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Publications

Peer reviewed publications resulting from Indiana Center for Biological Microscopy resources are listed by year below. Papers in which images acquired either contributed to the body of the work or appeared as part of the published paper are shown.

  • 2021
    1. Barwinska, D.;  El-Achkar, T. M.;  Melo Ferreira, R.;  Syed, F.;  Cheng, Y. H.;  Winfree, S.;  Ferkowicz, M. J.;  Hato, T.;  Collins, K. S.;  Dunn, K. W.;  Kelly, K. J.;  Sutton, T. A.;  Rovin, B. H.;  Parikh, S. V.;  Phillips, C. L.;  Dagher, P. C.; Eadon, M. T., Molecular characterization of the human kidney interstitium in health and disease. Sci Adv 2021, 7 (7).

    2. Bellchambers, H. M.; Ware, S. M., Loss of Zic3 impairs planar cell polarity leading to abnormal left-right signaling, heart defects and neural tube defects. Hum Mol Genet 2021, 30 (24), 2402-2415.

    3. Black, L. M.;  Farrell, E. R.;  Barwinska, D.;  Osis, G.;  Zmijewska, A. A.;  Traylor, A. M.;  Esman, S. K.;  Bolisetty, S.;  Whipple, G.;  Kamocka, M. M.;  Winfree, S.;  Spangler, D. R.;  Khan, S.;  Zarjou, A.;  El-Achkar, T. M.; Agarwal, A., VEGFR3 tyrosine kinase inhibition aggravates cisplatin nephrotoxicity. Am J Physiol Renal Physiol 2021, 321 (6), F675-f688.

    4. Black, L. M.;  Winfree, S.;  Khochare, S. D.;  Kamocka, M. M.;  Traylor, A. M.;  Esman, S. K.;  Khan, S.;  Zarjou, A.;  Agarwal, A.; El-Achkar, T. M., Quantitative 3-dimensional imaging and tissue cytometry reveals lymphatic expansion in acute kidney injury. Lab Invest 2021, 101 (9), 1186-1196.

    5. Canela, V. H.;  Bledsoe, S. B.;  Lingeman, J. E.;  Gerber, G.;  Worcester, E. M.;  El-Achkar, T. M.; Williams, J. C., Jr., Demineralization and sectioning of human kidney stones: A molecular investigation revealing the spatial heterogeneity of the stone matrix. Physiol Rep 2021, 9 (1), e14658.

    6. Canela, V. H.;  Bledsoe, S. B.;  Worcester, E. M.;  Lingeman, J. E.;  El-Achkar, T. M.; Williams, J. C., 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.

    7. Chen, N. X.;  O'Neill, K. D.;  Dominguez, J. M., 2nd; Moe, S. M., Regulation of reactive oxygen species in the pathogenesis of matrix vesicles induced calcification of recipient vascular smooth muscle cells. Vasc Med 2021, 26 (6), 585-594.

    8. Dunn, K. W., Digital Image Analysis Tools Developed by the Indiana O'Brien Center. Front Physiol 2021, 12, 812170.

    9. Dunn, K. W.;  Molitoris, B. A.; Dagher, P. C., The Indiana O'Brien Center for Advanced Renal Microscopic Analysis. Am J Physiol Renal Physiol 2021, 320 (5), F671-f682.

    10. Eadon, M. T.;  Lampe, S.;  Baig, M. M.;  Collins, K. S.;  Melo Ferreira, R.;  Mang, H.;  Cheng, Y. H.;  Barwinska, D.;  El-Achkar, T. M.;  Schwantes-An, T. H.;  Winfree, S.;  Temm, C. J.;  Ferkowicz, M. J.;  Dunn, K. W.;  Kelly, K. J.;  Sutton, T. A.;  Moe, S. M.;  Moorthi, R. N.;  Phillips, C. L.; Dagher, P. C., Clinical, histopathologic and molecular features of idiopathic and diabetic nodular mesangial sclerosis in humans. Nephrol Dial Transplant 2021, 37 (1), 72-84.

    11. El-Achkar, T. M.;  Eadon, M. T.;  Menon, R.;  Lake, B. B.;  Sigdel, T. K.;  Alexandrov, T.;  Parikh, S.;  Zhang, G.;  Dobi, D.;  Dunn, K. W.;  Otto, E. A.;  Anderton, C. R.;  Carson, J. M.;  Luo, J.;  Park, C.;  Hamidi, H.;  Zhou, J.;  Hoover, P.;  Schroeder, A.;  Joanes, M.;  Azeloglu, E. U.;  Sealfon, R.;  Winfree, S.;  Steck, B.;  He, Y.;  D'Agati, V.;  Iyengar, R.;  Troyanskaya, O. G.;  Barisoni, L.;  Gaut, J.;  Zhang, K.;  Laszik, Z.;  Rovin, B. H.;  Dagher, P. C.;  Sharma, K.;  Sarwal, M. M.;  Hodgin, J. B.;  Alpers, C. E.;  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, 53 (1), 1-11.

    12. Fang, Y.;  Wang, L.;  Wan, C.;  Sun, Y.;  Van der Jeught, K.;  Zhou, Z.;  Dong, T.;  So, K. M.;  Yu, T.;  Li, Y.;  Eyvani, H.;  Colter, A. B.;  Dong, E.;  Cao, S.;  Wang, J.;  Schneider, B. P.;  Sandusky, G. E.;  Liu, Y.;  Zhang, C.;  Lu, X.; Zhang, X., MAL2 drives immune evasion in breast cancer by suppressing tumor antigen presentation. J Clin Invest 2021, 131 (1).

    13. Ferkowicz, M. J.;  Winfree, S.;  Sabo, A. R.;  Kamocka, M. M.;  Khochare, S.;  Barwinska, D.;  Eadon, M. T.;  Cheng, Y. H.;  Phillips, C. L.;  Sutton, T. A.;  Kelly, K. J.;  Dagher, P. C.;  El-Achkar, T. M.; Dunn, K. W., Large-scale, three-dimensional tissue cytometry of the human kidney: a complete and accessible pipeline. Lab Invest 2021, 101 (5), 661-676.

    14. Garcia, B. A.;  Panariello, B. H. D.;  Freitas-Pontes, K. M.; Duarte, S., Candida biofilm matrix as a resistance mechanism against photodynamic therapy. Photodiagnosis Photodyn Ther 2021, 36, 102525.

    15. Janosevic, D.;  Myslinski, J.;  McCarthy, T. W.;  Zollman, A.;  Syed, F.;  Xuei, X.;  Gao, H.;  Liu, Y. L.;  Collins, K. S.;  Cheng, Y. H.;  Winfree, S.;  El-Achkar, T. M.;  Maier, B.;  Melo Ferreira, R.;  Eadon, M. T.;  Hato, T.; Dagher, P. C., The orchestrated cellular and molecular responses of the kidney to endotoxin define a precise sepsis timeline. Elife 2021, 10.

    16. Melo Ferreira, R.;  Sabo, A. R.;  Winfree, S.;  Collins, K. S.;  Janosevic, D.;  Gulbronson, C. J.;  Cheng, Y. H.;  Casbon, L.;  Barwinska, D.;  Ferkowicz, M. J.;  Xuei, X.;  Zhang, C.;  Dunn, K. W.;  Kelly, K. J.;  Sutton, T. A.;  Hato, T.;  Dagher, P. C.;  El-Achkar, T. M.; Eadon, M. T., Integration of spatial and single-cell transcriptomics localizes epithelial cell-immune cross-talk in kidney injury. JCI Insight 2021, 6 (12).

    17. Miller, S. G.;  Hafen, P. S.;  Law, A. S.;  Springer, C. B.;  Logsdon, D. L.;  O'Connell, T. M.;  Witczak, C. A.; Brault, J. J., AMP deamination is sufficient to replicate an atrophy-like metabolic phenotype in skeletal muscle. Metabolism 2021, 123, 154864.

    18. Panariello, B. H. D.;  Kindler, J. K.;  Spolnik, K. J.;  Ehrlich, Y.;  Eckert, G. J.; Duarte, S., Use of electromagnetic stimulation on an Enterococcus faecalis biofilm on root canal treated teeth in vitro. Sci Rep 2021, 11 (1), 8306.

    19. Ruan, J.;  Zhang, L.;  Hu, D.;  Qu, X.;  Yang, F.;  Chen, F.;  He, X.;  Shen, J.;  Dong, K.;  Sweet, M.;  Sanchez, C.;  Li, D.;  Shou, W.;  Zhou, J.; Cai, C. L., Novel Myh11 Dual Reporter Mouse Model Provides Definitive Labeling and Identification of Smooth Muscle Cells-Brief Report. Arterioscler Thromb Vasc Biol 2021, 41 (2), 815-821.

    20. Saxena, V.;  Gao, H.;  Arregui, S.;  Zollman, A.;  Kamocka, M. M.;  Xuei, X.;  McGuire, P.;  Hutchens, M.;  Hato, T.;  Hains, D. S.; Schwaderer, A. L., Kidney intercalated cells are phagocytic and acidify internalized uropathogenic Escherichia coli. Nat Commun 2021, 12 (1), 2405.

    21. Tonon, C. C.;  Panariello, B. H. D.;  Spolidorio, D. M. P.;  Gossweiler, A. G.; Duarte, S., Antibiofilm effect of ozonized physiological saline solution on peri-implant-related biofilm. J Periodontol 2021, 92 (8), 1151-1162.

    22. Ueda, Y.;  Moore, S. T.; Hashino, E., Directed Differentiation of Human Pluripotent Stem Cells into Inner Ear Organoids. Methods Mol Biol 2021.

    23. Winfree, S.;  Weiler, C.;  Bledsoe, S. B.;  Gardner, T.;  Sommer, A. J.;  Evan, A. P.;  Lingeman, J. E.;  Krambeck, A. E.;  Worcester, E. M.;  El-Achkar, T. M.; Williams, J. C., Jr., Multimodal imaging reveals a unique autofluorescence signature of Randall's plaque. Urolithiasis 2021, 49 (2), 123-135.

    24. Woloshuk, A.;  Khochare, S.;  Almulhim, A. F.;  McNutt, A. T.;  Dean, D.;  Barwinska, D.;  Ferkowicz, M. J.;  Eadon, M. T.;  Kelly, K. J.;  Dunn, K. W.;  Hasan, M. A.;  El-Achkar, T. M.; Winfree, S., In Situ Classification of Cell Types in Human Kidney Tissue Using 3D Nuclear Staining. Cytometry A 2021, 99 (7), 707-721.

    25. Xu, H.;  Van der Jeught, K.;  Zhou, Z.;  Zhang, L.;  Yu, T.;  Sun, Y.;  Li, Y.;  Wan, C.;  So, K. M.;  Liu, D.;  Frieden, M.;  Fang, Y.;  Mosley, A. L.;  He, X.;  Zhang, X.;  Sandusky, G. E.;  Liu, Y.;  Meroueh, S. O.;  Zhang, C.;  Wijeratne, A. B.;  Huang, C.;  Ji, G.; Lu, X., Atractylenolide I enhances responsiveness to immune checkpoint blockade therapy by activating tumor antigen presentation. J Clin Invest 2021, 131 (10).

    26. Yadav, S. P. S.;  Sandoval, R. M.;  Zhao, J.;  Huang, Y.;  Wang, E.;  Kumar, S.;  Campos-Bilderback, S. B.;  Rhodes, G.;  Mechref, Y.;  Molitoris, B. A.; Wagner, M. C., Mechanism of how carbamylation reduces albumin binding to FcRn contributing to increased vascular clearance. Am J Physiol Renal Physiol 2021, 320 (1), F114-f129.

  • 2020
    1. Adhyapok, P.;  Fu, X.;  Sluka, J. P.;  Clendenon, S. G.;  Sluka, V. D.;  Wang, Z.;  Dunn, K.;  Klaunig, J. E.; Glazier, J. A., A computational model of liver tissue damage and repair. PLoS One 2020, 15 (12), e0243451. 

    2. Barwinska, D.;  Ferkowicz, M. J.;  Cheng, Y. H.;  Winfree, S.;  Dunn, K. W.;  Kelly, K. J.;  Sutton, T. A.;  Rovin, B. H.;  Parikh, S. V.;  Phillips, C. L.;  Dagher, P. C.;  El-Achkar, T. M.; Eadon, M. T., Application of Laser Microdissection to Uncover Regional Transcriptomics in Human Kidney Tissue. J Vis Exp 2020,  (160). 

    3. Chen, N. X.;  Srinivasan, S.;  O'Neill, K.;  Nickolas, T. L.;  Wallace, J. M.;  Allen, M. R.;  Metzger, C. E.;  Creecy, A.;  Avin, K. G.; Moe, S. M., Effect of Advanced Glycation End-Products (AGE) Lowering Drug ALT-711 on Biochemical, Vascular, and Bone Parameters in a Rat Model of CKD-MBD. J Bone Miner Res 2020, 35 (3), 608-617. 

    4. Dunn, K. W.;  Martinez, M. M.;  Wang, Z.;  Mang, H. E.;  Clendenon, S. G.;  Sluka, J. P.;  Glazier, J. A.; Klaunig, J. E., Mitochondrial depolarization and repolarization in the early stages of acetaminophen hepatotoxicity in mice. Toxicology 2020, 439, 152464. 

    5. Durbin, M. D.;  O'Kane, J.;  Lorentz, S.;  Firulli, A. B.; Ware, S. M., SHROOM3 is downstream of the planar cell polarity pathway and loss-of-function results in congenital heart defects. Dev Biol 2020, 464 (2), 124-136. 

    6. Elbanna, M.;  Orillion, A. R.;  Damayanti, N. P.;  Adelaiye-Ogala, R.;  Shen, L.;  Miles, K. M.;  Chintala, S.;  Ciamporcero, E.;  Ramakrishnan, S.;  Ku, S. Y.;  Rex, K.;  Caenepeel, S.;  Coxon, A.; Pili, R., Dual Inhibition of Angiopoietin-TIE2 and MET Alters the Tumor Microenvironment and Prolongs Survival in a Metastatic Model of Renal Cell Carcinoma. Mol Cancer Ther 2020, 19 (1), 147-156. 

    7. Firulli, B. A.;  George, R. M.;  Harkin, J.;  Toolan, K. P.;  Gao, H.;  Liu, Y.;  Zhang, W.;  Field, L. J.;  Liu, Y.;  Shou, W.;  Payne, R. M.;  Rubart-von der Lohe, M.; Firulli, A. B., HAND1 loss-of-function within the embryonic myocardium reveals survivable congenital cardiac defects and adult heart failure. Cardiovasc Res 2020, 116 (3), 605-618. 

    8. Garcia, B. A.;  Panariello, B. H. D.;  de Freitas Pontes, K. M.; Duarte, S., Regimen and different surfaces interfere with photodynamic therapy on Candida albicans biofilms. J Microbiol Methods 2020, 178, 106080. 

    9. Ho, D. J.;  Mas Montserrat, D.;  Fu, C.;  Salama, P.;  Dunn, K. W.; Delp, E. J., Sphere estimation network: three-dimensional nuclei detection of fluorescence microscopy images. J Med Imaging (Bellingham) 2020, 7 (4), 044003. 

    10. Hossain, M. J.;  Noori-Dokht, H.;  Karnik, S.;  Alyafei, N.;  Joukar, A.;  Trippel, S. B.; Wagner, D. R., Anisotropic properties of articular cartilage in an accelerated in vitro wear test. J Mech Behav Biomed Mater 2020, 109, 103834. 

    11. Lee, J.;  Rabbani, C. C.;  Gao, H.;  Steinhart, M. R.;  Woodruff, B. M.;  Pflum, Z. E.;  Kim, A.;  Heller, S.;  Liu, Y.;  Shipchandler, T. Z.; Koehler, K. R., Hair-bearing human skin generated entirely from pluripotent stem cells. Nature 2020, 582 (7812), 399-404. 

    12. Liu, X. F.;  Wei, J.;  Zhou, Q.;  Molitoris, B. A.;  Sandoval, R.;  Kobayashi, H.;  Okada, R.;  Nagaya, T.;  Karim, B.;  Butcher, D.; Pastan, I., Immunotoxin SS1P is rapidly removed by proximal tubule cells of kidney, whose damage contributes to albumin loss in urine. Proc Natl Acad Sci U S A 2020, 117 (11), 6086-6091. 

    13. Madhivanan, K.;  Ramadesikan, S.;  Hsieh, W. C.;  Aguilar, M. C.;  Hanna, C. B.;  Bacallao, R. L.; Aguilar, R. C., Lowe syndrome patient cells display mTOR- and RhoGTPase-dependent phenotypes alleviated by rapamycin and statins. Hum Mol Genet 2020, 29 (10), 1700-1715. 

    14. Makki, M. S.;  Winfree, S.;  Lingeman, J. E.;  Witzmann, F. A.;  Worcester, E. M.;  Krambeck, A. E.;  Coe, F. L.;  Evan, A. P.;  Bledsoe, S.;  Bergsland, K. J.;  Khochare, S.;  Barwinska, D.;  Williams, J. C., Jr.; El-Achkar, T. M., A Precision Medicine Approach Uncovers a Unique Signature of Neutrophils in Patients With Brushite Kidney Stones. Kidney Int Rep 2020, 5 (5), 663-677. 

    15. Matos, A. O.;  de Almeida, A. B.;  Beline, T.;  Tonon, C. C.;  Casarin, R. C. V.;  Windsor, L. J.;  Duarte, S.;  Nociti, F. H., Jr.;  Rangel, E. C.;  Gregory, R. L.; Barão, V. A. R., Synthesis of multifunctional chlorhexidine-doped thin films for titanium-based implant materials. Mater Sci Eng C Mater Biol Appl 2020, 117, 111289. 

    16. Micanovic, R.;  LaFavers, K.;  Garimella, P. S.;  Wu, X. R.; El-Achkar, T. M., Uromodulin (Tamm-Horsfall protein): guardian of urinary and systemic homeostasis. Nephrol Dial Transplant 2020, 35 (1), 33-43. 

    17. Miyagawa, K.;  Ohata, Y.;  Delgado-Calle, J.;  Teramachi, J.;  Zhou, H.;  Dempster, D. D.;  Subler, M. A.;  Windle, J. J.;  Chirgwin, J. M.;  Roodman, G. D.; Kurihara, N., Osteoclast-derived IGF1 is required for pagetic lesion formation in vivo. JCI Insight 2020, 5 (6). 

    18. Mulcrone, P. L.;  Edwards, S. K. E.;  Petrusca, D. N.;  Haneline, L. S.;  Delgado-Calle, J.; Roodman, G. D., Osteocyte Vegf-a contributes to myeloma-associated angiogenesis and is regulated by Fgf23. Sci Rep 2020, 10 (1), 17319. 

    19. Nie, J.; Hashino, E., Generation of inner ear organoids from human pluripotent stem cells. Methods Cell Biol 2020, 159, 303-321. 

    20. Reissaus, C. A.;  Day, K. H.;  Mirmira, R. G.;  Dunn, K. W.;  Pavalko, F. M.; Day, R. N., PIE-FLIM Measurements of Two Different FRET-Based Biosensor Activities in the Same Living Cells. Biophys J 2020, 118 (8), 1820-1829. 

    21. Tonon, C. C.;  Panariello, B. H. D.;  Spolidorio, D. M. P.;  Gossweiler, A. G.; Duarte, S., Anti-biofilm effect of ozonized physiological saline solution on peri-implant-related biofilm. J Periodontol 2020. 

    22. Van der Jeught, K.;  Sun, Y.;  Fang, Y.;  Zhou, Z.;  Jiang, H.;  Yu, T.;  Yang, J.;  Kamocka, M. M.;  So, K. M.;  Li, Y.;  Eyvani, H.;  Sandusky, G. E.;  Frieden, M.;  Braun, H.;  Beyaert, R.;  He, X.;  Zhang, X.;  Zhang, C.;  Paczesny, S.; Lu, X., ST2 as checkpoint target for colorectal cancer immunotherapy. JCI Insight 2020, 5 (9). 

    23. Woloshuk, A.;  Khochare, S.;  Almulhim, A. F.;  McNutt, A. T.;  Dean, D.;  Barwinska, D.;  Ferkowicz, M. J.;  Eadon, M. T.;  Kelly, K. J.;  Dunn, K. W.;  Hasan, M. A.;  El-Achkar, T. M.; Winfree, S., In Situ Classification of Cell Types in Human Kidney Tissue Using 3D Nuclear Staining. Cytometry A 2020. 

    24. Yi, X.;  Wright, L. E.;  Pagnotti, G. M.;  Uzer, G.;  Powell, K. M.;  Wallace, J. M.;  Sankar, U.;  Rubin, C. T.;  Mohammad, K.;  Guise, T. A.; Thompson, W. R., Mechanical suppression of breast cancer cell invasion and paracrine signaling to osteoclasts requires nucleo-cytoskeletal connectivity. Bone Res 2020, 8 (1), 40.

  • 2019

    1. Basile, D. P.; Yoder, M. C., Unique Gene Expression in Developing Ascending Vasa Recta: A Tale of Tie. Journal of the American Society of Nephrology : JASN 2018, 29 (4), 1073-1074.
    2. Burkhalter, M. D.;  Sridhar, A.;  Sampaio, P.;  Jacinto, R.;  Burczyk, M. S.;  Donow, C.;  Angenendt, M.;  Hempel, M.;  Walther, P.;  Pennekamp, P.;  Omran, H.;  Lopes, S. S.;  Ware, S. M.; Philipp, M., Imbalanced mitochondrial function provokes heterotaxy via aberrant ciliogenesis. J Clin Invest 2019, 129 (7), 2841-2855.

    3. Clendenon, S. G.;  Fu, X.;  Von Hoene, R. A.;  Clendenon, J. L.;  Sluka, J. P.;  Winfree, S.;  Mang, H.;  Martinez, M.;  Filson, A.;  Klaunig, J. E.;  Glazier, J. A.; Dunn, K. W., Spatial Temporal Analysis of Fieldwise Flow in Microvasculature. J Vis Exp 2019,  (153).

    4. Clendenon, S. G.;  Fu, X.;  Von Hoene, R. A.;  Clendenon, J. L.;  Sluka, J. P.;  Winfree, S.;  Mang, H.;  Martinez, M.;  Filson, A. J.;  Klaunig, J. E.;  Glazier, J. A.; Dunn, K. W., A simple automated method for continuous fieldwise measurement of microvascular hemodynamics. Microvascular research 2019, 123, 7-13.

    5. Conteh, A. M.;  Reissaus, C. A.;  Hernandez-Perez, M.;  Nakshatri, S.;  Anderson, R. M.;  Mirmira, R. G.;  Tersey, S. A.; Linnemann, A. K., Platelet-type 12-lipoxygenase deletion provokes a compensatory 12/15-lipoxygenase increase that exacerbates oxidative stress in mouse islet beta cells. J Biol Chem 2019, 294 (16), 6612-6620.

    6. DeSmet, M.;  Jose, L.;  Isaq, N.; Androphy, E. J., Phosphorylation of a Conserved Tyrosine in the Papillomavirus E2 Protein Regulates Brd4 Binding and Viral Replication. J Virol 2019, 93 (10).

    7. Dunn, K. W.;  Fu, C.;  Ho, D. J.;  Lee, S.;  Han, S.;  Salama, P.; Delp, E. J., DeepSynth: Three-dimensional nuclear segmentation of biological images using neural networks trained with synthetic data. Sci Rep 2019, 9 (1), 18295.

    8. Ferrell, N.;  Sandoval, R. M.;  Molitoris, B. A.;  Brakeman, P.;  Roy, S.; Fissell, W. H., Application of physiological shear stress to renal tubular epithelial cells. Methods Cell Biol 2019, 153, 43-67.

    9. Firulli, B. A.;  George, R. M.;  Harkin, J.;  Toolan, K. P.;  Gao, H.;  Liu, Y.;  Zhang, W.;  Field, L. J.;  Liu, Y.;  Shou, W.;  Payne, R. M.;  Rubart-von der Lohe, M.; Firulli, A. B., HAND1 loss-of-function within the embryonic myocardium reveals survivable congenital cardiac defects and adult heart failure. Cardiovasc Res 2020, 116 (3), 605-618.

    10. Gadgil, N. J.;  Salama, P.;  Dunn, K. W.; Delp, E. J., Segmentation of biological images containing multitarget labeling using the jelly filling framework. Journal of medical imaging (Bellingham, Wash.) 2018, 5 (4), 044006.

    11. Garrett, J.;  Sampson, C. H.;  Plett, P. A.;  Crisler, R.;  Parker, J.;  Venezia, R.;  Chua, H. L.;  Hickman, D. L.;  Booth, C.;  MacVittie, T.;  Orschell, C. M.; Dynlacht, J. R., Characterization and Etiology of Swollen Muzzles in Irradiated Mice. Radiation research 2019, 191 (1), 31-42.

    12. Hato, T.;  Maier, B.;  Syed, F.;  Myslinski, J.;  Zollman, A.;  Plotkin, Z.;  Eadon, M. T.; Dagher, P. C., Bacterial sepsis triggers an antiviral response that causes translation shutdown. J Clin Invest 2019, 129 (1), 296-309.

    13. Heredero-Bermejo, I.;  Varberg, J. M.;  Charvat, R.;  Jacobs, K.;  Garbuz, T.;  Sullivan, W. J., Jr.; Arrizabalaga, G., TgDrpC, an atypical dynamin-related protein in Toxoplasma gondii, is associated with vesicular transport factors and parasite division. Mol Microbiol 2019, 111 (1), 46-64.

    14. 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., Circulating uromodulin inhibits systemic oxidative stress by inactivating the TRPM2 channel. Sci Transl Med 2019, 11 (512).

    15. Lin, Y.;  Gil, C. H.; Yoder, M. C., Identification of Circulating Endothelial Colony-Forming Cells from Murine Embryonic Peripheral Blood. Methods in molecular biology (Clifton, N.J.) 2019, 1940, 97-107.

    16. Lin, Y.;  Kobayashi, M.;  Azevedo Portilho, N.;  Mishra, A.;  Gao, H.;  Liu, Y.;  Wenzel, P.;  Davis, B.;  Yoder, M. C.; Yoshimoto, M., Long-Term Engraftment of ESC-Derived B-1 Progenitor Cells Supports HSC-Independent Lymphopoiesis. Stem cell reports 2019, 12 (3), 572-583.

    17. Micanovic, R.;  LaFavers, K.;  Garimella, P. S.;  Wu, X. R.; El-Achkar, T. M., Uromodulin (Tamm-Horsfall protein): guardian of urinary and systemic homeostasis. Nephrol Dial Transplant 2020, 35 (1), 33-43.

    18. Micanovic, R.;  LaFavers, K.;  Garimella, P. S.;  Wu, X. R.; El-Achkar, T. M., 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 2019.

    19. Motea, E. A.;  Huang, X.;  Singh, N.;  Kilgore, J. A.;  Williams, N. S.;  Xie, X. J.;  Gerber, D. E.;  Beg, M. S.;  Bey, E. A.; Boothman, D. A., NQO1-dependent, Tumor-selective Radiosensitization of Non-small Cell Lung Cancers. Clin Cancer Res 2019, 25 (8), 2601-2609.

    20. Ohlemacher, S. K.;  Langer, K. B.;  Fligor, C. M.;  Feder, E. M.;  Edler, M. C.; Meyer, J. S., Advances in the Differentiation of Retinal Ganglion Cells from Human Pluripotent Stem Cells. Adv Exp Med Biol 2019, 1186, 121-140.

    21. Pan, Z.;  Ai, T.;  Chang, P. C.;  Liu, Y.;  Liu, J.;  Maruyama, M.;  Homsi, M.;  Fishbein, M. C.;  Rubart, M.;  Lin, S. F.;  Xiao, D.;  Chen, H.;  Chen, P. S.;  Shou, W.; Li, B. Y., Atrial fibrillation and electrophysiology in transgenic mice with cardiac-restricted overexpression of FKBP12. Am J Physiol Heart Circ Physiol 2019, 316 (2), H371-h379.

    22. Peng, J. L.;  Techasatian, W.;  Hato, T.; Liangpunsakul, S., Role of endotoxemia in causing renal dysfunction in cirrhosis. J Investig Med 2020, 68 (1), 26-29.

    23. Pianca, N.;  Di Bona, A.;  Lazzeri, E.;  Costantini, I.;  Franzoso, M.;  Prando, V.;  Armani, A.;  Rizzo, S.;  Fedrigo, M.;  Angelini, A.;  Basso, C.;  Pavone, F. S.;  Rubart, M.;  Sacconi, L.;  Zaglia, T.; Mongillo, M., Cardiac sympathetic innervation network shapes the myocardium by locally controlling cardiomyocyte size through the cellular proteolytic machinery. J Physiol 2019, 597 (14), 3639-3656.

    24. Reissaus, C. A.;  Pineros, A. R.;  Twigg, A. N.;  Orr, K. S.;  Conteh, A. M.;  Martinez, M. M.;  Kamocka, M. M.;  Day, R. N.;  Tersey, S. A.;  Mirmira, R. G.;  Dunn, K. W.; Linnemann, A. K., A Versatile, Portable Intravital Microscopy Platform for Studying Beta-cell Biology In Vivo. Sci Rep 2019, 9 (1), 8449.

    25. Samanta, D.;  Clemente, T. M.;  Schuler, B. E.; Gilk, S. D., Coxiella burnetii Type 4B Secretion System-dependent manipulation of endolysosomal maturation is required for bacterial growth. PLoS Pathog 2019, 15 (12), e1007855.

    26. Sandoval, R. M.;  Molitoris, B. A.; Palygin, O., Fluorescent Imaging and Microscopy for Dynamic Processes in Rats. Methods Mol Biol 2019, 2018, 151-175.

    27. Shim, J. W.;  Territo, P. R.;  Simpson, S.;  Watson, J. C.;  Jiang, L.;  Riley, A. A.;  McCarthy, B.;  Persohn, S.;  Fulkerson, D.; Blazer-Yost, B. L., Hydrocephalus in a rat model of Meckel Gruber syndrome with a TMEM67 mutation. Scientific reports 2019, 9 (1), 1069.

    28. Singh, K.;  Sinha, M.;  Pal, D.;  Tabasum, S.;  Gnyawali, S. C.;  Khona, D.;  Sarkar, S.;  Mohanty, S. K.;  Soto-Gonzalez, F.;  Khanna, S.;  Roy, S.; Sen, C. K., Cutaneous Epithelial to Mesenchymal Transition Activator ZEB1 Regulates Wound Angiogenesis and Closure in a Glycemic Status-Dependent Manner. Diabetes 2019, 68 (11), 2175-2190.

    29. Tang, P. C.;  Alex, A. L.;  Nie, J.;  Lee, J.;  Roth, A. A.;  Booth, K. T.;  Koehler, K. R.;  Hashino, E.; Nelson, R. F., Defective Tmprss3-Associated Hair Cell Degeneration in Inner Ear Organoids. Stem Cell Reports 2019, 13 (1), 147-162.

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  • 2018
    1. Aref, M. W.;  Swallow, E. A.;  Chen, N. X.;  Moe, S. M.; Allen, M. R., Skeletal vascular perfusion is altered in chronic kidney disease. Bone reports 2018, 8, 215-220. 

    2. Avin, K. G.;  Vallejo, J. A.;  Chen, N. X.;  Wang, K.;  Touchberry, C. D.;  Brotto, M.;  Dallas, S. L.;  Moe, S. M.; Wacker, M. J., Fibroblast growth factor 23 does not directly influence skeletal muscle cell proliferation and differentiation or ex vivo muscle contractility. American journal of physiology. Endocrinology and metabolism 2018, 315 (4), E594-e604. 

    3. Basile, D. P.;  Collett, J. A.; Yoder, M. C., Endothelial colony-forming cells and pro-angiogenic cells: clarifying definitions and their potential role in mitigating acute kidney injury. Acta physiologica (Oxford, England) 2018, 222 (2).

    4. Basile, D. P.; Yoder, M. C., Unique Gene Expression in Developing Ascending Vasa Recta: A Tale of Tie. Journal of the American Society of Nephrology : JASN 2018, 29 (4), 1073-1074. 

    5. Bellchambers, H. M.; Ware, S. M., ZIC3 in Heterotaxy. Advances in experimental medicine and biology 2018, 1046, 301-327. 

    6. Brandt, S. L.;  Klopfenstein, N.;  Wang, S.;  Winfree, S.;  McCarthy, B. P.;  Territo, P. R.;  Miller, L.; Serezani, C. H., Macrophage-derived LTB4 promotes abscess formation and clearance of Staphylococcus aureus skin infection in mice. PLoS pathogens 2018, 14 (8), e1007244. 

    7. Brandt, S. L.;  Wang, S.;  Dejani, N. N.;  Klopfenstein, N.;  Winfree, S.;  Filgueiras, L.;  McCarthy, B. P.;  Territo, P. R.; Serezani, C. H., Excessive localized leukotriene B4 levels dictate poor skin host defense in diabetic mice. JCI insight 2018, 3 (17). 

    8. Casasnovas, J. J.;  Jo, Y.;  Rao, X.;  Xuei, X.;  Brown, M. E.; Kua, K. L., High Glucose Alters Fetal Rat Islet Transcriptome and Induces Progeny Islet Dysfunction. The Journal of endocrinology 2018. 

    9. Chen, N. X.;  O'Neill, K. D.; Moe, S. M., Matrix vesicles induce calcification of recipient vascular smooth muscle cells through multiple signaling pathways. Kidney international 2018, 93 (2), 343-354. 

    10. Clendenon, S. G.;  Fu, X.;  Von Hoene, R. A.;  Clendenon, J. L.;  Sluka, J. P.;  Winfree, S.;  Mang, H.;  Martinez, M.;  Filson, A. J.;  Klaunig, J. E.;  Glazier, J. A.; Dunn, K. W., A simple automated method for continuous fieldwise measurement of microvascular hemodynamics. Microvascular research 2019, 123, 7-13. 

    11. Dominguez, J. M., 2nd;  Dominguez, J. H.;  Xie, D.; Kelly, K. J., Human extracellular microvesicles from renal tubules reverse kidney ischemia-reperfusion injury in rats. PloS one 2018, 13 (8), e0202550. 

    12. Drucker, N. A.;  Jensen, A. R.;  Te Winkel, J. P.;  Ferkowicz, M. J.; Markel, T. A., Loss of endothelial nitric oxide synthase exacerbates intestinal and lung injury in experimental necrotizing enterocolitis. Journal of pediatric surgery 2018, 53 (6), 1208-1214. 

    13. Dunn, K. W.;  Sutton, T. A.; Sandoval, R. M., Live-Animal Imaging of Renal Function by Multiphoton Microscopy. Current protocols in cytometry 2018, 83, 12.9.1-12.9.25. 

    14. Eadon, M. T.;  Cheng, Y. H.;  Hato, T.;  Benson, E. A.;  Ipe, J.;  Collins, K. S.;  De Luca, T.;  El-Achkar, T. M.;  Bacallao, R. L.;  Skaar, T. C.; Dagher, P. C., In Vivo siRNA Delivery and Rebound of Renal LRP2 in Mice. J Drug Deliv 2017, 2017, 4070793. 

    15. Fligor, C. M.;  Langer, K. B.;  Sridhar, A.;  Ren, Y.;  Shields, P. K.;  Edler, M. C.;  Ohlemacher, S. K.;  Sluch, V. M.;  Zack, D. J.;  Zhang, C.;  Suter, D. M.; Meyer, J. S., Three-Dimensional Retinal Organoids Facilitate the Investigation of Retinal Ganglion Cell Development, Organization and Neurite Outgrowth from Human Pluripotent Stem Cells. Scientific reports 2018, 8 (1), 14520. 

    16. Fu, X.;  Sluka, J. P.;  Clendenon, S. G.;  Dunn, K. W.;  Wang, Z.;  Klaunig, J. E.; Glazier, J. A., Modeling of xenobiotic transport and metabolism in virtual hepatic lobule models. PloS one 2018, 13 (9), e0198060. 

    17. Gadgil, N. J.;  Salama, P.;  Dunn, K. W.; Delp, E. J., Segmentation of biological images containing multitarget labeling using the jelly filling framework. Journal of medical imaging (Bellingham, Wash.) 2018, 5 (4), 044006. 

    18. Garrett, J.;  Sampson, C. H.;  Plett, P. A.;  Crisler, R.;  Parker, J.;  Venezia, R.;  Chua, H. L.;  Hickman, D. L.;  Booth, C.;  MacVittie, T.;  Orschell, C. M.; Dynlacht, J. R., Characterization and Etiology of Swollen Muzzles in Irradiated Mice. Radiation research 2019, 191 (1), 31-42.

    19. Go, E.;  Tarnawsky, S. P.;  Shelley, W. C.;  Banno, K.;  Lin, Y.;  Gil, C. H.;  Blue, E. K.;  Haneline, L. S.;  O'Neil, K. M.; Yoder, M. C., Mycophenolic acid induces senescence of vascular precursor cells. PloS one 2018, 13 (3), e0193749. 

    20. Hato, T.;  Maier, B.;  Syed, F.;  Myslinski, J.;  Zollman, A.;  Plotkin, Z.;  Eadon, M. T.; Dagher, P. C., Bacterial sepsis triggers an antiviral response that causes translation shutdown. J Clin Invest 2019, 129 (1), 296-309. 

    21. Hato, T.;  Winfree, S.; Dagher, P. C., Kidney Imaging: Intravital Microscopy. Methods in molecular biology (Clifton, N.J.) 2018, 1763, 129-136. 

    22. Hato, T.;  Zollman, A.;  Plotkin, Z.;  El-Achkar, T. M.;  Maier, B. F.;  Pay, S. L.;  Dube, S.;  Cabral, P.;  Yoshimoto, M.;  McClintick, J.; Dagher, P. C., Endotoxin Preconditioning Reprograms S1 Tubules and Macrophages to Protect the Kidney. Journal of the American Society of Nephrology : JASN 2018, 29 (1), 104-117. 

    23. Heredero-Bermejo, I.;  Varberg, J. M.;  Charvat, R.;  Jacobs, K.;  Garbuz, T.;  Sullivan, W. J., Jr.; Arrizabalaga, G., TgDrpC, an atypical dynamin-related protein in Toxoplasma gondii, is associated with vesicular transport factors and parasite division. Mol Microbiol 2019, 111 (1), 46-64. 

    24. Jensen, A. R.;  Drucker, N. A.;  Ferkowicz, M. J.; Markel, T. A., Umbilical mesenchymal stromal cells provide intestinal protection through nitric oxide dependent pathways. The Journal of surgical research 2018, 224, 148-155. 

    25. Jensen, A. R.;  Drucker, N. A.;  Te Winkel, J. P.;  Ferkowicz, M. J.; Markel, T. A., The route and timing of hydrogen sulfide therapy critically impacts intestinal recovery following ischemia and reperfusion injury. Journal of pediatric surgery 2018, 53 (6), 1111-1117. 

    26. Khambu, B.;  Yan, S.;  Huda, N.;  Liu, G.; Yin, X. M., Homeostatic Role of Autophagy in Hepatocytes. Seminars in liver disease 2018, 38 (4), 308-319. 

    27. Kolb, A. L.;  Corridon, P. R.;  Zhang, S.;  Xu, W.;  Witzmann, F. A.;  Collett, J. A.;  Rhodes, G. J.;  Winfree, S.;  Bready, D.;  Pfeffenberger, Z. J.;  Pomerantz, J. M.;  Hato, T.;  Nagami, G. T.;  Molitoris, B. A.;  Basile, D. P.;  Atkinson, S. J.; Bacallao, R. L., Exogenous Gene Transmission of Isocitrate Dehydrogenase 2 Mimics Ischemic Preconditioning Protection. Journal of the American Society of Nephrology : JASN 2018, 29 (4), 1154-1164. 

    28. Kolb, A. L.;  Corridon, P. R.;  Zhang, S.;  Xu, W.;  Witzmann, F. A.;  Collett, J. A.;  Rhodes, G. J.;  Winfree, S.;  Bready, D.;  Pfeffenberger, Z. J.;  Pomerantz, J. M.;  Hato, T.;  Nagami, G. T.;  Molitoris, B. A.;  Basile, D. P.;  Atkinson, S. J.; Bacallao, R. L., Exogenous Gene Transmission of Isocitrate Dehydrogenase 2 Mimics Ischemic Preconditioning Protection. Journal of the American Society of Nephrology : JASN 2018. 

    29. Kono, T.;  Tong, X.;  Taleb, S.;  Bone, R. N.;  Iida, H.;  Lee, C. C.;  Sohn, P.;  Gilon, P.;  Roe, M. W.; Evans-Molina, C., Impaired Store-Operated Calcium Entry and STIM1 Loss Lead to Reduced Insulin Secretion and Increased Endoplasmic Reticulum Stress in the Diabetic beta-Cell. Diabetes 2018, 67 (11), 2293-2304. 

    30. Kumar, B.;  Prasad, M.;  Bhat-Nakshatri, P.;  Anjanappa, M.;  Kalra, M.;  Marino, N.;  Storniolo, A. M.;  Rao, X.;  Liu, S.;  Wan, J.;  Liu, Y.; Nakshatri, H., Normal Breast-Derived Epithelial Cells with Luminal and Intrinsic Subtype-Enriched Gene Expression Document Interindividual Differences in Their Differentiation Cascade. Cancer research 2018, 78 (17), 5107-5123. 

    31. Langer, K. B.;  Ohlemacher, S. K.;  Phillips, M. J.;  Fligor, C. M.;  Jiang, P.;  Gamm, D. M.; Meyer, J. S., Retinal Ganglion Cell Diversity and Subtype Specification from Human Pluripotent Stem Cells. Stem cell reports 2018, 10 (4), 1282-1293. 

    32. Langer, K. B.;  Ohlemacher, S. K.;  Phillips, M. J.;  Fligor, C. M.;  Jiang, P.;  Gamm, D. M.; Meyer, J. S., Retinal Ganglion Cell Diversity and Subtype Specification from Human Pluripotent Stem Cells. Stem cell reports 2018. 

    33. Lee, J.;  Bscke, R.;  Tang, P. C.;  Hartman, B. H.;  Heller, S.; Koehler, K. R., Hair Follicle Development in Mouse Pluripotent Stem Cell-Derived Skin Organoids. Cell reports 2018, 22 (1), 242-254. 

    34. Liu, J.;  Livingston, M. J.;  Dong, G.;  Tang, C.;  Su, Y.;  Wu, G.;  Yin, X. M.; Dong, Z., Histone deacetylase inhibitors protect against cisplatin-induced acute kidney injury by activating autophagy in proximal tubular cells. Cell death & disease 2018, 9 (3), 322. 

    35. Liu, S.;  Fan, Y.;  Chen, A.;  Jalali, A.;  Minami, K.;  Ogawa, K.;  Nakshatri, H.;  Li, B. Y.; Yokota, H., Osteocyte-Driven Downregulation of Snail Restrains Effects of Drd2 Inhibitors on Mammary Tumor Cells. Cancer research 2018, 78 (14), 3865-3876. 

    36. Logsdon, D. P.;  Shah, F.;  Carta, F.;  Supuran, C. T.;  Kamocka, M.;  Jacobsen, M. H.;  Sandusky, G. E.;  Kelley, M. R.; Fishel, M. L., Blocking HIF signaling via novel inhibitors of CA9 and APE1/Ref-1 dramatically affects pancreatic cancer cell survival. Scientific reports 2018, 8 (1), 13759. 

    37. Mehrotra, P.;  Collett, J. A.;  Gunst, S. J.; Basile, D. P., Th17 cells contribute to pulmonary fibrosis and inflammation during chronic kidney disease progression after acute ischemia. American journal of physiology. Regulatory, integrative and comparative physiology 2018, 314 (2), R265-r273. 

    38. Micanovic, R.;  Khan, S.;  Janosevic, D.;  Lee, M. E.;  Hato, T.;  Srour, E. F.;  Winfree, S.;  Ghosh, J.;  Tong, Y.;  Rice, S. E.;  Dagher, P. C.;  Wu, X. R.; El-Achkar, T. M., Tamm-Horsfall Protein Regulates Mononuclear Phagocytes in the Kidney. Journal of the American Society of Nephrology : JASN 2018, 29 (3), 841-856. 

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    42. Park, Y.;  Lee, J.;  Kwak, J. Y.;  Noh, K.;  Yim, E.;  Kim, H. K.;  Kim, Y. J.;  Broxmeyer, H. E.; Kim, J. A., Fractalkine induces angiogenic potential in CX3CR1-expressing monocytes. Journal of leukocyte biology 2018, 103 (1), 53-66. 

    43. Patel, D.;  Shimomura, A.;  Majumdar, S.;  Holley, M. C.; Hashino, E., The histone demethylase LSD1 regulates inner ear progenitor differentiation through interactions with Pax2 and the NuRD repressor complex. PloS one 2018, 13 (1), e0191689. 

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    45. Petrusca, D. N.;  Toscani, D.;  Wang, F. M.;  Park, C.;  Crean, C. D.;  Anderson, J. L.;  Marino, S.;  Mohammad, K. S.;  Zhou, D.;  Silbermann, R.;  Sun, Q.;  Kurihara, N.;  Galson, D. L.;  Giuliani, N.; Roodman, G. D., Growth factor independence 1 expression in myeloma cells enhances their growth, survival, and osteoclastogenesis. Journal of hematology & oncology 2018, 11 (1), 123. 

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    56. VanderWall, K. B.;  Vij, R.;  Ohlemacher, S. K.;  Sridhar, A.;  Fligor, C. M.;  Feder, E. M.;  Edler, M. C.;  Baucum, A. J., 2nd;  Cummins, T. R.; Meyer, J. S., Astrocytes Regulate the Development and Maturation of Retinal Ganglion Cells Derived from Human Pluripotent Stem Cells. Stem cell reports 2019, 12 (2), 201-212. 

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