Publications

Trainee: Current

Faculty Member: Neil Hukriede, PhD

Publications:

Velazquez JJ, LeGraw R, Moghadam F, Tan Y, Kilbourne J, Maggiore JC, Hislop J, Liu S, Cats D, Chuva de Sousa Lopes SM, Plaisier C, Cahan P, Kiani S, Ebrahimkhani MR. Gene Regulatory Network Analysis and Engineering Directs Development and Vascularization of Multilineage Human Liver Organoids. Cell Syst. 2021 Jan 20;12(1):41-55.e11. doi: 10.1016/j.cels.2020.11.002. Epub 2020 Dec 7. PMID: 33290741; PMCID: PMC8164844.

Montalbetti N, Przepiorski AJ, Shi S, Sheng S, Baty CJ, Maggiore JC, Carattino MD, Vanichapol T, Davidson AJ, Hukriede NA, Kleyman TR. Functional characterization of ion channels expressed in kidney organoids derived from human induced pluripotent stem cells. Am J Physiol Renal Physiol. 2022 Oct 1;323(4):F479-F491. doi: 10.1152/ajprenal.00365.2021. Epub 2022 Aug 18. PMID: 35979965; PMCID: PMC9529267.

Al-Bataineh MM, Kinlough CL, Marciszyn A, Lam T, Ye L, Kidd K, Maggiore JC, Poland PA, Kmoch S, Bleyer A, Bain DJ, Montalbetti N, Kleyman TR, Hughey RP, Ray EC. Influence of glycoprotein MUC1 on trafficking of the Ca²⁺-selective ion channels, TRPV5 and TRPV6, and on in vivo calcium homeostasis. J Biol Chem. 2023 Mar;299(3):102925. doi: 10.1016/j.jbc.2023.102925. Epub 2023 Jan 20. PMID: 36682497; PMCID: PMC9996365.

Maggiore JC, LeGraw R, Przepiorski A, Velazquez J, Chaney C, Streeter E, Silva-Barbosa A, Franks J, Hislop J, Hill A, Wu H, Pfister K, Howden SE, Watkins SC, Little M, Humphreys BD, Watson A, Stolz DB, Kiani S, Davidson AJ, Carroll TJ, Cleaver O, Sims-Lucas S, Ebrahimkhani MR, Hukriede NA. Genetically engineering endothelial niche in human kidney organoids enables multilineage maturation, vascularization and de novo cell types. bioRxiv [Preprint]. 2023 May 30:2023.05.30.542848. doi: 10.1101/2023.05.30.542848. Update in: Kidney Int. 2024 Jun 18:S0085-2538(24)00407-1. doi: 10.1016/j.kint.2024.05.026. PMID: 37333155; PMCID: PMC10274893.

Kaverina N, Schweickart RA, Chan GC, Maggiore JC, Eng DG, Zeng Y, McKinzie SR, Perry HS, Ali A, O'Connor C, Pereira BMV, Theberge AB, Vaughan JC, Loretz CJ, Chang A, Hukriede NA, Bitzer M, Pippin JW, Wessely O, Shankland SJ. Inhibiting NLRP3 signaling in aging podocytes improves their life- and health-span. Aging (Albany NY). 2023 Jul 23;15(14):6658-6689. doi: 10.18632/aging.204897. Epub 2023 Jul 23. PMID: 37487005; PMCID: PMC10415579.

Veloso Pereira BM, Zeng Y, Maggiore JC, Schweickart RA, Eng DG, Kaverina N, McKinzie SR, Chang A, Loretz CJ, Thieme K, Hukriede NA, Pippin JW, Wessely O, Shankland SJ. Podocyte injury at young age causes premature senescence and worsens glomerular aging. Am J Physiol Renal Physiol. 2024 Jan 1;326(1):F120-F134. doi: 10.1152/ajprenal.00261.2023. Epub 2023 Oct 19. PMID: 37855038; PMCID: PMC11198990.

Molinari L, Rio-Pertuz GD, Priyanka P, Smith A, Maggiore JC, Kennedy J, Gomez H, Seymour CW, Kellum JA; ProCESS and ProGReSS-AKI Investigators. Distribution of Acute and Chronic Kidney Disease Across Clinical Phenotypes for Sepsis. Chest. 2024 Sep;166(3):480-490. doi: 10.1016/j.chest.2024.03.006. Epub 2024 Mar 8. PMID: 38462074.

Maggiore JC, LeGraw R, Przepiorski A, Velazquez J, Chaney C, Vanichapol T, Streeter E, Almuallim Z, Oda A, Chiba T, Silva-Barbosa A, Franks J, Hislop J, Hill A, Wu H, Pfister K, Howden SE, Watkins SC, Little MH, Humphreys BD, Kiani S, Watson A, Stolz DB, Davidson AJ, Carroll T, Cleaver O, Sims-Lucas S, Ebrahimkhani MR, Hukriede NA. A genetically inducible endothelial niche enables vascularization of human kidney organoids with multilineage maturation and emergence of renin expressing cells. Kidney Int. 2024 Jun 18:S0085-2538(24)00407-1. doi: 10.1016/j.kint.2024.05.026. Epub ahead of print. PMID: 38901605.

Trainee Name: Varun Mandi

Trainee: Current

Faculty Member: Vijay Yechoor, PhD

Publications:

Negi V, Lee J, Mandi V, Danvers J, Liu R, Perez-Garcia EM, Li F, Jagannathan R, Yang P, Filingeri D, Kumar A, Ma K, Moulik M, Yechoor VK. Bromodomain Protein Inhibition Protects β-Cells from Cytokine-Induced Death and Dysfunction via Antagonism of NF-κB Pathway. Cells. 2024 Jun 26;13(13):1108. doi: 10.3390/cells13131108. PMID: 38994961; PMCID: PMC11240345.

Espinosa-Diez C, Mandi V, Du M, Liu M, Gomez D. Smooth muscle cells in atherosclerosis: clones but not carbon copies. JVS Vasc Sci. 2021 May 15;2:136-148. doi: 10.1016/j.jvssci.2021.02.002. PMID: 34617064; PMCID: PMC8489213.

Trainee Name: Philip Mannes PhD

Trainee: Current

Faculty Member: Sina Tavakoli, MD, PhD

Publications:

Mannes PZ, Adams TS, Farsijani S, Barnes CE, Latoche JD, Day KE, Nedrow JR, Ahangari F, Kaminski N, Lee JS, Tavakoli S. Noninvasive assessment of the lung inflammation-fibrosis axis by targeted imaging of CMKLR1. Sci Adv. 2024 Jun 21;10(25):eadm9817. doi: 10.1126/sciadv.adm9817. Epub 2024 Jun 19. PMID: 38896611; PMCID: PMC11186491.

Zhu Q, Barnes CE, Mannes PZ, Latoche JD, Day KE, Nedrow JR, Novelli EM, Anderson CJ, Tavakoli S. Targeted imaging of very late antigen-4 for noninvasive assessment of lung inflammation-fibrosis axis. EJNMMI Res. 2023 Jun 5;13(1):55. doi: 10.1186/s13550-023-01006-0. PMID: 37273103; PMCID: PMC10240482.

Mannes PZ, Barnes CE, Latoche JD, Day KE, Nedrow JR, Lee JS, Tavakoli S. 2-deoxy-2-[¹⁸F]fluoro-D-glucose Positron Emission Tomography to Monitor Lung Inflammation and Therapeutic Response to Dexamethasone in a Murine Model of Acute Lung Injury. Mol Imaging Biol. 2023 Aug;25(4):681-691. doi: 10.1007/s11307-023-01813-w. Epub 2023 Mar 20. PMID: 36941514; PMCID: PMC10027262.

Mannes PZ, Barnes CE, Biermann J, Latoche JD, Day KE, Zhu Q, Tabary M, Xiong Z, Nedrow JR, Izar B, Anderson CJ, Villanueva FS, Lee JS, Tavakoli S. Molecular imaging of chemokine-like receptor 1 (CMKLR1) in experimental acute lung injury. Proc Natl Acad Sci U S A. 2023 Jan 17;120(3):e2216458120. doi: 10.1073/pnas.2216458120. Epub 2023 Jan 10. PMID: 36626557; PMCID: PMC9934297.

Mannes PZ, Tavakoli S. Imaging Immunometabolism in Atherosclerosis. J Nucl Med. 2021 Jul 1;62(7):896-902. doi: 10.2967/jnumed.120.245407. Epub 2021 May 7. PMID: 33963045; PMCID: PMC8882876.

Mannes PZ, Wang TL, Ma W, Selzer J, Blanco C. Student Substance Use Policies in US Allopathic Medical Schools: A National Study. JAMA Psychiatry. 2021 Dec 1;78(12):1393-1395. doi: 10.1001/jamapsychiatry.2021.2666. PMID: 34586347; PMCID: PMC8482301.

Demirdelen S, Mannes PZ, Aral AM, Haddad J, Leers SA, Gomez D, Tavakoli S. Divergence of acetate uptake in proinflammatory and inflammation-resolving macrophages: implications for imaging atherosclerosis. J Nucl Cardiol. 2021. Epub 2021/01/10. doi: 10.1007/s12350-020-02479-5. PubMed PMID: 33420659.

Wagner S , Sudhamalla B , Mannes P, Sappa S , Kavoosi S , Dey D , Wang S , Islam K . Engineering bromodomains with a photoactive amino acid by engaging 'Privileged' tRNA synthetases. Chem Commun (Camb). 2020 Mar 28;56(25):3641-3644. doi: 10.1039/c9cc09891g. Epub 2020 Feb 28. PMID: 32107512; PMCID: PMC7146825.

Trainee Name: Ugonna Mbaekwe

Trainee: Current

Faculty Member: Corrine Kliment, MD, PhD

Publications:

Sui J, Xiao H, Mbaekwe U, Ting NC, Murday K, Hu Q, Gregory AD, Kapellos TS, Yildirim AÖ, Königshoff M, Zhang Y, Sciurba FC, Das J, Kliment CR. Interpretable machine learning uncovers epithelial transcriptional rewiring and a role for Gelsolin in COPD. JCI Insight. 2024 Oct 1:e180239. doi: 10.1172/jci.insight.180239. Epub ahead of print. PMID: 39352744.

Trainee Name: Jessica Medrano

Trainee: Current

Faculty Member: Philana Ling Lin, MD, MSC

Publications:

Medrano JM, Maiello P, Rutledge T, Tomko J, Rodgers MA, Fillmore D, Frye LJ, Janssen C, Klein E, Flynn JL, Lin PL. Characterizing the Spectrum of Latent Mycobacterium tuberculosis in the Cynomolgus Macaque Model: Clinical, Immunologic, and Imaging Features of Evolution. J Infect Dis. 2023 Feb 14;227(4):592-601. doi: 10.1093/infdis/jiac504. PMID: 36611221; PMCID: PMC9927077.

Trainee Name: Amir Mina, PhD

Trainee: Current

Faculty Member: Shyam Visweswaran, MD, PhD

Publications:

Mina AI, Espino JU, Bradley AM, Thirumala PD, Batmanghelich K, Visweswaran S. Detecting Cerebral Ischemia From Electroencephalography During Carotid Endarterectomy Using Machine Learning. AMIA Jt Summits Transl Sci Proc. 2024 May 31;2024:613-622. PMID: 38827046; PMCID: PMC11141851.

Mina AI, Espino JU, Bradley AM, Thirumala P, Batmanghelich K, Visweswaran S. Time-Series Aware Metrics for the Evaluation of Intraoperative Electroencephalography-Based Ischemia Detection. Stud Health Technol Inform. 2024 Jan 25;310:274-278. doi: 10.3233/SHTI230970. PMID: 38269808.

Bata A, Al Qudah A, Algarni S, Al Ta'ani O, Balzer JR, Crammond DJ, Shandal V, Gross BA, Lang MJ, Anetakis KM, Narayanan S, Mina A, Thirumala PD. Diagnostic Accuracy of Somatosensory Evoked Potentials and Electroencephalography During Endovascular Treatment of Unruptured Cerebral Aneurysms. World Neurosurg. 2023 Jun 26:S1878-8750(23)00863-X. doi: 10.1016/j.wneu.2023.06.087. Epub ahead of print. PMID: 37380051.

Fleseriu CM, Sultan I, Brown JA, Mina A, Frenchman J, Crammond DJ, Balzer J, Anetakis KM, Subramaniam K, Shandal V, Navid F, Thirumala PD. Role of Intraoperative Neurophysiological Monitoring in Preventing Stroke After Cardiac Surgery. Ann Thorac Surg. 2023 Sep;116(3):623-629. doi: 10.1016/j.athoracsur.2023.01.004. Epub 2023 Jan 10. PMID: 36634835.

Moehl K, Shandal V, Anetakis K, Paras S, Mina A, Crammond D, Balzer J, Thirumala PD. Predicting transient ischemic attack after carotid endarterectomy: The role of intraoperative neurophysiological monitoring. Clin Neurophysiol. 2022 Sep;141:1-8. doi: 10.1016/j.clinph.2022.06.010. Epub 2022 Jun 24. PMID: 35797873.

Paras S, Mina A, Crammond DJ, Visweswaran S, Anetakis KM, Balzer JR, Shandal V, Thirumala PD. Cardiovascular-related mortality after intraoperative neurophysiologic monitoring changes during carotid endarterectomy. Clin Neurophysiol. 2022 Jul;139:43-48. doi: 10.1016/j.clinph.2022.04.005. Epub 2022 Apr 22. PMID: 35525076.

Melachuri SR, Melachuri MK, Mina A, Anetakis K, Crammond DJ, Balzer JR, Shandal V, Thirumala PD. Optimal "Low" Pedicle Screw Stimulation Threshold to Predict New Postoperative Lower-Extremity Neurologic Deficits During Lumbar Spinal Fusions. World Neurosurg. 2021 Jul;151:e250-e256. doi: 10.1016/j.wneu.2021.04.022. Epub 2021 Apr 16. PMID: 33872842.

Trainee Name: Robert Morrison, PhD

Trainee: Current

Faculty Member: Hassane Zarour, MD

Publications:

Davar D, Morrison RM, Dzutsev AK, Karunamurthy A, Chauvin JM, Amatore F, Deutsch JS, Das Neves RX, Rodrigues RR, McCulloch JA, Wang H, Hartman DJ, Badger JH, Fernandes MR, Bai Y, Sun J, Cole AM, Aggarwal P, Fang JR, Deitrick C, Bao R, Duvvuri U, Sridharan SS, Kim SW, A Choudry H, Holtzman MP, Pingpank JF, O'Toole JP, DeBlasio R, Jin Y, Ding Q, Gao W, Groetsch C, Pagliano O, Rose A, Urban C, Singh J, Divarkar P, Mauro D, Bobilev D, Wooldridge J, Krieg AM, Fury MG, Whiteaker JR, Zhao L, Paulovich AG, Najjar YG, Luke JJ, Kirkwood JM, Taube JM, Park HJ, Trinchieri G, Zarour HM. Neoadjuvant vidutolimod and nivolumab in high-risk resectable melanoma: A prospective phase II trial. Cancer Cell. 2024 Nov 11;42(11):1898-1918.e12. doi: 10.1016/j.ccell.2024.10.007. Epub 2024 Oct 31. PMID: 39486411; PMCID: PMC11560503.

Bai Y, Qin Y, Fan Z, Morrison RM, Nam K, Zarour HM, Koldamova R, Padiath QS, Kim S, Park HJ. scMAPA: Identification of cell-type-specific alternative polyadenylation in complex tissues. Gigascience. 2022 Apr 30;11:giac033. doi: 10.1093/gigascience/giac033. PMID: 35488860; PMCID: PMC9055853.

Pagliano O, Morrison RM, Chauvin JM, Banerjee H, Davar D, Ding Q, Tanegashima T, Gao W, Chakka SR, DeBlasio R, Lowin A, Kara K, Ka M, Zidi B, Amin R, Raphael I, Zhang S, Watkins SC, Sander C, Kirkwood JM, Bosenberg M, Anderson AC, Kuchroo VK, Kane LP, Korman AJ, Rajpal A, West SM, Han M, Bee C, Deng X, Schebye XM, Strop P, Zarour HM. Tim-3 mediates T cell trogocytosis to limit antitumor immunity. J Clin Invest. 2022 May 2;132(9):e152864. doi: 10.1172/JCI152864. PMID: 35316223; PMCID: PMC9057587.

McCulloch JA, Davar D, Rodrigues RR, Badger JH, Fang JR, Cole AM, Balaji AK, Vetizou M, Prescott SM, Fernandes MR, Costa RGF, Yuan W, Salcedo R, Bahadiroglu E, Roy S, DeBlasio RN, Morrison RM, Chauvin JM, Ding Q, Zidi B, Lowin A, Chakka S, Gao W, Pagliano O, Ernst SJ, Rose A, Newman NK, Morgun A, Zarour HM, Trinchieri G, Dzutsev AK. Intestinal microbiota signatures of clinical response and immune-related adverse events in melanoma patients treated with anti-PD-1. Nat Med. 2022 Mar;28(3):545-556. doi: 10.1038/s41591-022-01698-2. Epub 2022 Feb 28. PMID: 35228752; PMCID: PMC10246505.

Davar D, Dzutsev AK, McCulloch JA, Rodrigues RR, Chauvin JM, Morrison RM, Deblasio RN, Menna C, Ding Q, Pagliano O, Zidi B, Zhang S, Badger JH, Vetizou M, Cole AM, Fernandes MR, Prescott S, Costa RGF, Balaji AK, Morgun A, Vujkovic-Cvijin I, Wang H, Borhani AA, Schwartz MB, Dubner HM, Ernst SJ, Rose A, Najjar YG, Belkaid Y, Kirkwood JM, Trinchieri G, Zarour HM. Fecal microbiota transplant overcomes resistance to anti-PD-1 therapy in melanoma patients. Science. 2021 Feb 5;371(6529):595-602. doi: 10.1126/science.abf3363. PMID: 33542131; PMCID: PMC8097968.

Trainee Name: Ananya Mukundan PhD

Trainee: Current

Faculty Member: Andrew Hinck, PhD

Publications:

van Dinther M, Cunningham KT, Singh SP, White MPJ, Campion T, Ciancia C, van Veelen PA, de Ru AH, González-Prieto R, Mukundan A, Byeon CH, Staggers SR, Hinck CS, Hinck AP, Dijke PT, Maizels RM. CD44 acts as a coreceptor for cell-specific enhancement of signaling and regulatory T cell induction by TGM1, a parasite TGF-β mimic. Proc Natl Acad Sci U S A. 2023 Aug 22;120(34):e2302370120. doi: 10.1073/pnas.2302370120. Epub 2023 Aug 17. PMID: 37590410; PMCID: PMC10450677.

Mukundan A, Byeon CH, Hinck CS, Cunningham K, Campion T, Smyth DJ, Maizels RM, Hinck AP. Convergent evolution of a parasite-encoded complement control protein-scaffold to mimic binding of mammalian TGF-β to its receptors, TβRI and TβRII. J Biol Chem. 2022 Jun;298(6):101994. doi: 10.1016/j.jbc.2022.101994. Epub 2022 Apr 29. PMID: 35500648; PMCID: PMC9163516.

Singh SP, Smyth DJ, Cunningham K, Mukundan A, Byeon CH, Hinck CS, White MPJ, Ciancia C, Wosowska N, Sanders A, Jin R, Lilla S, Zanivan S, Schoenherr C, Inman G, van Dinther M, Ten Dijke P, Hinck AP, Maizels RM. The helminth TGF-β mimic TGM4 is a modular ligand that binds CD44, CD49d and TGF-β receptors to preferentially target myeloid cells. bioRxiv [Preprint]. 2023 Nov 15:2023.11.13.566701. doi: 10.1101/2023.11.13.566701. PMID: 38014296; PMCID: PMC10680678.

White SE, Schwartze TA, Mukundan A, Schoenherr C, Singh SP, van Dinther M, Cunningham KT, White MPJ, Campion T, Pritchard J, Hinck CS, Ten Dijke P, Inman G, Maizels RM, Hinck AP. TGM6, a helminth secretory product, mimics TGF-β binding to TβRII to antagonize TGF-β signaling in fibroblasts. bioRxiv [Preprint]. 2023 Dec 23:2023.12.22.573140. doi: 10.1101/2023.12.22.573140. PMID: 38187573; PMCID: PMC10769414.

Singh SP, Smyth DJ, Cunningham KT, Mukundan A, Byeon CH, Hinck CS, White MPJ, Ciancia C, Wąsowska N, Sanders A, Jin R, White RF, Lilla S, Zanivan S, Schoenherr C, Inman GJ, van Dinther M, Ten Dijke P, Hinck AP, Maizels RM. The TGF-β mimic TGM4 achieves cell specificity through combinatorial surface co-receptor binding. EMBO Rep. 2025 Jan;26(1):218-244. doi: 10.1038/s44319-024-00323-2. Epub 2024 Nov 28. PMID: 39609640; PMCID: PMC11723922.

Trainee Name: Shruti Nanivadekar

Trainee: Current

Faculty Member: Aryn Gittis, PhD

Publications:

Spix TA, Nanivadekar S, Toong N, Kaplow IM, Isett BR, Goksen Y, Pfenning AR, Gittis AH. Population-specific neuromodulation prolongs therapeutic benefits of deep brain stimulation. Science. 2021 Oct 8;374(6564):201-206. doi: 10.1126/science.abi7852. Epub 2021 Oct 7. PMID: 34618556.

Kariv S, Choi JW, Mirpour K, Gordon AM, Alijanpourotaghsara A, Benam M, Abdalla R, Chilukuri S, Gu JW, Bokil H, Nanivadekar S, Gittis AH, Pouratian N. Pilot Study of Acute Behavioral Effects of Pallidal Burst Stimulation in Parkinson's Disease. Mov Disord. 2024 Jul 15. doi: 10.1002/mds.29928. Epub ahead of print. PMID: 39007445.

Trainee Name: Hector Nieves-Rosado PhD

Trainee: Current

Faculty Member: Lawrence Kane, PhD

Publications:

Banerjee, H., Nieves-Rosado, HM, Kulkarni, A., Murter, B., McGrath, K. V., Chandran, U. R., . . . Kane, LP. Expression of Tim-3 drives phenotypic and functional changes in Treg cells in secondary lymphoid organs and the tumor microenvironment. Cell Rep; 2021. (PMID 34525351).

Nieves-Rosado HM., Jacobs JL., Naqvi A., Mellors JW., Macatangay BJC., Kane LP. TIM-3 signaling contributes to the suppressive capacity of Tregs from people with HIV on antiretroviral therapy. J Leukoc Biol; 2023. (PMID: 37350502).

Nieves-Rosado, HM., Banerjee, H., Gocher-Demske, A., Manandhar, P., Mehta, I., Ezenwa, O., Xie, B., Murter, B., Das, J., Vignali, DAA., Delgoffe, GM., Kane, LP. Tim-3 is required for Treg-mediated promotion of T cell exhaustion and viral persistence during chronic LCMV infection. Journal of Immunology; 2024.

Peralta, RM., Xie, B., Lontos, K., Nieves-Rosado, HM., Spahr, K., Ford, RB., Quann, K., Frisch, A., Dean, V., Philbin, M., Cillo, AR., Gingras, S., Poholek, AC., Kane, LP., Rivadeneira, DB., Delgoffe GM. Dysfunction of exhausted T cells is enforced by MCT11-mediated lactate metabolism. Nat. Immunol; 2024.