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Recombinant annexin A6 promotes membrane repair and protects against muscle injury.

Demonbreun AR, Fallon KS, Oosterbaan CC, Bogdanovic E, Warner JL, Sell JJ, Page PG, Quattrocelli M, Barefield DY, McNally EM.

J Clin Invest. 2019 Nov 1;129(11):4657-4670. doi: 10.1172/JCI128840.


The Evolving Use of Electronic Health Records (EHR) for Research.

Kim E, Rubinstein SM, Nead KT, Wojcieszynski AP, Gabriel PE, Warner JL.

Semin Radiat Oncol. 2019 Oct;29(4):354-361. doi: 10.1016/j.semradonc.2019.05.010.


Developing Customizable Cancer Information Extraction Modules for Pathology Reports Using CLAMP.

Soysal E, Warner JL, Wang J, Jiang M, Harvey K, Jain SK, Dong X, Song HY, Siddhanamatha H, Wang L, Dai Q, Chen Q, Du X, Tao C, Yang P, Denny JC, Liu H, Xu H.

Stud Health Technol Inform. 2019 Aug 21;264:1041-1045. doi: 10.3233/SHTI190383.


Cancer Informatics in 2018: The Mysteries of the Cancer Genome Continue to Unravel, Deep Learning Approaches the Clinic, and Passive Data Collection Demonstrates Utility.

Warner JL, Patt D; Section Editors for the IMIA Yearbook Section on Cancer Informatics.

Yearb Med Inform. 2019 Aug;28(1):236-238. doi: 10.1055/s-0039-1677931. Epub 2019 Aug 16.


Use of Natural Language Processing to Extract Clinical Cancer Phenotypes from Electronic Medical Records.

Savova GK, Danciu I, Alamudun F, Miller T, Lin C, Bitterman DS, Tourassi G, Warner JL.

Cancer Res. 2019 Nov 1;79(21):5463-5470. doi: 10.1158/0008-5472.CAN-19-0579. Epub 2019 Aug 8. Review.


HemOnc: A new standard vocabulary for chemotherapy regimen representation in the OMOP common data model.

Warner JL, Dymshyts D, Reich CG, Gurley MJ, Hochheiser H, Moldwin ZH, Belenkaya R, Williams AE, Yang PC.

J Biomed Inform. 2019 Aug;96:103239. doi: 10.1016/j.jbi.2019.103239. Epub 2019 Jun 22.


Improved Prognosis and Increased Tumor-Infiltrating Lymphocytes in Patients Who Have SCLC With Neurologic Paraneoplastic Syndromes.

Iams WT, Shiuan E, Meador CB, Roth M, Bordeaux J, Vaupel C, Boyd KL, Summitt IB, Wang LL, Schneider JT, Warner JL, Zhao Z, Lovly CM.

J Thorac Oncol. 2019 Nov;14(11):1970-1981. doi: 10.1016/j.jtho.2019.05.042. Epub 2019 Jun 12.


Significant and Distinctive n-Grams in Oncology Notes: A Text-Mining Method to Analyze the Effect of OpenNotes on Clinical Documentation.

Rahimian M, Warner JL, Jain SK, Davis RB, Zerillo JA, Joyce RM.

JCO Clin Cancer Inform. 2019 Jun;3:1-9. doi: 10.1200/CCI.19.00012.


Discovery of Noncancer Drug Effects on Survival in Electronic Health Records of Patients With Cancer: A New Paradigm for Drug Repurposing.

Wu Y, Warner JL, Wang L, Jiang M, Xu J, Chen Q, Nian H, Dai Q, Du X, Yang P, Denny JC, Liu H, Xu H.

JCO Clin Cancer Inform. 2019 May;3:1-9. doi: 10.1200/CCI.19.00001.


Deletion of Sulfonylurea Receptor 2 in the Adult Myocardium Enhances Cardiac Glucose Uptake and Is Cardioprotective.

Aubert G, Barefield DY, Demonbreun AR, Ramratnam M, Fallon KS, Warner JL, Rossi AE, Hadhazy M, Makielski JC, McNally EM.

JACC Basic Transl Sci. 2019 Apr 29;4(2):251-268. doi: 10.1016/j.jacbts.2018.11.012. eCollection 2019 Apr.


Learning When Communications Between Healthcare Providers Indicate Hormonal Therapy Medication Discontinuation.

Yin Z, Warner JL, Malin BA.

AMIA Annu Symp Proc. 2018 Dec 5;2018:1591-1600. eCollection 2018.


Using topic modeling via non-negative matrix factorization to identify relationships between genetic variants and disease phenotypes: A case study of Lipoprotein(a) (LPA).

Zhao J, Feng Q, Wu P, Warner JL, Denny JC, Wei WQ.

PLoS One. 2019 Feb 13;14(2):e0212112. doi: 10.1371/journal.pone.0212112. eCollection 2019.


It's Time to Wikify Clinical Documentation: How Collaborative Authorship Can Reduce the Burden and Improve the Quality of the Electronic Health Record.

Warner JL, Smith J, Wright A.

Acad Med. 2019 May;94(5):645-650. doi: 10.1097/ACM.0000000000002613.


Measure Me, Don't Judge Me: Patients as Objective Contributors to Performance Status Measurement.

Salmi L, Warner JL.

JCO Clin Cancer Inform. 2018 Dec;2:1-4. doi: 10.1200/CCI.18.00029. No abstract available.


CancerLinQ: Origins, Implementation, and Future Directions.

Rubinstein SM, Warner JL.

JCO Clin Cancer Inform. 2018 Dec;2:1-7. doi: 10.1200/CCI.17.00060. Review.


Early onset oral tongue squamous cell carcinoma: Associated factors and patient outcomes.

Campbell BR, Sanders CB, Netterville JL, Sinard RJ, Rohde SL, Langerman A, Mannion K, Kim YJ, Murphy BA, Lewis JS Jr, Warner JL, Smith DK, Lang Kuhs KA.

Head Neck. 2019 Jun;41(6):1952-1960. doi: 10.1002/hed.25650. Epub 2019 Jan 11.


Window of Opportunity: Patient Portals and Cancer.

Rosenbloom ST, Steitz BD, Warner JL.

J Oncol Pract. 2018 Nov;14(11):639-641. doi: 10.1200/JOP.18.00464. No abstract available.


The therapy is making me sick: how online portal communications between breast cancer patients and physicians indicate medication discontinuation.

Yin Z, Harrell M, Warner JL, Chen Q, Fabbri D, Malin BA.

J Am Med Inform Assoc. 2018 Nov 1;25(11):1444-1451. doi: 10.1093/jamia/ocy118.


SMART Cancer Navigator: A Framework for Implementing ASCO Workshop Recommendations to Enable Precision Cancer Medicine.

Warner JL, Prasad I, Bennett M, Arniella M, Beeghly-Fadiel A, Mandl KD, Alterovitz G.

JCO Precis Oncol. 2018;2018. doi: 10.1200/PO.17.00292. Epub 2018 May 1.


Computerized Approach to Creating a Systematic Ontology of Hematology/Oncology Regimens.

Malty AM, Jain SK, Yang PC, Harvey K, Warner JL.

JCO Clin Cancer Inform. 2018;2. doi: 10.1200/CCI.17.00142. Epub 2018 May 11.


ESCAT: a step in the right direction.

Silver AJ, Warner JL.

Ann Oncol. 2018 Nov 1;29(11):2266-2267. doi: 10.1093/annonc/mdy409. No abstract available.


Cancer Informatics in 2017: A New Beginning and a Bright Future.

Warner JL, Patt DA; Section Editors for the IMIA Yearbook Section on Cancer Informatics.

Yearb Med Inform. 2018 Aug;27(1):223-226. doi: 10.1055/s-0038-1667086. Epub 2018 Aug 29.


Improved glycaemic control and treatment satisfaction with a simple wearable 3-day insulin delivery device among people with Type 2 diabetes.

Mader JK, Lilly LC, Aberer F, Poettler T, Johns D, Trautmann M, Warner JL, Pieber TR.

Diabet Med. 2018 Oct;35(10):1448-1456. doi: 10.1111/dme.13708. Epub 2018 Jul 5.


Rare Variants in the Gene ALPL That Cause Hypophosphatasia Are Strongly Associated With Ovarian and Uterine Disorders.

Dahir KM, Tilden DR, Warner JL, Bastarache L, Smith DK, Gifford A, Ramirez AH, Simmons JS, Black MM, Newman JH, Denny JC.

J Clin Endocrinol Metab. 2018 Jun 1;103(6):2234-2243. doi: 10.1210/jc.2017-02676.


Systematic review of infectious events with the Bruton tyrosine kinase inhibitor ibrutinib in the treatment of hematologic malignancies.

Tillman BF, Pauff JM, Satyanarayana G, Talbott M, Warner JL.

Eur J Haematol. 2018 Apr;100(4):325-334. doi: 10.1111/ejh.13020. Epub 2018 Feb 6. Review.


Overcoming the Straw Man Effect in Oncology: Visualization and Ranking of Chemotherapy Regimens Using an Information Theoretic Approach.

Warner JL, Yang PC, Alterovitz G.

JCO Clin Cancer Inform. 2017 Nov;1:1-9. doi: 10.1200/CCI.17.00079.


Genetic modifiers of muscular dystrophy act on sarcolemmal resealing and recovery from injury.

Quattrocelli M, Capote J, Ohiri JC, Warner JL, Vo AH, Earley JU, Hadhazy M, Demonbreun AR, Spencer MJ, McNally EM.

PLoS Genet. 2017 Oct 24;13(10):e1007070. doi: 10.1371/journal.pgen.1007070. eCollection 2017 Oct.


Representing Knowledge Consistently Across Health Systems.

Rosenbloom ST, Carroll RJ, Warner JL, Matheny ME, Denny JC.

Yearb Med Inform. 2017 Aug;26(1):139-147. doi: 10.15265/IY-2017-018. Epub 2017 Sep 11. Review.


Intermittent Glucocorticoid Dosing Improves Muscle Repair and Function in Mice with Limb-Girdle Muscular Dystrophy.

Quattrocelli M, Salamone IM, Page PG, Warner JL, Demonbreun AR, McNally EM.

Am J Pathol. 2017 Nov;187(11):2520-2535. doi: 10.1016/j.ajpath.2017.07.017. Epub 2017 Aug 18.


Identifying Metastases-related Information from Pathology Reports of Lung Cancer Patients.

Soysal E, Warner JL, Denny JC, Xu H.

AMIA Jt Summits Transl Sci Proc. 2017 Jul 26;2017:268-277. eCollection 2017.


Identifying Health Information Technology Needs of Oncologists to Facilitate the Adoption of Genomic Medicine: Recommendations From the 2016 American Society of Clinical Oncology Omics and Precision Oncology Workshop.

Hughes KS, Ambinder EP, Hess GP, Yu PP, Bernstam EV, Routbort MJ, Clemenceau JR, Hamm JT, Febbo PG, Domchek SM, Chen JL, Warner JL; OPO Workshop Members.

J Clin Oncol. 2017 Sep 20;35(27):3153-3159. doi: 10.1200/JCO.2017.74.1744. Epub 2017 Jul 24.


More Medicine, Fewer Clicks: How Informatics Can Actually Help Your Practice.

Patt DA, Bernstam EV, Mandel JC, Kreda DA, Warner JL.

Am Soc Clin Oncol Educ Book. 2017;37:450-459. doi: 10.14694/EDBK_174891. Review.


Intermittent glucocorticoid steroid dosing enhances muscle repair without eliciting muscle atrophy.

Quattrocelli M, Barefield DY, Warner JL, Vo AH, Hadhazy M, Earley JU, Demonbreun AR, McNally EM.

J Clin Invest. 2017 Jun 1;127(6):2418-2432. doi: 10.1172/JCI91445. Epub 2017 May 8.


Defining the complex phenotype of severe systemic loxoscelism using a large electronic health record cohort.

Robinson JR, Kennedy VE, Doss Y, Bastarache L, Denny J, Warner JL.

PLoS One. 2017 Apr 19;12(4):e0174941. doi: 10.1371/journal.pone.0174941. eCollection 2017.


Giving Up on Precision Oncology? Not So Fast!

Warner JL.

Clin Transl Sci. 2017 May;10(3):128-129. doi: 10.1111/cts.12457. Epub 2017 Feb 21. No abstract available.


Automating the Determination of Prostate Cancer Risk Strata From Electronic Medical Records.

Gregg JR, Lang M, Wang LL, Resnick MJ, Jain SK, Warner JL, Barocas DA.

JCO Clin Cancer Inform. 2017;1. doi: 10.1200/CCI.16.00045. Epub 2017 Jun 8.


Spontaneous polyploidy, gynogenesis and androgenesis in second generation (F2 ) koi Cyprinus carpio × goldfish Carassius auratus hybrids.

Delomas TA, Gomelsky B, Anil A, Schneider KJ, Warner JL.

J Fish Biol. 2017 Jan;90(1):80-92. doi: 10.1111/jfb.13157. Epub 2016 Nov 16.


Integrating cancer genomic data into electronic health records.

Warner JL, Jain SK, Levy MA.

Genome Med. 2016 Oct 26;8(1):113. Review.


Enhanced Muscular Dystrophy from Loss of Dysferlin Is Accompanied by Impaired Annexin A6 Translocation after Sarcolemmal Disruption.

Demonbreun AR, Allen MV, Warner JL, Barefield DY, Krishnan S, Swanson KE, Earley JU, McNally EM.

Am J Pathol. 2016 Jun;186(6):1610-22. doi: 10.1016/j.ajpath.2016.02.005. Epub 2016 Apr 9.


Pragmatic precision oncology: the secondary uses of clinical tumor molecular profiling.

Rioth MJ, Thota R, Staggs DB, Johnson DB, Warner JL.

J Am Med Inform Assoc. 2016 Jul;23(4):773-6. doi: 10.1093/jamia/ocw002. Epub 2016 Mar 28.


SMART precision cancer medicine: a FHIR-based app to provide genomic information at the point of care.

Warner JL, Rioth MJ, Mandl KD, Mandel JC, Kreda DA, Kohane IS, Carbone D, Oreto R, Wang L, Zhu S, Yao H, Alterovitz G.

J Am Med Inform Assoc. 2016 Jul;23(4):701-10. doi: 10.1093/jamia/ocw015. Epub 2016 Mar 27.


CUSTOM-SEQ: a prototype for oncology rapid learning in a comprehensive EHR environment.

Warner JL, Wang L, Pao W, Sosman JA, Atreya RV, Carney P, Levy MA.

J Am Med Inform Assoc. 2016 Jul;23(4):692-700. doi: 10.1093/jamia/ocw008. Epub 2016 Mar 23.


Data Sharing to Support the Cancer Journey in the Digital Era.

Krauss JC, Warner JL, Maddux SE, Brown JR, Moldwin R, Schorer AE, Hughes KS, Ambinder EP.

J Oncol Pract. 2016 Mar;12(3):201-7. doi: 10.1200/JOP.2015.007740. Epub 2016 Jan 12. No abstract available.


Classification of hospital acquired complications using temporal clinical information from a large electronic health record.

Warner JL, Zhang P, Liu J, Alterovitz G.

J Biomed Inform. 2016 Feb;59:209-17. doi: 10.1016/j.jbi.2015.12.008. Epub 2015 Dec 17.


Combining billing codes, clinical notes, and medications from electronic health records provides superior phenotyping performance.

Wei WQ, Teixeira PL, Mo H, Cronin RM, Warner JL, Denny JC.

J Am Med Inform Assoc. 2016 Apr;23(e1):e20-7. doi: 10.1093/jamia/ocv130. Epub 2015 Sep 2.


ReCAP: Feasibility and Accuracy of Extracting Cancer Stage Information From Narrative Electronic Health Record Data.

Warner JL, Levy MA, Neuss MN, Warner JL, Levy MA, Neuss MN.

J Oncol Pract. 2016 Feb;12(2):157-8; e169-7. doi: 10.1200/JOP.2015.004622. Epub 2015 Aug 25.


Advances in website information resources to aid in clinical practice.

Rioth MJ, Osterman TJ, Warner JL.

Am Soc Clin Oncol Educ Book. 2015:e608-15. doi: 10.14694/EdBook_AM.2015.35.e608. Review.

48. A Collaborative Online Knowledge Platform for Oncology Professionals.

Warner JL, Cowan AJ, Hall AC, Yang PC.

J Oncol Pract. 2015 May;11(3):e336-50. doi: 10.1200/JOP.2014.001511. Epub 2015 Mar 3.


Development, implementation, and initial evaluation of a foundational open interoperability standard for oncology treatment planning and summarization.

Warner JL, Maddux SE, Hughes KS, Krauss JC, Yu PP, Shulman LN, Mayer DK, Hogarth M, Shafarman M, Stover Fiscalini A, Esserman L, Alschuler L, Koromia GA, Gonzaga Z, Ambinder EP.

J Am Med Inform Assoc. 2015 May;22(3):577-86. doi: 10.1093/jamia/ocu015. Epub 2015 Jan 20.


Seeing the forest through the trees: uncovering phenomic complexity through interactive network visualization.

Warner JL, Denny JC, Kreda DA, Alterovitz G.

J Am Med Inform Assoc. 2015 Mar;22(2):324-9. doi: 10.1136/amiajnl-2014-002965. Epub 2014 Oct 21.

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