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.
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.
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.
Canela VH, Bledsoe SB, Worcester EM, Lingeman JE, El-Achkar TM, Williams JC, 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. Anat Rec (Hoboken). 2022 Jul;305(7):1701-1711. eng. Epub 2021/11/27. doi:10.1002/ar.24837. Cited in: Pubmed; PMID 34825513.
Canela VH, Dzien C, Bledsoe SB, Borofsky MS, Boris RS, Lingeman JE, El-Achkar TM, Williams JC, Jr. Human jackstone arms show a protein-rich, X-ray lucent core, suggesting that proteins drive their rapid and linear growth. Urolithiasis. 2022 Feb;50(1):21-28. eng. Epub 2021/06/07. doi:10.1007/s00240-021-01275-1. Cited in: Pubmed; PMID 34091721.
Collins KS, Eadon MT, Cheng YH, Barwinska D, Melo Ferreira R, McCarthy TW, Janosevic D, Syed F, Maier B, El-Achkar TM, Kelly KJ, Phillips CL, Hato T, Sutton TA, Dagher PC. Alterations in Protein Translation and Carboxylic Acid Catabolic Processes in Diabetic Kidney Disease. Cells. 2022 Mar 30;11(7). eng. Epub 2022/04/13. doi:10.3390/cells11071166. Cited in: Pubmed; PMID 35406730.
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.
Hansen J, Sealfon R, Menon R, Eadon MT, Lake BB, Steck B, Anjani K, Parikh S, Sigdel TK, Zhang G, Velickovic D, Barwinska D, Alexandrov T, Dobi D, Rashmi P, Otto EA, Rivera M, Rose MP, Anderton CR, Shapiro JP, Pamreddy A, Winfree S, Xiong Y, He Y, de Boer IH, Hodgin JB, Barisoni L, Naik AS, Sharma K, Sarwal MM, Zhang K, Himmelfarb J, Rovin B, El-Achkar TM, Laszik Z, He JC, Dagher PC, Valerius MT, Jain S, Satlin LM, Troyanskaya OG, Kretzler M, Iyengar R, Azeloglu EU. A reference tissue atlas for the human kidney. Sci Adv. 2022 Jun 10;8(23):eabn4965. eng. Epub 2022/06/09. doi:10.1126/sciadv.abn4965. Cited in: Pubmed; PMID 35675394.
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.
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.
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.
Williams JC, Jr., Al-Awadi H, Muthenini M, Bledsoe SB, El-Achkar T, Evan AP, Coe F, Lingeman JE, Worcester EM. Stone Morphology Distinguishes Two Pathways of Idiopathic Calcium Oxalate Stone Pathogenesis. J Endourol. 2022 May;36(5):694-702. eng. Epub 2021/12/18. doi:10.1089/end.2021.0685. Cited in: Pubmed; PMID 34915736.
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 IA, Jaffa MA, Moussa M, Hatem D, El-Achkar GA, Al Sayegh R, Karam M, Hamade E, Habib A, Jaffa AA. Plasma Kallikrein as a Modulator of Liver Injury/Remodeling. Front Pharmacol. 2021;12:715111. eng. Epub 2021/09/28. doi:10.3389/fphar.2021.715111. Cited in: Pubmed; PMID 34566641.
Barwinska D, El-Achkar TM, Melo Ferreira R, Syed F, Cheng YH, Winfree S, Ferkowicz MJ, Hato T, Collins KS, Dunn KW, Kelly KJ, Sutton TA, Rovin BH, Parikh SV, Phillips CL, Dagher PC, Eadon MT. Molecular characterization of the human kidney interstitium in health and disease. Sci Adv. 2021 Feb;7(7). eng. Epub 2021/02/12. doi:10.1126/sciadv.abd3359. Cited in: Pubmed; PMID 33568476.
Black LM, Farrell ER, Barwinska D, Osis G, Zmijewska AA, Traylor AM, Esman SK, Bolisetty S, Whipple G, Kamocka MM, Winfree S, Spangler DR, Khan S, Zarjou A, El-Achkar TM, Agarwal A. VEGFR3 tyrosine kinase inhibition aggravates cisplatin nephrotoxicity. Am J Physiol Renal Physiol. 2021 Dec 1;321(6):F675-f688. eng. Epub 2021/10/19. doi:10.1152/ajprenal.00186.2021. Cited in: Pubmed; PMID 34658261.
Black LM, Winfree S, Khochare SD, Kamocka MM, Traylor AM, Esman SK, Khan S, Zarjou A, Agarwal A, El-Achkar TM. Quantitative 3-dimensional imaging and tissue cytometry reveals lymphatic expansion in acute kidney injury. Lab Invest. 2021 Sep;101(9):1186-1196. eng. Epub 2021/05/22. doi:10.1038/s41374-021-00609-2. Cited in: Pubmed; PMID 34017058.
Canela VH, Bledsoe SB, Lingeman JE, Gerber G, Worcester EM, El-Achkar TM, Williams JC, Jr. Demineralization and sectioning of human kidney stones: A molecular investigation revealing the spatial heterogeneity of the stone matrix. Physiol Rep. 2021 Jan;9(1):e14658. eng. Epub 2021/01/07. doi:10.14814/phy2.14658. Cited in: Pubmed; PMID 33403824.
Canela VH, Bledsoe SB, Worcester EM, Lingeman JE, El-Achkar TM, Williams JC, 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. Anat Rec (Hoboken). 2021 Nov 25. eng. Epub 2021/11/27. doi:10.1002/ar.24837. Cited in: Pubmed; PMID 34825513.
de Boer IH, Alpers CE, Azeloglu EU, Balis UGJ, Barasch JM, Barisoni L, Blank KN, Bomback AS, Brown K, Dagher PC, Dighe AL, Eadon MT, El-Achkar TM, Gaut JP, Hacohen N, He Y, Hodgin JB, Jain S, Kellum JA, Kiryluk K, Knight R, Laszik ZG, Lienczewski C, Mariani LH, McClelland RL, Menez S, Moledina DG, Mooney SD, O'Toole JF, Palevsky PM, Parikh CR, Poggio ED, Rosas SE, Rosengart MR, Sarwal MM, Schaub JA, Sedor JR, Sharma K, Steck B, Toto RD, Troyanskaya OG, Tuttle KR, Vazquez MA, Waikar SS, Williams K, Wilson FP, Zhang K, Iyengar R, Kretzler M, Himmelfarb J. Rationale and design of the Kidney Precision Medicine Project. Kidney Int. 2021 Mar;99(3):498-510. eng. Epub 2021/02/28. doi:10.1016/j.kint.2020.08.039. Cited in: Pubmed; PMID 33637194.
Eadon MT, Lampe S, Baig MM, Collins KS, Melo Ferreira R, Mang H, Cheng YH, Barwinska D, El-Achkar TM, Schwantes-An TH, Winfree S, Temm CJ, Ferkowicz MJ, Dunn KW, Kelly KJ, Sutton TA, Moe SM, Moorthi RN, Phillips CL, Dagher PC. Clinical, histopathologic and molecular features of idiopathic and diabetic nodular mesangial sclerosis in humans. Nephrol Dial Transplant. 2021 Dec 31;37(1):72-84. eng. Epub 2021/02/05. doi:10.1093/ndt/gfaa331. Cited in: Pubmed; PMID 33537765.
El Achkar CM, Harrer M, Smith L, Kelly M, Iqbal S, Maljevic S, Niturad CE, Vissers L, Poduri A, Yang E, Lal D, Lerche H, Møller RS, Olson HE. Characterization of the GABRB2-Associated Neurodevelopmental Disorders. Ann Neurol. 2021 Mar;89(3):573-586. eng. Epub 2020/12/17. doi:10.1002/ana.25985. Cited in: Pubmed; PMID 33325057.
El-Achkar TM, Eadon MT, Menon R, Lake BB, Sigdel TK, Alexandrov T, Parikh S, Zhang G, Dobi D, Dunn KW, Otto EA, Anderton CR, Carson JM, Luo J, Park C, Hamidi H, Zhou J, Hoover P, Schroeder A, Joanes M, Azeloglu EU, Sealfon R, Winfree S, Steck B, He Y, D'Agati V, Iyengar R, Troyanskaya OG, Barisoni L, Gaut J, Zhang K, Laszik Z, Rovin BH, Dagher PC, Sharma K, Sarwal MM, Hodgin JB, Alpers CE, Kretzler M, Jain S. A multimodal and integrated approach to interrogate human kidney biopsies with rigor and reproducibility: guidelines from the Kidney Precision Medicine Project. Physiol Genomics. 2021 Jan 1;53(1):1-11. eng. Epub 2020/11/17. doi:10.1152/physiolgenomics.00104.2020. Cited in: Pubmed; PMID 33197228.
Ferkowicz MJ, Winfree S, Sabo AR, Kamocka MM, Khochare S, Barwinska D, Eadon MT, Cheng YH, Phillips CL, Sutton TA, Kelly KJ, Dagher PC, El-Achkar TM, Dunn KW. Large-scale, three-dimensional tissue cytometry of the human kidney: a complete and accessible pipeline. Lab Invest. 2021 May;101(5):661-676. eng. Epub 2021/01/08. doi:10.1038/s41374-020-00518-w. Cited in: Pubmed; PMID 33408350.
Janosevic D, Myslinski J, McCarthy TW, Zollman A, Syed F, Xuei X, Gao H, Liu YL, Collins KS, Cheng YH, Winfree S, El-Achkar TM, Maier B, Melo Ferreira R, Eadon MT, Hato T, Dagher PC. The orchestrated cellular and molecular responses of the kidney to endotoxin define a precise sepsis timeline. Elife. 2021 Jan 15;10. eng. Epub 2021/01/16. doi:10.7554/eLife.62270. Cited in: Pubmed; PMID 33448928.
Mansour SG, Liu C, Jia Y, Reese PP, Hall IE, El-Achkar TM, LaFavers KA, Obeid W, Rosenberg AZ, Daneshpajouhnejad P, Doshi MD, Akalin E, Bromberg JS, Harhay MN, Mohan S, Muthukumar T, Schröppel B, Singh P, El-Khoury JM, Weng FL, Thiessen-Philbrook HR, Parikh CR. Uromodulin to Osteopontin Ratio in Deceased Donor Urine Is Associated With Kidney Graft Outcomes. Transplantation. 2021 Apr 1;105(4):876-885. eng. Epub 2020/08/10. doi:10.1097/tp.0000000000003299. Cited in: Pubmed; PMID 32769629.
Melo Ferreira R, Sabo AR, Winfree S, Collins KS, Janosevic D, Gulbronson CJ, Cheng YH, Casbon L, Barwinska D, Ferkowicz MJ, Xuei X, Zhang C, Dunn KW, Kelly KJ, Sutton TA, Hato T, Dagher PC, El-Achkar TM, Eadon MT. Integration of spatial and single-cell transcriptomics localizes epithelial cell-immune cross-talk in kidney injury. JCI Insight. 2021 Jun 22;6(12). eng. Epub 2021/05/19. doi:10.1172/jci.insight.147703. Cited in: Pubmed; PMID 34003797.
Ni P, Clinkenbeard EL, Noonan ML, Richardville JM, McClintick J, Hato T, Janosevic D, Cheng YH, El-Achkar TM, Eadon MT, Dagher PC, White KE. Targeting fibroblast growth factor 23-responsive pathways uncovers controlling genes in kidney mineral metabolism. Kidney Int. 2021 Mar;99(3):598-608. eng. Epub 2020/11/08. doi:10.1016/j.kint.2020.10.024. Cited in: Pubmed; PMID 33159963.
Williams JC, Al-Awadi H, Muthenini M, Bledsoe SB, El-Achkar T, Evan AP, Coe F, Lingeman JE, Worcester EM. Stone morphology distinguishes two pathways of idiopathic calcium oxalate stone pathogenesis. J Endourol. 2021 Dec 17. eng. Epub 2021/12/18. doi:10.1089/end.2021.0685. Cited in: Pubmed; PMID 34915736.
Winfree S, Weiler C, Bledsoe SB, Gardner T, Sommer AJ, Evan AP, Lingeman JE, Krambeck AE, Worcester EM, El-Achkar TM, Williams JC, Jr. Multimodal imaging reveals a unique autofluorescence signature of Randall's plaque. Urolithiasis. 2021 Apr;49(2):123-135. eng. Epub 2020/10/08. doi:10.1007/s00240-020-01216-4. Cited in: Pubmed; PMID 33026465.
Woloshuk A, Khochare S, Almulhim AF, McNutt AT, Dean D, Barwinska D, Ferkowicz MJ, Eadon MT, Kelly KJ, Dunn KW, Hasan MA, El-Achkar TM, Winfree S. In Situ Classification of Cell Types in Human Kidney Tissue Using 3D Nuclear Staining. Cytometry A. 2021 Jul;99(7):707-721. eng. Epub 2020/12/01. doi:10.1002/cyto.a.24274. Cited in: Pubmed; PMID 33252180.
Barwinska D, Ferkowicz MJ, Cheng YH, Winfree S, Dunn KW, Kelly KJ, Sutton TA, Rovin BH, Parikh SV, Phillips CL, Dagher PC, El-Achkar TM, Eadon MT. Application of Laser Microdissection to Uncover Regional Transcriptomics in Human Kidney Tissue. J Vis Exp. 2020 Jun 9;(160). eng. Epub 2020/07/01. doi:10.3791/61371. Cited in: Pubmed; PMID 32597856.
Eadon MT, Schwantes-An TH, Phillips CL, Roberts AR, Greene CV, Hallab A, Hart KJ, Lipp SN, Perez-Ledezma C, Omar KO, Kelly KJ, Moe SM, Dagher PC, El-Achkar TM, Moorthi RN. Kidney Histopathology and Prediction of Kidney Failure: A Retrospective Cohort Study. Am J Kidney Dis. 2020 Sep;76(3):350-360. eng. Epub 2020/04/28. doi:10.1053/j.ajkd.2019.12.014. Cited in: Pubmed; PMID 32336487.
Makki MS, Winfree S, Lingeman JE, Witzmann FA, Worcester EM, Krambeck AE, Coe FL, Evan AP, Bledsoe S, Bergsland KJ, Khochare S, Barwinska D, Williams JC, Jr., El-Achkar TM. A Precision Medicine Approach Uncovers a Unique Signature of Neutrophils in Patients With Brushite Kidney Stones. Kidney Int Rep. 2020 May;5(5):663-677. eng. Epub 2020/05/15. doi:10.1016/j.ekir.2020.02.1025. Cited in: Pubmed; PMID 32405588.
Micanovic R, LaFavers K, Garimella PS, Wu XR, El-Achkar TM. Uromodulin (Tamm-Horsfall protein): guardian of urinary and systemic homeostasis. Nephrol Dial Transplant. 2020 Jan 1;35(1):33-43. eng. Epub 2019/01/17. doi:10.1093/ndt/gfy394. Cited in: Pubmed; PMID 30649494.
(LaFavers et al., 2019; Micanovic et al., 2019; Patidar et al., 2019; Winfree et al., 2018)
Micanovic, R., LaFavers, K., Garimella, P.S., Wu, X.R., El-Achkar, T.M., 2020. Uromodulin (Tamm-Horsfall protein): guardian of urinary and systemic homeostasis. Nephrol Dial Transplant 35, 33-43.
LaFavers, K.A., Macedo, E., Garimella, P.S., Lima, C., Khan, S., Myslinski, J., McClintick, J., Witzmann, F.A., Winfree, S., Phillips, C.L., Hato, T., Dagher, P.C., Wu, X.R., El-Achkar, T.M., Micanovic, R., 2019. Circulating uromodulin inhibits systemic oxidative stress by inactivating the TRPM2 channel. Science translational medicine 11.
Micanovic, R., LaFavers, K., Garimella, P.S., Wu, X.R., El-Achkar, T.M., 2019. Uromodulin (Tamm-Horsfall protein): guardian of urinary and systemic homeostasis. Nephrology, dialysis, transplantation : official publication of the European Dialysis and Transplant Association - European Renal Association.
Patidar, K.R., Garimella, P.S., Macedo, E., Slaven, J.E., Ghabril, M.S., Weber, R.E., Anderson, M., Orman, E.S., Nephew, L.D., Desai, A.P., Chalasani, N.P., El-Achkar, T.M., 2019. Admission plasma uromodulin and the risk of acute kidney injury in hospitalized patients with cirrhosis: a pilot study. American journal of physiology. Gastrointestinal and liver physiology 317, G447-g452.
Winfree, S., Dagher, P.C., Dunn, K.W., Eadon, M.T., Ferkowicz, M., Barwinska, D., Kelly, K.J., Sutton, T.A., El-Achkar, T.M., 2018. Quantitative Large-Scale Three-Dimensional Imaging of Human Kidney Biopsies: A Bridge to Precision Medicine in Kidney Disease. Nephron 140, 134-139.
Winfree S, et al. (2017) Large-scale 3-dimensional quantitative imaging of tissues: state-of-the-art and translational implications. Transl Res. 2017 Nov;189:1-12
Winfree S, et al (2017) Quantitative Three-Dimensional Tissue Cytometry to Study Kidney Tissue and Resident Immune Cells. J Am Soc Nephrol. 2017 Jul;28(7):2108-2118