Biomedical Informatics

Publications

Aetesam, H; Maji, SK; Prasath, VBS. Hyperspectral image restoration using noise gradient and dual priors under mixed noise conditions. CAAI Transactions on Intelligence Technology. 2025; 10(1):72-93.

Aetesam, H; Prasath, VBS. Variational Weighted ℓp−ℓq$\ell _p-\ell _q$ Regularization for Hyperspectral Image Restoration Under Mixed Noise. IET Image Processing. 2025; 19(1).

Alarcon, PC; Ulanowicz, CJ; Damen, MSMA; Eom, J; Sawada, K; Chung, H; Alahakoon, T; Oates, JR; Wayland, JL; Stankiewicz, TE; Moreno-Fernandez, ME; Zacharias, WJ; Salomonis, N; Divanovic, S. Obesity Uncovers the Presence of Inflammatory Lung Macrophage Subsets With an Adipose Tissue Transcriptomic Signature in Influenza Virus Infection. Journal of Infectious Diseases. 2025; 231(2):e317-e327.

Alcântara, RB; Scalabrini Neto, A; Almeida, AM; Gonçalves, IM; Almeida, MVLD; Brandão, CFS; Cavalcanti, LC; Generoso Junior, JR. Comparação entre alta e baixa fidelidade na aprendizagem das emergências cardiovasculares. Revista Eletrônica Acervo Saúde. 2025; 25(5):e20639.

Allen, AJ; Nguyen, N; Lorman, V; Maltenfort, M; Saleh Mohammad Mosa, A; Sekar, A; Mejias, A; Taylor, E; Mendonca, EA; Nabower, AM; Cummins, MR; Chrischilles, EA; Forrest, CB; Rao, S. Respiratory and Other Infections Following COVID. Pediatrics. 2025; 156(3).

Bell, MB; Kane, MS; Ouyang, X; Young, ME; Jegga, AG; Chatham, JC; Darley-Usmar, V; Zhang, J. Brain Transcriptome Changes Associated With an Acute Increase of Protein O-GlcNAcylation and Implications for Neurodegenerative Disease. Journal of Neurochemistry. 2025; 169(1):e16302.

Börner, K; Blood, PD; Silverstein, JC; Ruffalo, M; Satija, R; Teichmann, SA; Pryhuber, GJ; Misra, RS; Purkerson, JM; Fan, J; Qaurooni, D; Kong, Y; Bueckle, A; Herr, BW. Human BioMolecular Atlas Program (HuBMAP): 3D Human Reference Atlas construction and usage. Nature Methods. 2025; 22(4):845-860.

Boudissa, S; Debsarkar, SS; Kawanaka, H; Aronow, B; Prasath, VBS. Vision Transformers for Histopathological Image Classification with Efficient Head Pruning. Procedia Computer Science. 2025; 270:2274-2283.

Bowen, C; Morton, S; Avillach, P; Brueckner, M; Chung, W; Cnota, J; Gelb, B; Lewis, M; Liu, C; Roberts, A; Wagner, M; Seidman, C; Newburger, J; Geva, T. Abstract 4363833: Impact of Damaging Genetic Variants on Right Ventricular Function in Tetralogy of Fallot. Circulation. 2025; 152(Suppl_3):a4363833-a4363833.

Bunnell, HT; Reedy, C; Lorman, V; Jhaveri, R; Rivera-Sepulveda, A; Salamon, KS; Patel, PB; Morse, KE; Davenport, MA; Cowell, LG; Martinez, AT; Letts, R; Bailey, LC; Forrest, CB. A natural language processing pipeline for identifying pediatric long COVID symptoms and functional impacts in freeform clinical notes: a RECOVER study. JAMIA Open. 2025; 8(5):ooaf089.

Chandrashekar, M; Tschida, J; Strawn, JR; Hanson, HA; Santel, D; Goethert, I; Kapadia, AJ; Glauser, T; Pestian, J; Agasthya, GA. Comparison of Expert Vocabulary Usage Patterns Between Mental Health and Nonmental Health Clinicians When Diagnosing Pediatric Anxiety Disorders. Journal of Pediatrics. 2025; 286:114735.

Chi, M; Lucas, F; Husami, A; Setayesh, T; Zhu, Z; Kaur, H; Tijani, A; Khanal, S; Chen, J; Zhang, W; Malik, P. Replicative stress-induced aging of hematopoietic stem progenitor cells increases oncogenic mutation burden and incidence of myelodysplasia in sickle cell disease mice. Blood. 2025; 146(Supplement 1):11.

Chung, E; Nosrati, F; Adam, M; Potter, A; Sayed, M; Ahn, C; Humphreys, BD; Lim, H-W; Hu, Y-C; Potter, SS; Park, J-S. Proximal Tubule Cells Contribute to the Thin Descending Limb of the Loop of Henle during Mouse Kidney Development. Journal of the American Society of Nephrology. 2025; 36(10):1928-1938.

Chung, E; Nosrati, F; Adam, M; Potter, A; Sayed, M; Ahn, C; Humphreys, BD; Lim, HW; Hu, YC; Potter, SS; Park, JS. Cover Image. Journal of the American Society of Nephrology. 2025; 36(10).

Colom Díaz, PA; Mistry, JJ; Young, KA; Chou, C-H; Boyer, N; Levine, RL; Salomonis, N; Grimes, HL; Trowbridge, JJ. Metallothionein 1 mediates growth and survival of Dnmt3a;Npm1-mutant acute myeloid leukemia. Haematologica. 2026; 111(1):373-378.

Conderino, S; Kirchner, HL; Thorpe, LE; Divers, J; Hirsch, AG; Nordberg, CM; Schwartz, BS; Zhang, L; Cai, B; Rudisill, C; Zaganjor, I; Pavkov, ME; Rosenman, M; Titus, AR. Multi-site analysis of COVID-19 and new-onset diabetes reveals need for improved sensitivity of EHR-based COVID-19 phenotypes-a DiCAYA network analysis. Journal of the American Medical Informatics Association : JAMIA. 2025.

Cotia, ALF; Scorsato, AP; Da Silva Victor, E; Prado, M; Gagliardi, G; De Barros, JEV; Generoso, JR; De Menezes, FG; Hsieh, MK; Lopes, GOV; Edmond, MB; Perencevich, EN; Goto, M; Wey, SB; Marra, AR. Integration of an electronic hand hygiene auditing system with electronic health records using machine learning to predict hospital-acquired infection in a health care setting. American Journal of Infection Control. 2025; 53(1):58-64.

Cowell, LG; Christley, S; Breden, F; Burns, KA; Corrie, BD; Lees, WD; Overton, JA; Peters, B; Richardson, E; Roskin, KM; Scheffer, L; Vita, R; Watson, CT; Yaari, G. The Adaptive Immune Receptor Repertoire Knowledge Commons: An invitation to the community. Cell Systems. 2025; 16(9):101401.

Debsarkar, SS; Prasath, VBS. A multi-expert deep learning framework with LLM-guided arbitration for multimodal histopathology prediction. Computerized Medical Imaging and Graphics. 2026; 128:102704.

Debsarkar, SS; Aronow, B; Prasath, VBS. Advancements in automated nuclei segmentation for histopathology using you only look once-driven approaches: A systematic review. Computers in Biology and Medicine. 2025; 190:110072.

Dong, W; Jin, SC; Sierant, MC; Lu, Z; Li, B; Lu, Q; Morton, SU; Zhang, J; López-Giráldez, F; Nelson-Williams, C; Gelb, BD; Seidman, CE; Lifton, RP; Brueckner, M. Recessive genetic contribution to congenital heart disease in 5,424 probands. Proceedings of the National Academy of Sciences of the United States of America. 2025; 122(10):e2419992122.

Ediga, HH; Vemulapalli, CP; Sontake, V; Patel, PK; Miyazaki, H; Popov, D; Jensen, MB; Jegga, AG; Huang, SK; Englert, C; Schedl, A; Gupta, N; Mccormack, FX; Madala, SK. Wilms tumor 1 impairs apoptotic clearance of fibroblasts in distal fibrotic lung lesions. Journal of Clinical Investigation. 2025; 135(15).

Farris, RWD; Shah, SS; Bennett, TD; Brown, SR; Cornell, TT; Dziorny, AC; Flynn, A; Grunwell, J; Heneghan, JA; Kennedy, CE; Rogerson, C; Tawfik, DS; Wetzel, RC; Sanchez-Pinto, LN. The PICU Data Collaborative: A Novel, Multi-Institutional, Pediatric Critical Care Dataset. Pediatric Critical Care Medicine. 2025; 26(7):e941-e951.

Farrow, E; Rao, S; Han, SJY; Chang, X; Huynh, C; Brugmann, SA; Lim, H-W; Tchieu, J; Campbell, K; Gebelein, B. An inducible system to study the regulatory functions of GSX2 in human lateral ganglionic eminence-like progenitors. Developmental Biology. 2026; 532:35-51.

Feldman, ER; Li, Y; Cutler, DJ; Rosser, TC; Wechsler, SB; Sanclemente, L; Rachubinski, AL; Elliott, N; Vyas, P; Roberts, I; Lupo, PJ; De Smith, AJ; Sherman, SL; Leslie-Clarkson, EJ. Genome-Wide Association Studies of Down Syndrome Associated Congenital Heart Defects Suggests a Genetically Heterogeneous Risk for CHD in DS. Genetic Epidemiology. 2025; 49(4):e70010.

Ferchen, K; Zhang, X; Thakkar, K; Li, G; Bernardicius, D; Sen, S; Rawat, P; Olsson, A; Bennett, SN; Potter, C; Morris, S; Singh, H; Salomonis, N; Grimes, HL. A unified multimodal single-cell framework reveals a discrete state model of hematopoiesis in mice. Nature Immunology. 2025; 26(11):2086-2099.

Ferreira, JMG; Marra, VS; Generoso, JR; Tudino, CH; Hsieh, MK; Pardo, I; Campagnoli, PS; Ceccon, LE; Celeghini, PD; Zancopé, BB; Perencevich, EN; Goto, M; Edmond, MB; Marra, AR. Quality of hand hygiene performance: A systematic literature review. American Journal of Infection Control. 2025.

Ferreira, JMG; Generoso, JR; Marra, AR; Deliberato, RO; Dewan, M; Loeb, D; Real, F; Collins, K; Ely, K; Zackoff, M; Lopes, GDOV; Pardo, I; Gutfreund, MC; Callado, GY; Mendonça, EA. Effectiveness of Low-cost, Technology-enhanced Simulation Training for Healthcare Training in Low-and Middle-income Countries (LMICs): A Systematic Literature Review. Journal of General Internal Medicine. 2025; 40(16):4040-4050.

Garibaldi, BT; Hollon, M; Knopp, MI; Winkel, AF; Burk-Rafel, J; Caretta-Weyer, HA. How Data Analytics Can Be Leveraged to Enhance Graduate Clinical Skills Education. Journal of Graduate Medical Education. 2025; 17(2 Suppl):37-41.

Ghandikota, S; Jegga, AG. From Gene Networks to Therapeutics: A Causal Inference and Deep Learning Approach for Drug Discovery. Pharmaceuticals. 2025; 18(9).

Gill, KK; Moore, C; Nwogu, O; Kroner, JW; Chang, W-C; Burkle, J; Virolainen, SJ; Stevens, ML; Baatyrbek, A; Miraldi, ER; Martin, LJ; Andorf, S; Khurana Hershey, GK; Roskin, KM. B-Cell Repertoire of Children With Atopic Dermatitis Exhibits Altered IgE Maturation Associated With Allergic Food Sensitization. Allergy. European Journal of Allergy and Clinical Immunology. 2025.

Greve, K; Bailes, AF; Zhang, N; Long, J; Aronow, B; Mitelpunkt, A. Physical Therapy Dose After Orthopedic Multilevel Surgery Varies by Ambulatory Status in Children With Cerebral Palsy: A Pilot Study. Pediatric Physical Therapy. 2025; 37(1):37-44.

Gutfreund, MC; Callado, GY; Pardo, I; Hsieh, MK; Celeghini, PD; Lopes, GOV; Marra, PS; Cheng, YR; Kobayashi, T; Pinho, JRR; Amgarten, DE; Malta, FDM; Edmond, MB; Marra, AR. Metagenomic next-generation sequencing in pediatric infectious disease diagnosis: A comprehensive systematic literature review and meta-analysis. Diagnostic Microbiology and Infectious Disease. 2025; 114(4):117248.

Halurkar, MS; Inoue, O; Singh, A; Mukherjee, R; Ginugu, M; Ahn, C; Bonatto Paese, CL; Duszynski, M; Brugmann, SA; Lim, H-W; Sanchez-Gurmaches, J. The widely used Ucp1-Cre transgene elicits complex developmental and metabolic phenotypes. Nature Communications. 2025; 16(1):770.

Hand, SM; Zhao, Y; Li, D; Burke, S; Lim, H-W; Yester, J; Garg, V; Accornero, F; Li, X; Li, D; Jang, J. Loss of Methyltransferase and Hypomethylated m6A Sarcomere Transcripts Leading to Early-Onset Dilated Cardiomyopathy. Circulation. 2025; 151(23):1692-1695.

Idnay, B; Xu, Z; Adams, WG; Adibuzzaman, M; Anderson, NR; Bahroos, N; Bell, DS; Bumgardner, C; Campion, T; Castro, M; Xu, H; Bian, J; Weng, C; Peng, Y. Environment scan of generative AI infrastructure for clinical and translational science. Npj Health Syst. 2025; 2(1):4.

Iyer, B; Deoghare, S; Ranjan, K; Aronow, BJ; Prasath, VBS. Benchmarking HEp-2 cell segmentation methods in indirect immunofluorescence images - standard models to deep learning. Computers in Biology and Medicine. 2025; 192(Pt A):110150.

Jarjour, NN; Winders, T; Hansen, AM; Akuthota, P; Chung, KF; Durrington, H; Fowler, SJ; Gaston, B; Mendonca, EA; Siddiqui, S; Walker, S; Zein, J; Djukanovic, R. Asthma innovations from the second International Collaborative Asthma Network (ICAN) forum. Journal of Asthma. 2025; 62(2):185-188.

Jennings, KM; Knopp, MI; Kinnear, B; Warm, EJ; Powers-Fletcher, MV; Santen, SA; Schauer, DP. Association Between Electronic Health Record Use Metrics and Clinical Performance in an Outpatient Primary Care Resident Clinic. Academic Medicine. 2025; 100(8):968-974.

Jin, K; Zhang, Z; Zhang, K; Viggiani, F; Callahan, C; Tang, J; Aronow, BJ; Shu, J. Bering: joint cell segmentation and annotation for spatial transcriptomics with transferred graph embeddings. Nature Communications. 2025; 16(1):6618.

Johnstone, ME; Leck, AL; Lange, TE; Wilcher, KE; Shephard, MS; Paranjpe, A; Schutte, S; Wells, SI; Kappes, F; Salomonis, N; Privette Vinnedge, LM. DEK promotes mammary hyperplasia and is associated with H3K27me3 epigenetic modifications. Life Science Alliance. 2025; 8(9).

Kamsheh, AM; Ware, SM; Bhatnagar, S; Martin, LJ; Lee, TM; Towbin, JA; Kantor, PF; Lal, AK; Bansal, N; Ballweg, JA; Colan, SD; Aronow, BJ; Canter, CE; Lipshultz, SE. Cardiomyopathy-Associated Pathogenic Variants in Pediatric Myocarditis: A Study From the Pediatric Cardiomyopathy Registry. Circulation: Heart Failure. 2026; 19(1):e013104.

Kanbar, LJ; Osborn, A; Cifuentes, A; Combs, J; Sorter, M; Barzman, D; Dexheimer, JW. Forecasting school violence risk with incomplete interview data: an automated assessment approach. JAMIA Open. 2025; 8(4):ooaf084.

Kanbar, LJ; Dexheimer, JW; Benscoter, DT; Amin, RS; Schuler, CL; Pajor, N. Timeline of Weaning in Pediatric Long-Term Mechanical Ventilator Dependent Children: A Longitudinal Cohort Study. Pediatric Pulmonology. 2025; 60(1):e27405.

Kantor, P; Ware, S; Hamza, T; Shi, L; Colan, S; Rossano, J; Towbin, J; Teresa, L; Lal, A; Webber, S; Dexheimer, P; Schubert, J; Wilkinson, J; Lipshultz, S. Abstract 4346181: The Impact of Genotype on Phenotypic Severity and Survival in Pediatric Dilated Cardiomyopathy: a report from the Pediatric Cardiomyopathy Registry. Circulation. 2025; 152(Suppl_3):a4346181-a4346181.

Khan, MA; Koniyan, S; Ahir, M; Jegga, AG; Mayes, MD; Gius, D; Leung, J; Bonnen, MD; Montesi, SB; Ghebre, YT. Esomeprazole inhibits proliferation of scleroderma fibroblasts via cell cycle regulation. Frontiers in Pharmacology. 2025; 16:1703115.

Khan, I; Rodriguez-Brotons, A; Bhattacharjee, A; Bezrookove, V; Dar, A; De Semir, D; Nosrati, M; Ice, R; Soroceanu, L; Leong, SP; Bosenberg, M; Salomonis, N; Mcallister, S; Kashani-Sabet, M. Combinatorial therapy regimens targeting preclinical models of melanoma resistant to immune checkpoint blockade. Journal of Clinical Investigation. 2025; 135(18).

Knopp, MI; Castleman, AM; Schwarz, A; Belger-Wallace, J; Falciglia, M; Zuzek, A; Mendonca, E. Continuous Glucose Monitors Among Adults With Type 2 Diabetes Mellitus in the Primary Care Setting: Qualitative Study Informed by Technology Acceptance Model and Health Belief Model. JMIR Diabetes. 2025; 10:e73446.

Kolli, V; Gomez-Arroyo, J; Gu, M; Elwing, JM; Jegga, A; Sarangdhar, M. Evaluating Antidiabetic Modulatory Effects on Drug-induced Pulmonary Arterial Hypertension Using Real-world Data. American Journal of Respiratory and Critical Care Medicine. 2025; 211(Abstracts):a4977-a4977.

Kudira, R; Yang, ZF; Osuji, I; Damen, MSMA; Yang Vom Hofe, A; Singh, M; Karns, R; Bariya, P; Pfuhler, L; Mullen, M; Subramanian, S; Salomonis, N; Miraldi, ER; Miethke, AG. Bile acids engage the SIPR-STAT3 signaling axis to modulate regulatory T cell responses in fibrosing cholangiopathies. Journal of Hepatology. 2025; 83(5):1128-1141.

Ladha, F; Vanderpluym, C; Avillach, P; Brueckner, M; Chung, W; Cnota, J; Gelb, B; Lewis, M; Liu, C; Roberts, A; Seidman, C; Tristani-Firouzi, M; Wagner, M; Morton, S; Newburger, J. Abstract 4359742: Thrombophilia Variants Do Not Predict Thrombotic Events in Congenital Heart Disease: Insights from the Pediatric Cardiac Genomics Consortium. Circulation. 2025; 152(Suppl_3):a4359742-a4359742.

Lambourne, L; Mattioli, K; Santoso, C; Sheynkman, G; Inukai, S; Kaundal, B; Berenson, A; Spirohn-Fitzgerald, K; Bhattacharjee, A; Rothman, E; Sahni, N; Vidal, M; Bulyk, ML; Fuxman Bass, JI. Widespread variation in molecular interactions and regulatory properties among transcription factor isoforms. Molecular Cell. 2025; 85(7):1445-1466.e13.

Lape, M; Schnell, D; Parameswaran, S; Ernst, K; O'connor, S; Salomonis, N; Martin, LJ; Harnett, BM; Kottyan, LC; Weirauch, MT. A survey of pathogenic involvement in non-communicable human diseases. Communications Medicine. 2025; 5(1):242.

Li, Y; Huang, B; Andorf, S; Yue, X; Lovell, DJ; Brunner, HI. Comparative Effectiveness and Safety of the JAK Inhibitors and Biologic Disease-Modifying Antirheumatic Drugs in Treating Children With Nonsystemic Juvenile Idiopathic Arthritis: A Bayesian Meta-Analysis of Randomized Controlled Trials. ACR Open Rheumatology. 2025; 7(2):e11788.

Lorman, V; Bailey, LC; Song, X; Rao, S; Hornig, M; Utidjian, L; Razzaghi, H; Mejias, A; Leikauf, JE; Brill, SB; Cummins, MR; Jhaveri, R; Blecker, S; Forrest, CB. Pediatric Long COVID Subphenotypes: An EHR-based study from the RECOVER program. PLOS Digital Health. 2025; 4(4):e0000747.

Madhuravasal Krishnan, J; Kong, L; Meeds, HL; Roskin, KM; Medvedovic, M; Sherman, KE; Blackard, JT. The synthetic opioid fentanyl increases HIV replication in macrophages. PLoS ONE. 2025; 20(2):e0298341.

Mcgrady, ME; Hommel, KA; Mara, CA; Breen, G; Kouril, M. Engaging end-users to develop a novel algorithm to process electronic medication adherence monitoring device data. JAMIA Open. 2025; 8(5):ooaf135.

Mihalas, AB; Arora, S; O'connor, SA; Feldman, HM; Cucinotta, CE; Mitchell, K; Bassett, J; Kim, D; Jin, K; Hoellerbauer, P; Aronow, B; Plaisier, CL; Patel, AP; Paddison, PJ. KAT5 regulates neurodevelopmental states associated with G0-like populations in glioblastoma. Nature Communications. 2025; 16(1):4327.

Miller, RL; Schuh, H; Chandran, A; Habre, R; Angal, J; Aris, IM; Aschner, JL; Bendixsen, CG; Blossom, J; Bosquet-Enlow, M; Wright, RJ; Zanobetti, A; Zoratti, EM; Johnson, CC. Child Opportunity Index at birth and asthma with recurrent exacerbations in the US ECHO program. Journal of Allergy and Clinical Immunology. 2025; 156(3):627-639.

Minja, NW; Pulle, J; Rwebembera, J; Ollberding, NJ; Fall, N; Atala, J; Kamarembo, J; Oyella, L; Odong, F; De Loizaga, SR; Okello, E; Beaton, AZ; Watkins, DA; Danforth, KM. Integrating secondary prevention of rheumatic heart disease into the primary healthcare system in Northern Uganda. BMJ Global Health. 2025; 10(8).

Molloy, E; Loeb, D; Generoso, J; Zackoff, M. 1582: VERBALIZATION VERSUS RECOGNITION OF SEPSIS BY RESIDENTS IN A VIRTUAL REALITY SIMULATION. Critical Care Medicine. 2025; 53(1).

Myers, KC; Skala, EJ; Ghandikota, S; Jegga, AG; Mousa, N; Siefert, ME; Lane, A; Reffatto, V; Towe, C; Luebbering, N; Bridgeland, A; Goldfarb, S; Davies, SM; Ziady, AG. Blood proteomics of paediatric bronchiolitis obliterans syndrome after hematopoietic cell transplant. ERJ Open Research. 2025; 00745-02025.

Nguyen, V; Harper, A; Azuero, M; Castellanos, I; He, S; Hochman, ML; Wenceslau, CF; Chen, D-B; Jegga, AG; Wang, Y; Fan, D; Nelson, JS; Tan, W. Vascular Organoids Derived from Capillary malformation-induced Pluripotent Stem Cells Exhibit Disease-Relevant Phenotypes. Stem Cell Reviews and Reports. 2026; 22(1):668-675.

Norte, G; Sá-Couto, C; Brandão, CFS; Generoso Junior, JR; Matos, FM. Tradução e adaptação para a Língua Portuguesa da Declaração de Consenso Global sobre a Prática Baseada em Simulação na Saúde. Revista Eletrônica Acervo Saúde. 2025; 25(6):e20508.

Oluwafemi, RO; Ajayi, B; Mendonca, EA; Biondich, P; Ekhaguere, OA. Looped Audiovisual Health Education Talk Reduces Vaccine Clinic Wait Time in Nigeria. Child: Care, Health and Development. 2025; 51(5):e70152.

Opipari-Arrigan, L; Kouril, M; Connor, J; Ford, C; Mcwilliams, E; Green, A; Siracusa, C; Milla, C; Muther, E; Nasr, SZ; Sathe, M; Sawicki, GS; Schechter, MS; Snell, C; Stark, LJ. Evaluating Feasibility, Acceptability, and Effectiveness of a Digital Behavioral Nutrition Intervention in Cystic Fibrosis Care. Clinical Practice in Pediatric Psychology. 2025; 13(3):269-279.

Park, S; Coven, SL; Tran, YH; Mendonca, EA. Examining the Impact of Social Determinants of Health on Pediatric Central Nervous System Tumor Outcomes Through Medical Record Linkage. American Journal of Clinical Oncology: Cancer Clinical Trials. 2025.

Peters, M; Teodorescu, P; Pasca, S; Zhang, X; Wang, R; Yegnasubramanian, S; Grimes, LH; Salomonis, N; Gondek, LP; Ghiaur, G. Comprehensive characterization of human bone marrow microenvironment shows age-related changes. Haematologica. 2025; 110(11):2844-2848.

Peters, AL; Depasquale, EAK; Begum, G; Roskin, KM; Kotliar, M; Barski, A; Salomonis, N; Shi, T; Ranganathan, S; Woodle, ES; Hildeman, DA. Single-cell transcriptional landscape of liver transplant rejection reveals tissue persistence of clonally expanded, treatment-resistant T cells. American Journal of Transplantation. 2025; 25(11):2345-2360.

Phelan, KJ; Roskin, KM; Burkle, JW; Chang, W-C; Martin, LJ; Biagini, JM; Satish, L; Haslam, DB; Spagna, D; Jenkins, S; Visness, CM; Altman, MC; Gern, JE; Khurana Hershey, GK. Early-life wheeze trajectories are associated with distinct asthma transcriptomes later in life. Journal of Allergy and Clinical Immunology. 2025; 156(3):640-650.

Qiao, J; Wang, Q; Zhao, Y; Chang, M; Sun, S; Zhang, P; Yao, K; Chen, M; Zheng, L; Xing, X; Pauklin, S; Zou, R; Yang, Y; Feng, Y. Contribution of leukocyte telomere length to cardiovascular disease onset from genome-wide cross-trait analysis. Nature Communications. 2025; 16(1):8677.

Rao, S; Allen, AJ; Maltenfort, M; Mejias, A; Mendonca, E; Horne, B; Taylor, E; Mosa, A; Sekar, A; Lorman, V. P-727. Is there increased risk of RSV infection following SARS-CoV-2 infection in children? An EHR-based cohort study from the RECOVER Program. Open Forum Infectious Diseases. 2025; 12(Supplement_1):ofae631.923.

Renugadevi, M; Ramkumar, K; Raju, N; Adalarasu, K; Prasath, S; Narasimhan, K. Self‐Supervised DRL With Twin Critics: A Novel Framework for Glioblastoma Survival Prognostication. International Journal of Imaging Systems and Technology. 2025; 35(6).

Riggins, DP; Mendonca, EA; Bulgarelli, L; Tachinardi, P; Tu, W; Rogerson, C. Estimating the Effects of Continuous Albuterol Dosage on Clinical Outcomes for Pediatric Critical Asthma Exacerbation: A Retrospective Cohort Study. Pediatric Pulmonology. 2025; 60(9):e71293.

Rogerson, CM; Bartlett, CW; Price, J; Li, L; Mendonca, EA; Grannis, S. Derivation and validation of an algorithm for maternal-child linkage in electronic health records. Journal of the American Medical Informatics Association : JAMIA. 2025.

Rogerson, C; Abu-Sultaneh, S; Nelson Sanchez-Pinto, L; Gaston, B; Wiehe, S; Schleyer, T; Tu, W; Mendonca, E. 1203: A MATCHED ANALYSIS OF THE USE OF HIGH-FLOW NASAL CANNULA FOR PEDIATRIC SEVERE ACUTE ASTHMA. Critical Care Medicine. 2025; 53(1).

Rogerson, C; Nelson Sanchez-Pinto, L; Gaston, B; Wiehe, S; Schleyer, T; Tu, W; Mendonca, E. 1208: IDENTIFICATION OF SEVERE ACUTE PEDIATRIC ASTHMA PHENOTYPES USING UNSUPERVISED MACHINE LEARNING. Critical Care Medicine. 2025; 53(1).

Roskin, KM; Meeds, HL; Krishnan, JM; Juhascik, M; Cafardi, JM; Brown, JL; Freiermuth, C; Lyons, MS; Sherman, KE; Blackard, JT. Single cell RNA transcriptome response to fentanyl use in persons with hepatitis C virus infection. Frontiers in Virology. 2025; 5:1585217.

S, P; K, R; K, N; Prasath, VBS; S, V. Web based AI-driven framework combining multi-modal data with CNN and LLM for Parkinson's disease diagnosis. Scientific Reports. 2025; 15(1):38556.

Sarangdhar, M; Ghandikota, S; Kolli, V; Jegga, A. Network Propagation Analysis to Uncover the Mechanisms of Antidiabetics as Therapeutic Candidates in Pulmonary Arterial Hypertension. American Journal of Respiratory and Critical Care Medicine. 2025; 211(Abstracts):a4976-a4976.

Sayed, M; Wang, YJ; Lim, H-W. Systematic benchmark of single-cell hashtag demultiplexing approaches reveals robust performance of a clustering-based method. Briefings in Functional Genomics. 2025; 24.

Schmidt, SK; Dexheimer, JW; Zorc, JJ; Palmer, CA; Casper, TC; Stukus, KS; Pickett, ML; Mollen, CJ; Elsholz, CL; Cruz, AT; Augustine, EM; Goyal, MK; Reed, JL. Multisite Implementation of a Sexual Health Survey and Clinical Decision Support to Promote Adolescent Sexually Transmitted Infection Screening. Applied Clinical Informatics. 2025; 16(2):283-294.

Schoettler, N; Gebretsadik, T; Singh, S; Gress, L; Mendonça, EA; Snyder, BM; Eapen, AA; Lebeau, P; Gangnon, R; Seroogy, CM; Martinez, FD; Ober, C; Hartert, TV; Gern, JE. Genotypes in the 17q12-q21 asthma risk locus and early-life viral wheezing illnesses. Pediatric Allergy and Immunology. 2025; 36(8):e70165.

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