Newly Published Research


Border S, Lucarelli N, Eadon MT, El-Achkar TM, Jain S, Sarder P. Computational Pathology Fusing Spatial Technologies. Clin J Am Soc Nephrol. 2023 Mar 13. eng. Epub 2023/03/14. doi:10.2215/cjn.0000000000000146. Cited in: Pubmed; PMID 36913267.

Bryniarski MA, Sandoval RM, Ruszaj DM, Fraser-McArthur J, Yee BM, Yacoub R, Chaves LD, Campos-Bilderback SB, Molitoris BA, Morris ME. Defining the Intravital Renal Disposition of Fluorescence-Quenched Exenatide. Mol Pharm. 2023 Feb 6;20(2):987-996. eng. Epub 2023/01/11. doi:10.1021/acs.molpharmaceut.2c00671. Cited in: Pubmed; PMID 36626167.

Wagner MC, Sandoval RM, Yadav SPS, Campos SB, Rhodes GJ, Phillips CL, Molitoris BA. Lrpap1 (RAP) Inhibits Proximal Tubule Clathrin Mediated and Clathrin Independent Endocytosis, Ameliorating Renal Aminoglycoside Nephrotoxicity. Kidney360. 2023 Feb 27. eng. Epub 2023/02/28. doi:10.34067/kid.0000000000000094. Cited in: Pubmed; PMID 36848531.

Winfree S, McNutt AT, Khochare S, Borgard TJ, Barwinska D, Sabo AR, Ferkowicz MJ, Williams JC, Jr., Lingeman JE, Gulbronson CJ, Kelly KJ, Sutton TA, Dagher PC, Eadon MT, Dunn KW, El-Achkar TM. Integrated Cytometry With Machine Learning Applied to High-Content Imaging of Human Kidney Tissue for In Situ Cell Classification and Neighborhood Analysis. Lab Invest. 2023 Feb 4;103(6):100104. eng. Epub 2023/03/04. doi:10.1016/j.labinv.2023.100104. Cited in: Pubmed; PMID 36867975.


Dunn KW, Hall AM, Molitoris BA. Editorial: Proceedings of the 2021 Indiana O'Brien Center Microscopy Workshop. Front Physiol. 2022;13:891526. eng. Epub 2022/05/20. doi:10.3389/fphys.2022.891526. Cited in: Pubmed; PMID 35586716.

Eadon MT, Dagher PC, El-Achkar TM. Cellular and molecular interrogation of kidney biopsy specimens. Curr Opin Nephrol Hypertens. 2022 Mar 1;31(2):160-167. eng. Epub 2022/01/05. doi:10.1097/mnh.0000000000000770. Cited in: Pubmed; PMID 34982521.

El-Achkar TM, Winfree S, Talukder N, Barwinska D, Ferkowicz MJ, Al Hasan M. Tissue Cytometry With Machine Learning in Kidney: From Small Specimens to Big Data. Front Physiol. 2022;13:832457. eng. Epub 2022/03/22. doi:10.3389/fphys.2022.832457. Cited in: Pubmed; PMID 35309077.

LaFavers KA, El-Achkar TM. Systemic Effects of Tamm-Horsfall Protein in Kidney Disease. Semin Nephrol. 2022 May;42(3):151277. eng. Epub 2022/11/22. doi:10.1016/j.semnephrol.2022.10.003. Cited in: Pubmed; PMID 36411194.

LaFavers KA, Hage CA, Gaur V, Micanovic R, Hato T, Khan S, Winfree S, Doshi S, Moorthi RN, Twigg H, Wu XR, Dagher PC, Srour EF, El-Achkar TM. The kidney protects against sepsis by producing systemic uromodulin. Am J Physiol Renal Physiol. 2022 Aug 1;323(2):F212-f226. eng. Epub 2022/06/28. doi:10.1152/ajprenal.00146.2022. Cited in: Pubmed; PMID 35759740.

LaFavers KA, Micanovic R, Sabo AR, Maghak LA, El-Achkar TM. Evolving Concepts in Uromodulin Biology, Physiology, and Its Role in Disease: a Tale of Two Forms. Hypertension. 2022 Nov;79(11):2409-2418. eng. Epub 2022/08/13. doi:10.1161/hypertensionaha.122.18567. Cited in: Pubmed; PMID 35959659.

Melo Ferreira R, Freije BJ, Eadon MT. Deconvolution Tactics and Normalization in Renal Spatial Transcriptomics. Front Physiol. 2021;12:812947. eng. Epub 2022/02/01. doi:10.3389/fphys.2021.812947. Cited in: Pubmed; PMID 35095570.

Melo Ferreira R, Gisch DL, Eadon MT. Spatial transcriptomics and the kidney. Curr Opin Nephrol Hypertens. 2022 May 1;31(3):244-250. eng. Epub 2022/02/08. doi:10.1097/mnh.0000000000000781. Cited in: Pubmed; PMID 35125393.

Micanovic R, LaFavers KA, Patidar KR, Ghabril MS, Doud EH, Mosley AL, Sabo AR, Khan S, El-Achkar TM. The kidney releases a nonpolymerizing form of uromodulin in the urine and circulation that retains the external hydrophobic patch domain. Am J Physiol Renal Physiol. 2022 Apr 1;322(4):F403-f418. eng. Epub 2022/02/02. doi:10.1152/ajprenal.00322.2021. Cited in: Pubmed; PMID 35100812.

Molitoris BA, Sandoval RM, Wagner MC. Intravital Multiphoton Microscopy as a Tool for Studying Renal Physiology, Pathophysiology and Therapeutics. Front Physiol. 2022;13:827280. eng. Epub 2022/04/12. doi:10.3389/fphys.2022.827280. Cited in: Pubmed; PMID 35399274.

Molitoris BA, Sandoval RM, Yadav SPS, Wagner MC. Albumin uptake and processing by the proximal tubule: physiological, pathological, and therapeutic implications. Physiol Rev. 2022 Oct 1;102(4):1625-1667. eng. Epub 2022/04/06. doi:10.1152/physrev.00014.2021. Cited in: Pubmed; PMID 35378997.

Sabo AR, Winfree S, Bledsoe SB, Phillips CL, Lingeman JE, Eadon MT, Williams JC, Jr., El-Achkar TM. Label-free imaging of non-deparaffinized sections of the human kidney to determine tissue quality and signatures of disease. Physiol Rep. 2022 Feb;10(3):e15167. eng. Epub 2022/02/09. doi:10.14814/phy2.15167. Cited in: Pubmed; PMID 35133089.

Sabo AR, Winfree S, El-Achkar TM. Defining protein expression in the kidney at large scale: from antibody validation to cytometry analysis. Am J Physiol Renal Physiol. 2023 Feb 1;324(2):F135-f137. eng. Epub 2022/12/02. doi:10.1152/ajprenal.00262.2022. Cited in: Pubmed; PMID 36454700.

Wagner LE, Melnyk O, Duffett BE, Linnemann AK. Mouse models and human islet transplantation sites for intravital imaging. Front Endocrinol (Lausanne). 2022;13:992540. eng. Epub 2022/10/25. doi:10.3389/fendo.2022.992540. Cited in: Pubmed; PMID 36277698.

Wagner MC, Sandoval RM, Campos-Bilderback SB, Molitoris BA. Using 2-Photon Microscopy to Quantify the Effects of Chronic Unilateral Ureteral Obstruction on Glomerular Processes. J Vis Exp. 2022 Mar 4;(181). eng. Epub 2022/03/22. doi:10.3791/63329. Cited in: Pubmed; PMID 35311826.

Winfree S, Al Hasan M, El-Achkar TM. Profiling Immune Cells in the Kidney Using Tissue Cytometry and Machine Learning. Kidney360. 2022 May 26;3(5):968-978. eng. Epub 2022/09/22. doi:10.34067/kid.0006802020. Cited in: Pubmed; PMID 36128490.


Ahmed, I. A., M. A. Jaffa, M. Moussa, D. Hatem, G. A. El-Achkar, R. Al Sayegh, M. Karam, et al. "Plasma Kallikrein as a Modulator of Liver Injury/Remodeling." [In eng]. Front Pharmacol 12 (2021): 715111.  

Avin, K. G., M. C. Hughes, N. X. Chen, S. Srinivasan, K. D. O'Neill, A. P. Evan, R. L. Bacallao, et al. "Skeletal Muscle Metabolic Responses to Physical Activity Are Muscle Type Specific in a Rat Model of Chronic Kidney Disease." [In eng]. Sci Rep 11, no. 1 (May 7 2021): 9788.

Barwinska, D., T. M. El-Achkar, R. Melo Ferreira, F. Syed, Y. H. Cheng, S. Winfree, M. J. Ferkowicz, et al. "Molecular Characterization of the Human Kidney Interstitium in Health and Disease." [In eng]. Sci Adv 7, no. 7 (Feb 2021).

Black, L. M., E. R. Farrell, D. Barwinska, G. Osis, A. A. Zmijewska, A. M. Traylor, S. K. Esman, et al. "Vegfr3 Tyrosine Kinase Inhibition Aggravates Cisplatin Nephrotoxicity." [In eng]. Am J Physiol Renal Physiol 321, no. 6 (Dec 1 2021): F675-f88.

Black, L. M., S. Winfree, S. D. Khochare, M. M. Kamocka, A. M. Traylor, S. K. Esman, S. Khan, et al. "Quantitative 3-Dimensional Imaging and Tissue Cytometry Reveals Lymphatic Expansion in Acute Kidney Injury." [In eng]. Lab Invest 101, no. 9 (Sep 2021): 1186-96.

Blazer-Yost, B. L., R. L. Bacallao, B. J. Erickson, M. L. LaPradd, M. E. Edwards, N. Sheth, K. Swinney, et al. "A Randomized Phase 1b Cross-over Study of the Safety of Low-Dose Pioglitazone for Treatment of Autosomal Dominant Polycystic Kidney Disease." [In eng]. Clin Kidney J 14, no. 7 (Jul 2021): 1738-46.

Canela, V. H., S. B. Bledsoe, J. E. Lingeman, G. Gerber, E. M. Worcester, T. M. El-Achkar, and J. C. Williams, Jr. "Demineralization and Sectioning of Human Kidney Stones: A Molecular Investigation Revealing the Spatial Heterogeneity of the Stone Matrix." [In eng]. Physiol Rep 9, no. 1 (Jan 2021): e14658.

Canela, V. H., S. B. Bledsoe, E. M. Worcester, J. E. Lingeman, T. M. El-Achkar, and J. C. Williams, Jr. "Collagen Fibrils and Cell Nuclei Are Entrapped within Randall's Plaques but Not in Caox Matrix Overgrowth: A Microscopic Inquiry into Randall's Plaque Stone Pathogenesis." [In eng]. Anat Rec (Hoboken)  (Nov 25 2021).

de Boer, I. H., C. E. Alpers, E. U. Azeloglu, U. G. J. Balis, J. M. Barasch, L. Barisoni, K. N. Blank, et al. "Rationale and Design of the Kidney Precision Medicine Project." [In eng]. Kidney Int 99, no. 3 (Mar 2021): 498-510.

Dunn, K. W. "Digital Image Analysis Tools Developed by the Indiana O'brien Center." [In eng]. Front Physiol 12 (2021): 812170.

Dunn, K. W., B. A. Molitoris, and P. C. Dagher. "The Indiana O'brien Center for Advanced Renal Microscopic Analysis." [In eng]. Am J Physiol Renal Physiol 320, no. 5 (May 1 2021): F671-f82.

Eadon, M. T., S. Lampe, M. M. Baig, K. S. Collins, R. Melo Ferreira, H. Mang, Y. H. Cheng, et al. "Clinical, Histopathologic and Molecular Features of Idiopathic and Diabetic Nodular Mesangial Sclerosis in Humans." [In eng]. Nephrol Dial Transplant 37, no. 1 (Dec 31 2021): 72-84.

El-Achkar, T. M., M. T. Eadon, R. Menon, B. B. Lake, T. K. Sigdel, T. Alexandrov, S. Parikh, et al. "A Multimodal and Integrated Approach to Interrogate Human Kidney Biopsies with Rigor and Reproducibility: Guidelines from the Kidney Precision Medicine Project." [In eng]. Physiol Genomics 53, no. 1 (Jan 1 2021): 1-11.

El Achkar, C. M., M. Harrer, L. Smith, M. Kelly, S. Iqbal, S. Maljevic, C. E. Niturad, et al. "Characterization of the Gabrb2-Associated Neurodevelopmental Disorders." [In eng]. Ann Neurol 89, no. 3 (Mar 2021): 573-86.

Ferkowicz, M. J., S. Winfree, A. R. Sabo, M. M. Kamocka, S. Khochare, D. Barwinska, M. T. Eadon, et al. "Large-Scale, Three-Dimensional Tissue Cytometry of the Human Kidney: A Complete and Accessible Pipeline." [In eng]. Lab Invest 101, no. 5 (May 2021): 661-76.

Gallier, S., G. Price, H. Pandya, G. McCarmack, C. James, B. Ruane, L. Forty, et al. "Infrastructure and Operating Processes of Pioneer, the Hdr-Uk Data Hub in Acute Care and the Workings of the Data Trust Committee: A Protocol Paper." [In eng]. BMJ Health Care Inform 28, no. 1 (Apr 2021).

Janosevic, D., J. Myslinski, T. W. McCarthy, A. Zollman, F. Syed, X. Xuei, H. Gao, et al. "The Orchestrated Cellular and Molecular Responses of the Kidney to Endotoxin Define a Precise Sepsis Timeline." [In eng]. Elife 10 (Jan 15 2021).

Mansour, S. G., C. Liu, Y. Jia, P. P. Reese, I. E. Hall, T. M. El-Achkar, K. A. LaFavers, et al. "Uromodulin to Osteopontin Ratio in Deceased Donor Urine Is Associated with Kidney Graft Outcomes." [In eng]. Transplantation 105, no. 4 (Apr 1 2021): 876-85.

Melo Ferreira, R., A. R. Sabo, S. Winfree, K. S. Collins, D. Janosevic, C. J. Gulbronson, Y. H. Cheng, et al. "Integration of Spatial and Single-Cell Transcriptomics Localizes Epithelial Cell-Immune Cross-Talk in Kidney Injury." [In eng]. JCI Insight 6, no. 12 (Jun 22 2021).

Ni, P., E. L. Clinkenbeard, M. L. Noonan, J. M. Richardville, J. McClintick, T. Hato, D. Janosevic, et al. "Targeting Fibroblast Growth Factor 23-Responsive Pathways Uncovers Controlling Genes in Kidney Mineral Metabolism." [In eng]. Kidney Int 99, no. 3 (Mar 2021): 598-608.

Schmidt, I. M., M. R. Colona, B. R. Kestenbaum, L. G. Alexopoulos, R. Palsson, A. Srivastava, J. Liu, et al. "Cadherin-11, Sparc-Related Modular Calcium Binding Protein-2, and Pigment Epithelium-Derived Factor Are Promising Non-Invasive Biomarkers of Kidney Fibrosis." [In eng]. Kidney Int 100, no. 3 (Sep 2021): 672-83.

Thielmann, M., D. Corteville, G. Szabo, M. Swaminathan, A. Lamy, L. J. Lehner, C. D. Brown, et al. "Teprasiran, a Small Interfering Rna, for the Prevention of Acute Kidney Injury in High-Risk Patients Undergoing Cardiac Surgery: A Randomized Clinical Study." [In eng]. Circulation 144, no. 14 (Oct 5 2021): 1133-44.

Williams, J. C., H. Al-Awadi, M. Muthenini, S. B. Bledsoe, T. El-Achkar, A. P. Evan, F. Coe, J. E. Lingeman, and E. M. Worcester. "Stone Morphology Distinguishes Two Pathways of Idiopathic Calcium Oxalate Stone Pathogenesis." [In eng]. J Endourol  (Dec 17 2021).

Winfree, S., C. Weiler, S. B. Bledsoe, T. Gardner, A. J. Sommer, A. P. Evan, J. E. Lingeman, et al. "Multimodal Imaging Reveals a Unique Autofluorescence Signature of Randall's Plaque." [In eng]. Urolithiasis 49, no. 2 (Apr 2021): 123-35.

Woloshuk, A., S. Khochare, A. F. Almulhim, A. T. McNutt, D. Dean, D. Barwinska, M. J. Ferkowicz, et al. "In Situ Classification of Cell Types in Human Kidney Tissue Using 3d Nuclear Staining." [In eng]. Cytometry A 99, no. 7 (Jul 2021): 707-21.

Yadav, S. P. S., R. M. Sandoval, J. Zhao, Y. Huang, E. Wang, S. Kumar, S. B. Campos-Bilderback, et al. "Mechanism of How Carbamylation Reduces Albumin Binding to Fcrn Contributing to Increased Vascular Clearance." [In eng]. Am J Physiol Renal Physiol 320, no. 1 (Jan 1 2021): F114-f29.

Yu, A., J. Zhao, S. P. S. Yadav, B. A. Molitoris, M. C. Wagner, and Y. Mechref. "Changes in the Expression of Renal Brush Border Membrane N-Glycome in Model Rats with Chronic Kidney Diseases." [In eng]. Biomolecules 11, no. 11 (Nov 11 2021).

Yu, A., J. Zhao, J. Zhong, J. Wang, S. P. S. Yadav, B. A. Molitoris, M. C. Wagner, and Y. Mechref. "Altered O-Glycomes of Renal Brush-Border Membrane in Model Rats with Chronic Kidney Diseases." [In eng]. Biomolecules 11, no. 11 (Oct 21 2021).