [Revised: 04/29/2024] [Accepted: 05/04/2024] [Indexed: 05/16/2024]
46
Steinfeldt J, Wild B, Buergel T, Pietzner M, Upmeier Zu Belzen J, Vauvelle A, Hegselmann S, Denaxas S, Hemingway H, Langenberg C, Landmesser U, Deanfield J, Eils R. Medical history predicts phenome-wide disease onset and enables the rapid response to emerging health threats. Nat Commun 2024;15:4257. [PMID: 38763986 PMCID: PMC11102902 DOI: 10.1038/s41467-024-48568-8] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 11/17/2023] [Accepted: 05/03/2024] [Indexed: 05/21/2024]  Open
47
Kopell BH, Kaji DA, Liharska LE, Vornholt E, Valentine A, Lund A, Hashemi A, Thompson RC, Lohrenz T, Johnson JS, Bussola N, Cheng E, Park YJ, Shah P, Ma W, Searfoss R, Qasim S, Miller GM, Chand NM, Aristel A, Humphrey J, Wilkins L, Ziafat K, Silk H, Linares LM, Sullivan B, Feng C, Batten SR, Bang D, Barbosa LS, Twomey T, White JP, Vannucci M, Hadj-Amar B, Cohen V, Kota P, Moya E, Rieder MK, Figee M, Nadkarni GN, Breen MS, Kishida KT, Scarpa J, Ruderfer DM, Narain NR, Wang P, Kiebish MA, Schadt EE, Saez I, Montague PR, Beckmann ND, Charney AW. Multiomic foundations of human prefrontal cortex tissue function. MEDRXIV : THE PREPRINT SERVER FOR HEALTH SCIENCES 2024:2024.05.17.24307537. [PMID: 38798344 PMCID: PMC11118644 DOI: 10.1101/2024.05.17.24307537] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 05/29/2024]
48
Hamilton F, Mitchell R, Ghazal P, Timpson N. Phenotypic Associations With the HMOX1 GT(n) Repeat in European Populations. Am J Epidemiol 2024;193:718-726. [PMID: 37414746 PMCID: PMC11074708 DOI: 10.1093/aje/kwad154] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 04/29/2022] [Revised: 12/21/2023] [Accepted: 07/03/2023] [Indexed: 07/08/2023]  Open
49
Li Y, Yang AY, Marelli A, Li Y. MixEHR-SurG: A joint proportional hazard and guided topic model for inferring mortality-associated topics from electronic health records. J Biomed Inform 2024;153:104638. [PMID: 38631461 DOI: 10.1016/j.jbi.2024.104638] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 12/20/2023] [Revised: 03/07/2024] [Accepted: 04/03/2024] [Indexed: 04/19/2024]
50
Mosley JD, Shelley JP, Dickson AL, Zanussi J, Daniel LL, Zheng NS, Bastarache L, Wei WQ, Shi M, Jarvik GP, Rosenthal EA, Khan A, Sherafati A, Kullo IJ, Walunas TL, Glessner J, Hakonarson H, Cox NJ, Roden DM, Frangakis SG, Vanderwerff B, Stein CM, Van Driest SL, Borinstein SC, Shu XO, Zawistowski M, Chung CP, Kawai VK. Clinical associations with a polygenic predisposition to benign lower white blood cell counts. Nat Commun 2024;15:3384. [PMID: 38649760 PMCID: PMC11035609 DOI: 10.1038/s41467-024-47804-5] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 08/20/2023] [Accepted: 04/10/2024] [Indexed: 04/25/2024]  Open
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