Clinical Data and Informatics Core

Mission

The Clinical Data and Informatics Core advances rheumatology research by providing access to clinical databases and biospecimens, offering expert consultative services, developing informatics tools for EHR data and patient engagement, and integrating data into UCSF’s Data Library while enhancing researcher education. 

 

CDI Core Director Jinoos Yazdany

 

Specifically, the CDI Core will:

  1. Provide consultation on human subjects study design, data collection, outcome measures, and research ethics for basic, translational, and clinical research studies of rheumatic diseases.
  2. Facilitate identification of patients with specific clinical phenotypes for basic, translational, and clinical research studies in rheumatology, leveraging collaborations between nationally recognized disease experts and clinical informaticists.
  3. Coordinate and provide resources for human subject recruitment and biospecimen collection.
  4. Offer state-of-the-art data retrieval and management resources, including construction of electronic health record-enabled registries.
  5. Assemble a panel of UCSF clinicians with expertise in particular rheumatic diseases, including RA, lupus, vasculitis, scleroderma, sjogren’s, spondyloarthropathies, as well as pediatric rheumatology and patient safety measures for Center rheumatic disease projects.

 

Recent Publications:

  1. Yang MM, Lee S, Neely J, Hinchcliff M, Wolters PJ, Sirota M. Gene expression meta-analysis reveals aging and cellular senescence signatures in scleroderma-associated interstitial lung disease. Front Immunol. 2024;15:1326922. doi: 10.3389/fimmu.2024.1326922. eCollection 2024. PubMed PMID: 38348044; PubMed Central PMCID: PMC10859856.

  1. Schmajuk G, Li J, Nasrallah C, Wilson C, Hamblin A, Hariz C, Young C, Shiboski S, Kersey E, Nakamura M, Ashouri JF, Matloubian M, Gross AJ, Barton J, Berrean B, Prugh J, Yazdany J. Evaluation of a Novel Electric Health Record Sidecar Application to Display Rheumatoid Arthritis Clinical Outcomes During Clinic Visits: Results of a Stepped-Wedge Cluster Randomized Pragmatic Trial. Arthritis Care Res (Hoboken). 2025 Dec 18;. doi: 10.1002/acr.70016. [Epub ahead of print] PubMed PMID: 41412977; PubMed Central PMCID: PMC12900517.

  1. Miao BY, Binvignat M, Garcia-Agundez A, Bravo M, Williams CY, Miao CQ, Alaa A, Rudrapatna V, Butte AJ, Schmajuk G, Yazdany J. Extracting TNFi switching reasons and trajectories from real-world data using large language models. JAMIA Open. 2025 Dec;8(6):ooaf132. doi: 10.1093/jamiaopen/ooaf132. eCollection 2025 Dec. PubMed PMID: 41234243; PubMed Central PMCID: PMC12605798.

  1. Sanchez-Anguiano ME, Supapannachart K, Amerson EH, Naik HB, Shiboski S, Hebert-Derouen M, Yazdany J, Chang AY. Lower Neighborhood Socioeconomic Status Is Associated with Moderate-Severe Hidradenitis Suppurativa: A Cross-Sectional Study. JID Innov. 2026 Jan;6(1):100423. doi: 10.1016/j.xjidi.2025.100423. eCollection 2026 Jan. PubMed PMID: 41312529; PubMed Central PMCID: PMC12651420.

  1. Chang AY, Sanchez-Anguiano ME, Supapannachart K, Amerson EH, Naik HB, Shiboski S, Derouen MC, Yazdany J. Neighborhood Socioeconomic Status and New Hidradenitis Suppurativa Diagnoses in a Single Health System. JAMA Dermatol. 2025 Jul 1;161(7):707-714. doi: 10.1001/jamadermatol.2025.1190. PubMed PMID: 40366644; PubMed Central PMCID: PMC12079565.

  1. Perfect CR, Bowling CB, Lim SS, Dunlop-Thomas C, Hoge C, Yazdany J, Katz PP, Plantinga LC. Falls Among Individuals With Systemic Lupus Erythematosus: An Observational Study. ACR Open Rheumatol. 2025 Sep;7(9):e70098. doi: 10.1002/acr2.70098. PubMed PMID: 40898581; PubMed Central PMCID: PMC12405055.

  2. Roberts ET, Bansback N, Tseng CW, Shiboski S, Li J, Schmajuk G, Yazdany J. Drivers of infliximab biosimilar uptake: A comparative analysis of new biosimilar initiations versus switching in a national rheumatology registry. Health Serv Res. 2025 Jun;60(3):e14410. doi: 10.1111/1475-6773.14410. Epub 2024 Dec 1. PubMed PMID: 39618177; PubMed Central PMCID: PMC12120530.

  3. Stovall R, Li J, Fitzpatrick J, Roberts E, Palmowski A, Anastasiou C, Izadi Z, Friedly J, Singh N, Gensler LS, Schmajuk G, Yazdany J. Low Socioeconomic Status and Female Sex are Associated With Worse Functional Status in Axial Spondyloarthritis. Arthritis Care Res (Hoboken). 2025 Mar;77(3):376-384. doi: 10.1002/acr.25436. Epub 2024 Oct 26. PubMed PMID: 39295233; PubMed Central PMCID: PMC11850203.

  1. Li J, Baker R, Stovall R, Curtis JR, Xie F, Yazdany J, Schmajuk G. Agreement of Medication Information Derived From EHR Data Compared to Medicare Insurance Claims: An Analysis of Biologic Disease-Modifying Antirheumatic Drugs. Pharmacoepidemiol Drug Saf. 2024 Oct;33(10):e70020. doi: 10.1002/pds.70020. PubMed PMID: 39375936; PubMed Central PMCID: PMC11463724.

  1. Pluvinage JV, Ngo T, Fouassier C, McDonagh M, Holmes BB, Bartley CM, Kondapavulur S, Hurabielle C, Bodansky A, Pai V, Hinman S, Aslanpour A, Alvarenga BD, Zorn KC, Zamecnik C, McCann A, Asencor AI, Huynh T, Browne W, Tubati A, Haney MS, Douglas VC, Louine M, Cree BAC, Hauser SL, Seeley W, Baranzini SE, Wells JA, Spudich S, Farhadian S, Ramachandran PS, Gillum L, Hales CM, Zikherman J, Anderson MS, Yazdany J, Smith B, Nath A, Suh G, Flanagan EP, Green AJ, Green R, Gelfand JM, DeRisi JL, Pleasure SJ, Wilson MR. Transcobalamin receptor antibodies in autoimmune vitamin B12 central deficiency. Sci Transl Med. 2024 Jun 26;16(753):eadl3758. doi: 10.1126/scitranslmed.adl3758. Epub 2024 Jun 26. PubMed PMID: 38924428; PubMed Central PMCID: PMC11520464.

  1. Garcia-Agundez A, Kay JL, Li J, Gianfrancesco M, Rai B, Hu A, Schmajuk G, Yazdany J. Structuring medication signeturs as a language regression task: comparison of zero- and few-shot GPT with fine-tuned models. JAMIA Open. 2024 Jul;7(2):ooae051. doi: 10.1093/jamiaopen/ooae051. eCollection 2024 Jul. PubMed PMID: 38915730; PubMed Central PMCID: PMC11195626.

  1. Izadi Z, Gianfrancesco M, Anastasiou C, Schmajuk G, Yazdany J. Development and validation of a risk scoring system to identify patients with lupus nephritis in electronic health record data. Lupus Sci Med. 2024 May 20;11(1). doi: 10.1136/lupus-2024-001170. PubMed PMID: 38769054; PubMed Central PMCID: PMC11110552.

  1. Lanata CM, Taylor KE, Hurst-Hopf J, Nititham J, Blazer A, Trupin L, Katz P, Dall'Era M, Yazdany J, Chung SA, Abrahamsson D, Gerona R, Criswell LA. Screening of Environmental Chemicals to Characterize Exposures in Participants With Systemic Lupus Erythematosus. Arthritis Rheumatol. 2024 Jun;76(6):905-918. doi: 10.1002/art.42779. Epub 2024 Mar 7. PubMed PMID: 38129991; PubMed Central PMCID: PMC11136608.

  1. Yelnik CM, Xie X, Guerra MM, Costedoat-Chalumeau N, Khosroshahi A, Kamen DL, Schwartz N, Katz P, Minett M, Amoss RT, Fu A, Guettrot-Imbert G, Lazaro E, Le Guern V, Oates J, Dall'Era M, Yazdany J, Molto A, Kim MY, Salmon JE. Prevalence of clinically meaningful antiphospholipid antibodies in patients with systemic lupus erythematosus varies by race and ethnicity. Ann Rheum Dis. 2024 Feb 15;83(3):404-406. doi: 10.1136/ard-2023-224952. PubMed PMID: 37875285; PubMed Central PMCID: PMC10922457.

  1. Stovall R, Kersey E, Li J, Baker R, Anastasiou C, Palmowski A, Schmajuk G, Gensler L, Yazdany J. Incidence Rate and Factors Associated With Fractures Among Medicare Beneficiaries With Ankylosing Spondylitis in the United States. Arthritis Care Res (Hoboken). 2024 Feb;76(2):265-273. doi: 10.1002/acr.25219. Epub 2023 Oct 30. PubMed PMID: 37605840; PubMed Central PMCID: PMC10843294.

  1. Pawar N, Taylor KE, Yang M, Deepak P, Kim W, Paley MA, Matloubian M, Carvidi A, Ciorba MA, Demissie E, El-Qunni A, Huang K, Kinnett B, McMorrow LE, Paez D, Poole M, Rose A, Schriefer RE, Kim AHJ, Nakamura M, Katz P, Gensler LS. Sleep Disturbance and SARS-CoV-2 Vaccinations in Patients With Chronic Inflammatory Disease. Arthritis Care Res (Hoboken). 2023 Aug;75(8):1849-1856. doi: 10.1002/acr.25065. Epub 2023 Feb 13. PubMed PMID: 36479599; PubMed Central PMCID: PMC9877722.

  1. Quandt Z, Kim S, Villanueva-Meyer J, Coupe C, Young A, Kang JH, Yazdany J, Schmajuk G, Rush S, Ziv E, Perdigoto AL, Herold K, Lechner MG, Su MA, Tyrrell JB, Bluestone J, Anderson M, Masharani U. Spectrum of Clinical Presentations, Imaging Findings, and HLA Types in Immune Checkpoint Inhibitor-Induced Hypophysitis. J Endocr Soc. 2023 Feb 9;7(4):bvad012. doi: 10.1210/jendso/bvad012. eCollection 2023 Feb 9. PubMed PMID: 36860908; PubMed Central PMCID: PMC9969737.

  1. Yang MM, Taylor KE, Paez D, Carividi A, Demissie E, Pawar N, El-Qunni AA, McMorrow LE, Schriefer RE, Huang K, Kinnett B, Klebert M, Haile A, O'Halloran JA, Presti RM, Kim W, Ellebedy AH, Ciorba MA, Paley MA, Deepak P, Kim AHJ, Katz P, Matloubian M, Nakamura M, Gensler LS. Reactogenicity of the Messenger RNA SARS-CoV-2 Vaccines Associated With Immunogenicity in Patients With Autoimmune and Inflammatory Disease. Arthritis Care Res (Hoboken). 2022 Dec;74(12):1953-1960. doi: 10.1002/acr.24894. Epub 2022 Aug 15. PubMed PMID: 35412029; PubMed Central PMCID: PMC9073989.

  1. Izadi Z, Gianfrancesco MA, Schmajuk G, Jacobsohn L, Katz P, Rush S, Ja C, Taylor T, Shidara K, Danila MI, Wysham KD, Strangfeld A, Mateus EF, Hyrich KL, Gossec L, Carmona L, Lawson-Tovey S, Kearsley-Fleet L, Schaefer M, Al-Emadi S, Sparks JA, Hsu TY, Patel NJ, Wise L, Gilbert E, Duarte-García A, Valenzuela-Almada MO, Ugarte-Gil MF, Ljung L, Scirè CA, Carrara G, Hachulla E, Richez C, Cacoub P, Thomas T, Santos MJ, Bernardes M, Hasseli R, Regierer A, Schulze-Koops H, Müller-Ladner U, Pons-Estel G, Tanten R, Nieto RE, Pisoni CN, Tissera YS, Xavier R, Lopes Marques CD, Pileggi GCS, Robinson PC, Machado PM, Sirotich E, Liew JW, Hausmann JS, Sufka P, Grainger R, Bhana S, Gore-Massy M, Wallace ZS, Yazdany J, COVID-19 Global Rheumatology Alliance Registry. Environmental and societal factors associated with COVID-19-related death in people with rheumatic disease: an observational study. Lancet Rheumatol. 2022 Sep;4(9):e603-e613. doi: 10.1016/S2665-9913(22)00192-8. Epub 2022 Jul 25. PubMed PMID: 35909441; PubMed Central PMCID: PMC9313519.

  1. Izadi Z, Gianfrancesco MA, Aguirre A, Strangfeld A, Mateus EF, Hyrich KL, Gossec L, Carmona L, Lawson-Tovey S, Kearsley-Fleet L, Schaefer M, Seet AM, Schmajuk G, Jacobsohn L, Katz P, Rush S, Al-Emadi S, Sparks JA, Hsu TY, Patel NJ, Wise L, Gilbert E, Duarte-García A, Valenzuela-Almada MO, Ugarte-Gil MF, Ribeiro SLE, de Oliveira Marinho A, de Azevedo Valadares LD, Giuseppe DD, Hasseli R, Richter JG, Pfeil A, Schmeiser T, Isnardi CA, Reyes Torres AA, Alle G, Saurit V, Zanetti A, Carrara G, Labreuche J, Barnetche T, Herasse M, Plassart S, Santos MJ, Rodrigues AM, Robinson PC, Machado PM, Sirotich E, Liew JW, Hausmann JS, Sufka P, Grainger R, Bhana S, Costello W, Wallace ZS, Yazdany J, Global Rheumatology Alliance Registry. Development of a Prediction Model for COVID-19 Acute Respiratory Distress Syndrome in Patients With Rheumatic Diseases: Results From the Global Rheumatology Alliance Registry. ACR Open Rheumatol. 2022 Oct;4(10):872-882. doi: 10.1002/acr2.11481. Epub 2022 Jul 22. PubMed PMID: 35869686; PubMed Central PMCID: PMC9350083.

  1. Liew J, Gianfrancesco M, Harrison C, Izadi Z, Rush S, Lawson-Tovey S, Jacobsohn L, Ja C, Hyrich KL, Gossec L, Strangfeld A, Carmona L, Schäfer M, Frãzao-Mateus E, Bulina I, Stafford F, Tufan A, Graver C, Yardımcı GK, Zepa J, Al Emadi S, Cook C, Abutiban F, Dey D, Katigbak G, Kaufman L, Kowalski E, Martínez-Martínez MU, Patel NJ, Reyes-Cordero G, Salido E, Smith E, Snow D, Sparks J, Wise L, Bhana S, Gore-Massy M, Grainger R, Hausmann J, Sirotich E, Sufka P, Wallace Z, Machado PM, Robinson PC, Yazdany J. SARS-CoV-2 breakthrough infections among vaccinated individuals with rheumatic disease: results from the COVID-19 Global Rheumatology Alliance provider registry. RMD Open. 2022 Apr;8(1). doi: 10.1136/rmdopen-2021-002187. PubMed PMID: 35387864; PubMed Central PMCID: PMC8987210.