Trainee Publications
Bolded authors are Chicago KUH FORWARD Trainees.
2025
Kearney AO, Yang JY, Liu E, Wright M, Chen M, Kong J, Barish G, Thorp EB, Lin J. APOL1 G1 and G2 risk alleles modulate severity of diet-induced obesity in a transgenic mouse model. bioRxiv [Preprint]. 2025 Dec 25:2025.12.23.696293. doi: 10.64898/2025.12.23.696293. PMID: 41497611; PMCID: PMC12767306. https://pubmed.ncbi.nlm.nih.gov/41497611/
Zhang S, Ayemoba CE, Di Staulo AM, Joves K, Patel CM, Leung EHW, Bueno MLP, Du X, Poncz M, Ong SG, Nerlov C, Maryanovich M, Chronis C, Pinho S. Platelet factor 4 regulates hematopoietic stem cell aging. Blood. 2025 Dec 4;146(23):2765-2778. doi: 10.1182/blood.2024027432. PMID: 40920871; PMCID: PMC12574973. https://pubmed.ncbi.nlm.nih.gov/39651177/
Khan MH, Hochstedler-Kramer B, Halverson T, Nwachokor J, Pham TT, Wolfe AJ, Acevedo-Alvarez M. Longitudinal Impact of Methenamine Hippurate on the Urobiome of Postmenopausal Women With Recurrent UTIs. Int Urogynecol J. 2025 Nov 29. doi: 10.1007/s00192-025-06387-5. Epub ahead of print. PMID: 41317299. https://pubmed.ncbi.nlm.nih.gov/41317299/
Varsanik MA, Thaxton C, Nguyen D, Pugar JA, Dhara S, Li W, Nguyen N, Dardik A, Pocivavsek L. Turbulence drives arteriovenous remodeling: an experimentally validated multi-scale model of neointimal hyperplasia. Phys Med Biol. 2025 Nov 20;70(23). doi: 10.1088/1361-6560/ae1ac8. PMID: 41183446. https://pubmed.ncbi.nlm.nih.gov/41183446/
Kimura LF, Esarte Palomero O, Larmore M, DeCaen PG, Vien TN. Molecular pathology and cystogenic propensity of the ADPKD Taiwan founder variant. JCI Insight. 2025 Nov 10;10(21):e191419. doi: 10.1172/jci.insight.191419. PMID: 41212053; PMCID: PMC12643504. https://pubmed.ncbi.nlm.nih.gov/41212053/
Maekawa H, Zhou Y, Aoi Y, Fain ME, Kaminski DS, Kong H, Sebo ZL, Chakrabarty RP, Howard BC, Andersen G, Marcheva B, Gao P, Kapitsinou P, Bass J, Shilatifard A, Chandel NS, Quaggin SE. SGLT2 inhibition protects kidney function by SAM-dependent epigenetic repression of inflammatory genes under metabolic stress. J Clin Invest. 2025 Oct 1;135(19):e188933. doi: 10.1172/JCI188933. PMID: 41031893. https://pubmed.ncbi.nlm.nih.gov/41031893/
Singh A, Alarcon C, Nutescu EA, O'Brien TJ, Tuck M, Gong L, Klein TE, Meltzer DO, Johnson JA, Cavallari LH, Perera MA. Local ancestry-informed GWAS of warfarin dose requirement in African Americans identifies a CYP2C19 splicing QTL. Am J Hum Genet. 2025 Nov 6;112(11):2708-2719. doi: 10.1016/j.ajhg.2025.09.006. Epub 2025 Sep 29. PMID: 41027428; PMCID: PMC12548095. https://pubmed.ncbi.nlm.nih.gov/40093246/
Bishop BY, Sharma SH, Tiwari R, Yuk SA, Almunif S, Quaggin SE, Scott EA, Kapitsinou PP. Enabling organ- and injury-specific nanocarrier targeting via surface-functionalized PEG-b-PPS micelles for acute kidney injury. Nanoscale Horiz. 2025 Nov 17;10(12):3423-3432. doi: 10.1039/d5nh00474h. PMID: 41048153; PMCID: PMC12498314. https://pubs.rsc.org/en/content/articlelanding/2025/nh/d5nh00474h
Spear, R Jimenez-Uribe, AP; Cao, Y; Mangos, S; Alcantar, AG; Kim, BH; Vincenti, F; Reiser, J; Hahm, E. Dysregulated Bone Marrow Contributes to Glomerular Injury through Soluble Factors. JASN, 10.1681/ASN.0000000828, 2025. | DOI: 10.1681/ASN.0000000828 Journal of the American Society of Nephrology
Donik Ž, Dhara S, Li W, Nnate B, Sankary S, Polcari K, Varsanik MA, Khabaz K, Milner R, Nguyen N, Kramberger J, Pocivavsek L. Bare Metal Stenting for Residual Arch Dissections: A Computational Analysis. Cardiovasc Eng Technol. 2025 Dec;16(6):624-640. doi: 10.1007/s13239-025-00799-6. Epub 2025 Aug 4. PMID: 40760236; PMCID: PMC12686075. https://pubmed.ncbi.nlm.nih.gov/40760236/
Márquez-Nogueras KM, Knutila RM, Vuchkovska V, Yang C, Outeda P, Wallace DP, Kuo IY. Hyperosmotic stimuli activate polycystin proteins to aid in urine concentration. JCI Insight. 2025 Aug 5:e186290. doi: 10.1172/jci.insight.186290. Epub ahead of print. PMID: 40763312. https://insight.jci.org/articles/view/186290
Liu AY, Hammes M, Angelos P, Kondamuri N, Harriett L, Suah A, Skolarus TA. Expanding the scope of shared decision-making in vascular access planning for hemodialysis: a case for interprofessional collaboration. BMC Nephrol. 2025 Jul 1;26(1):297. doi: 10.1186/s12882-025-04261-6. PMID: 40597787; PMCID: PMC12211120. https://pubmed.ncbi.nlm.nih.gov/40597787/
Palomero OE, Guadarrama E, DeCaen PG. Pathogenic variants in the polycystin pore helix cause distinct forms of channel dysfunction. Proc Natl Acad Sci U S A. 2025 Jun 17;122(24):e2421362122. doi: 10.1073/pnas.2421362122. Epub 2025 Jun 12. PMID: 40504156; PMCID: PMC12184499. https://www.pnas.org/doi/10.1073/pnas.2421362122
Liu E, Wright M, Kearney AO, Caza T, Yang JY, Garcia V, Dadi AO, Ishibe S, Chandel NS, Zhang H, Thorp EB, Lin J. G1 and G2 ApolipoproteinL1 modulate macrophage inflammation and lipid accumulation through the polyamine pathway. bioRxiv [Preprint]. 2025 Jun 8:2025.06.06.658371. doi: 10.1101/2025.06.06.658371. PMID: 40501951; PMCID: PMC12157409. https://pubmed.ncbi.nlm.nih.gov/40501951/
2024
Márquez-Nogueras KM, Kuo IY. STIMulating Salivary Glands. Function (Oxf). 2025 Feb 12;6(1):zqae055. doi: 10.1093/function/zqae055. PMID: 39694708; PMCID: PMC11815572. https://pmc.ncbi.nlm.nih.gov/articles/PMC11815572/
Larmore M, Esarte Palomero O, Kamat N, DeCaen PG. A synthetic method to assay polycystin channel biophysics. Elife. 2024 Oct 28;13:RP98534. doi: 10.7554/eLife.98534. PMID: 39466685; PMCID: PMC11517255. https://pubmed.ncbi.nlm.nih.gov/39466685/
Sepulveda M, Rasic M, Lei YM, Kwan M, Chen L, Chen Y, Perkins D, Alegre ML. Coordinated elimination of bacterial taxa optimally attenuates alloimmunity and prolongs allograft survival. Am J Transplant. 2024 Sep;24(9):1573-1582. doi: 10.1016/j.ajt.2024.03.020. Epub 2024 Mar 20. PMID: 38519004; PMCID: PMC11390333. https://pubmed.ncbi.nlm.nih.gov/38519004/
Márquez-Nogueras KM, Elliott B, Thuo, P, DiNello E, Knutila RM, Fritzmann GE, Vuchkovska V, Flury S, Willis M, Chapman AB, Cao Q, Barefield DY, Kuo IY. Cardiac Localized Polycystin-2 in the Natriuretic Peptide Signaling Pathway and Hypertension. JASN 2024 Sep 20, 2024. | DOI: 10.1681/ASN.0000000000000490; https://journals.lww.com/jasn/abstract/9900/cardiac_localized_polycystin_2_in_the_natriuretic.422.aspx
Paik NY, Neethling J, Anwar M, Gupta P, Sanborn MA, Shen Z, Bandara T, Hyun J, Naiche LA, Kitajewski JK, Rehman J, Shin JW, Mehta D, Pajcini KV. Notch transcriptional target tmtc1 maintains vascular homeostasis. Cellular and molecular life sciences : CMLS. 2024 August 27;81(1):370. PubMed PMID: 39190102; PubMed Central PMCID: PMC11349727; DOI: 10.1007/s00018-024-05407-9. https://pubmed.ncbi.nlm.nih.gov/39190102/
Juliar BA, Stanaway IB, Sano F, Fu H, Smith KD, Akilesh S, Scales SJ, El Saghir J, Bhatraju PK, Liu E, Yang J, Lin J, Eddy S, Kretzler M, Zheng Y, Himmelfarb J, Harder JL, Freedman BS. Interferon-γ induces combined pyroptotic angiopathy and APOL1 expression in human kidney disease. Cell Rep. 2024 Jun 25;43(6):114310. doi: 10.1016/j.celrep.2024.114310. Epub 2024 Jun 4. PMID: 38838223; PMCID: PMC11216883: https://pubmed.ncbi.nlm.nih.gov/38838223/
Nies JF, Hendrix C, Bartram MP, Spear R, Hagmann H, Benzing T, Kubacki T. Effectiveness and safety of immunoadsorption as a rescue treatment of inflammatory myopathies: report of three cases and literature review. Therapeutic advances in musculoskeletal disease. 2024;16:1759720X241250238. PubMed PMID: 38764488; PubMed Central PMCID: PMC11102671; DOI: 10.1177/1759720X241250238. https://pubmed.ncbi.nlm.nih.gov/38764488/
Du J, Khemmani M, Halverson T, Ene A, Limeira R, Tinawi L, Hochstedler-Kramer BR, Noronha MF, Putonti C, Wolfe AJ. Cataloging the phylogenetic diversity of human bladder bacterial isolates. Genome Biol. 2024 Mar 21;25(1):75. doi: 10.1186/s13059-024-03216-8. PMID: 38515176; PMCID: PMC10958879. https://genomebiology.biomedcentral.com/articles/10.1186/s13059-024-03216-8
Márquez-Nogueras K, Bovo E, Neczypor J, Cao Q, Zima A, Kuo I. Utilization of the genetically encoded calcium indicator Salsa6F in cardiac applications. 2024 May 119, 102873; doi:10.1016. Epub 2024 Mar 20. https://www.sciencedirect.com/science/article/pii/S0143416024000319
Vellky JE, Kirkpatrick BJ, Gutgesell LC, Morales M, Brown RM, Wu Y, Maienschein-Cline M, Notardonato LD, Weinfeld MS, Nguyen RH, Brister E, Sverdlov M, Liu L, Xu Z, Kregel S, Nonn L, Vander Griend DJ, Reizine NM. ERBB3 Overexpression is Enriched in Diverse Patient Populations with Castration-sensitive Prostate Cancer and is Associated with a Unique AR Activity Signature. Clin Cancer Res. 2024 Apr 15;30(8):1530-1543. doi: 10.1158/1078-0432.CCR-23-2161. PMID: 38306015; PMCID: PMC11016893. https://pubmed.ncbi.nlm.nih.gov/38306015/
Bai H, Varsanik MA, Thaxton C, Ohashi Y, Gonzalez L, Zhang W, Aoyagi Y, Kano M, Yatsula B, Li Z, Pocivavsek L, Dardik A. Disturbed flow in the juxta-anastomotic area of an arteriovenous fistula correlates with endothelial loss, acute thrombus formation, and neointimal hyperplasia. Am J Physiol Heart Circ Physiol. 2024 Jun 1;326(6):H1446-H1461. doi: 10.1152/ajpheart.00054.2024. Epub 2024 Apr 5. PMID: 38578237; PMCID: PMC11380968. https://pubmed.ncbi.nlm.nih.gov/38578237/
Vellky JE, Wu Y, Moline D, Drnevich J, Maienschein-Cline M, Valyi-Nagy K, Kajdacsy-Balla A, Vander Griend DJ. Single-cell RNA sequencing of human prostate basal epithelial cells reveals zone-specific cellular populations and gene expression signatures. J Pathol. 2024 Feb;262(2):212-225. doi: 10.1002/path.6227. Epub 2023 Nov 20. PMID: 37984408; PMCID: PMC10842206. https://pathsocjournals.onlinelibrary.wiley.com/doi/10.1002/path.6227
2023
Kremer LE, Chapman AB, Armato SG 3rd. Magnetic resonance imaging preprocessing and radiomic features for classification of autosomal dominant polycystic kidney disease genotype. J Med Imaging (Bellingham). 2023 Nov;10(6):064503. doi: 10.1117/1.JMI.10.6.064503. Epub 2023 Dec 27. PMID: 38156331; PMCID: PMC10752557. https://pubmed.ncbi.nlm.nih.gov/38156331/
Hochstedler-Kramer BR, Ene A, Putonti C, Wolfe AJ. Comparative genomic analysis of clinical Enterococcus faecalis distinguishes strains isolated from the bladder. BMC Genomics. 2023 Dec 7;24(1):752. doi: 10.1186/s12864-023-09818-z. PMID: 38062354; PMCID: PMC10701997. https://bmcgenomics.biomedcentral.com/articles/10.1186/s12864-023-09818-z
Li Z, Chen L, Sepulveda M, Wang P, Rasic M, Tullius SG, Perkins D, Alegre ML. Microbiota-dependent and -independent effects of obesity on transplant rejection and hyperglycemia. Am J Transplant. 2023 Jun 23:S1600-6135(23)00542-7. https://www.sciencedirect.com/science/article/pii/S1600613523005427
Bishop B, Sharma S, Scott EA, 2023, Nanomedicine in kidney disease, Curr Opin Nephrol Hypertens, 32(4):366-376. https://pubmed.ncbi.nlm.nih.gov/37195248/
Ng LC, Harris BJ, Larmore M, Ta MC, Vien TN, Tokars VL, Yarov-Yarovoy V, DeCaen PG. Energetic landscape of polycystin channel gating. EMBO Rep. 2023 Jul 5;24(7):e56783. doi: 10.15252/embr.202356783. Epub 2023 May 9. PMID: 37158562; PMCID: PMC10328073.
Márquez-Nogueras KM, Vuchkovska V, Kuo IY. Calcium signaling in polycystic kidney disease- cell death and survival. Cell Calcium. 2023 Jun;112:102733. https://www.sciencedirect.com/science/article/pii/S0143416023000453?via%3Dihub
Márquez-Nogueras KM, Kuo IY. Cardiovascular perspectives of the TRP channel polycystin 2. J Physiol. 2023 Jun 13. https://physoc.onlinelibrary.wiley.com/doi/10.1113/JP283835
Ally, SA, Han, J, Sun, R, Molokie, RE, Gordeuk, VR, Lash, JP, & Saraf, SL. Community-level socioeconomic distress is associated with nutritional status in adults with sickle cell anemia. eJHaem. 2023; 1– 5. https://doi.org/10.1002/jha2.661
Esarte Palomero O, Larmore M, DeCaen PG. Polycystin Channel Complexes. Annu Rev Physiol. 2023 Feb 10;85:425-448. doi: 10.1146/annurev-physiol-031522-084334. PMID: 36763973. https://pubmed.ncbi.nlm.nih.gov/36763973/
Li, Z, Rasic, M, Kwan, M, Sepulveda, M, McIntosh, C, Shastry, V., Chen, L, Finn, P, Perkins, D, & Alegre, ML. Oral administration of the commensal Alistipes onderdonkii prolongs allograft survival, American Journal of Transplantation. 2023; ISSN 1600-6135, https://doi.org/10.1016/j.ajt.2022.11.011
2022
Moline, DC, Zenner, ML, Burr, A, Vellky, JE, Nonn, L, & Vander Griend, & DJ. Single-cell RNA-Seq identifies factors necessary for the regenerative phenotype of prostate luminal epithelial progenitors. American journal of clinical and experimental urology. 2022; 10(6), 425–439. PMID: 36636696; PMCID: PMC9831919. https://europepmc.org/article/pmc/pmc9831919
Márquez-Nogueras KM, Vuchkovska V, DiNello E, Osorio-Valencia S, Kuo IY. Polycystin-2 (PC2) is a key determinant of in vitro myogenesis. American journal of physiology. Cell physiology. 2022 Aug 1; 323(2):C333-C346. https://doi.org/10.1152/ajpcell.00159.2021. PMID: 35675637; PMCID: PMC9291421.
Hochstedler-Kramer B, Joyce C, Abdul-Rahim O, Barnes HC, Mueller ER, Wolfe AJ, Brubaker L and Burnett LA (2022) One Size Does Not Fit All: Variability in Urinary Symptoms and Microbial Communities. Front. Urol. 2:890990. doi: 10.3389/fruro.2022.890990 Frontiers | One Size Does Not Fit All: Variability in Urinary Symptoms and Microbial Communities (frontiersin.org)