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.

Amioka N, Franklin MK, Kukida M, Zhu L, Moorleghen JJ, Howatt DA, et al. Renal Proximal Tubule Cell-specific Megalin Deletion Does Not Affect Atherosclerosis But Induces Tubulointerstitial Nephritis in Mice Fed Western Diet. bioRxiv. 2024.\
Amioka N, Franklin MK, Kukida M, Zhu L, Moorleghen JJ, Howatt DA, et al. Renal Proximal Tubule Cell-Specific Megalin Deletion Does Not Affect Atherosclerosis But Induces Tubulointerstitial Nephritis in Mice Fed a Western Diet. Arterioscler Thromb Vasc Biol. 2025;45(1):74-89.
Arkenberg MR, Jafarkhani M, Lin CC, Hashino E. Chemically defined and dynamic click hydrogels support hair cell differentiation in human inner ear organoids. Stem Cell Reports. 2025;20(2):102386.
Asghari M, Sabo AR, Barwinska D, Ferreira RM, Ferkowicz M, Bowen WS, et al. Integration of spatial multiplexed protein imaging and transcriptomics in the human kidney tracks the regenerative potential timeline of proximal tubules. bioRxiv. 2024.
Atwani R, Nagare RP, Rogers A, Prasad M, Lazar V, Sandusky G, et al. Correction: Integrin-linked kinase-frizzled 7 interaction maintains cancer stem cells to drive platinum resistance in ovarian cancer. J Exp Clin Cancer Res. 2024;43(1):175.
Atwani R, Nagare RP, Rogers A, Prasad M, Lazar V, Sandusky G, et al. Integrin-linked kinase-frizzled 7 interaction maintains cancer stem cells to drive platinum resistance in ovarian cancer. J Exp Clin Cancer Res. 2024;43(1):156.
Atwani R, Rogers A, Nagare R, Prasad M, Lazar V, Sandusky G, et al. Integrin-linked kinase-frizzled 7 interaction maintains cancer stem cells to drive platinum resistance in ovarian cancer. Res Sq. 2024.
Border S, Ferreira RM, Lucarelli N, Manthey D, Kumar S, Paul A, et al. FUSION: A web-based application for in-depth exploration of multi-omics data with brightfield histology. bioRxiv. 2024.
Burmakin M, Gilmour PS, Gram M, Shushakova N, Sandoval RM, Molitoris BA, et al. Therapeutic α-1-microglobulin ameliorates kidney ischemia-reperfusion injury. Am J Physiol Renal Physiol. 2024;327(1):F103-f12.
Collett JA, Basile DP. Beast of (renal) burden? Bst1-expressing neutrophils in kidney injury. Am J Physiol Renal Physiol. 2024;326(2):F165-f6.
Datta-Mannan A, Choi H, Jin Z, Liu L, Lu J, Stokell DJ, et al. Reducing target binding affinity improves the therapeutic index of anti-MET antibody-drug conjugate in tumor bearing animals. PLoS One. 2024;19(4):e0293703.
El-Achkar TM, Eadon MT, Kretzler M, Himmelfarb J. Precision Medicine in Nephrology: An Integrative Framework of Multidimensional Data in the Kidney Precision Medicine Project. Am J Kidney Dis. 2024;83(3):402-10.
Ferkowicz MJ, Verma A, Barwinska D, Melo Ferreira R, Henderson JM, Kirkpatrick M, et al. Molecular Signatures of Glomerular Neovascularization in a Patient with Diabetic Kidney Disease. Clin J Am Soc Nephrol. 2024;19(2):266-75.
Ferreira RM, Gisch DL, Phillips CL, Cheng YH, Asthana M, Lake BB, et al. A MEF2C transcription factor network regulates proliferation of glomerular endothelial cells in diabetic kidney disease. bioRxiv. 2024.
Ghajar-Rahimi G, Barwinska D, Whipple GE, Kamocka MM, Khan S, Winfree S, et al. Acute kidney injury results in long-term alterations of kidney lymphatics in mice. Am J Physiol Renal Physiol. 2024;327(5):F869-f84.
Gisch DL, Brennan M, Lake BB, Basta J, Keller MS, Melo Ferreira R, et al. The chromatin landscape of healthy and injured cell types in the human kidney. Nat Commun. 2024;15(1):433.
Heruye SH, Myslinski J, Zeng C, Zollman A, Makino S, Nanamatsu A, et al. Inflammation primes the murine kidney for recovery by activating AZIN1 adenosine-to-inosine editing. J Clin Invest. 2024;134(17).
Jain S, Pei L, Spraggins JM, Angelo M, Carson JP, Gehlenborg N, et al. Author Correction: Advances and prospects for the Human BioMolecular Atlas Program (HuBMAP). Nat Cell Biol. 2024;26(5):839.
Janosevic D, De Luca T, Melo Ferreira R, Gisch DL, Cheng YH, Hato T, et al. miRNA and mRNA Signatures in Human Acute Kidney Injury Tissue. Am J Pathol. 2025;195(1):102-14.
Kim K, Wann J, Kim HG, So J, Rosen ED, Roh HC. Uncoupling protein 1-driven Cre (Ucp1-Cre) is expressed in the epithelial cells of mammary glands and various non-adipose tissues. Mol Metab. 2024;84:101948.
Kolb AJ, Corridon P, Ullah M, Pfaffenberger ZJ, Xu WM, Winfree S, et al. Sulfotransferase 1C2 Increases Mitochondrial Respiration by Converting Mitochondrial Membrane Cholesterol to Cholesterol Sulfate. Biochemistry. 2024;63(18):2310-22.
Martinez MM, Walsh JR, Kamocka MM, Lee H, Dunn KW. Longitudinal intravital microscopy of the mouse kidney: inflammatory responses to abdominal imaging windows. Am J Physiol Renal Physiol. 2024;327(5):F845-f68.
Melnyk O, Guo JK, Li ZA, Jo JH, Hughes JW, Linnemann AK. Intravital imaging reveals glucose-dependent cilia movement in pancreatic islets in vivo. Metabolism. 2025;163:156105.
Mohan G, Khan I, Diaz SM, Kamocka MM, Hulsman LA, Ahmed S, et al. Quantification of Lymphangiogenesis in the Murine Lymphedema Tail Model Using Intravital Microscopy. Lymphat Res Biol. 2024;22(3):195-202.
Nanamatsu A, de Araújo L, LaFavers KA, El-Achkar TM. Advances in uromodulin biology and potential clinical applications. Nat Rev Nephrol. 2024;20(12):806-21.
Oliveira Souza RO, Yang C, Arrizabalaga G. Myosin A and F-Actin play a critical role in mitochondrial dynamics and inheritance in Toxoplasma gondii. PLoS Pathog. 2024;20(10):e1012127.
Ornitz Oliveira Souza R, Yang C, Arrizabalaga G. Myosin A and F-Actin play a critical role in mitochondrial dynamics and inheritance in Toxoplasma gondii. bioRxiv. 2024.
Peng P, Chavel C, Liu W, Carlson LM, Cao S, Utley A, et al. Pro-survival signaling regulates lipophagy essential for multiple myeloma resistance to stress-induced death. Cell Rep. 2024;43(7):114445.
Rokop ZP, Zhang W, Ghosh N, Biswas N, Das A, Lin J, et al. Exacerbated ischemia-reperfusion injury in fatty livers is mediated by lipid peroxidation stress and ferroptosis. Surgery. 2024;175(6):1539-46.
Snider PL, Sierra Potchanant EA, Sun Z, Edwards DM, Chan KK, Matias C, et al. A Barth Syndrome Patient-Derived D75H Point Mutation in TAFAZZIN Drives Progressive Cardiomyopathy in Mice. Int J Mol Sci. 2024;25(15).
So J, Strobel O, Wann J, Kim K, Paul A, Acri DJ, et al. Robust single nucleus RNA sequencing reveals depot-specific cell population dynamics in adipose tissue remodeling during obesity. bioRxiv. 2024.
Tang H, Gupta A, Morrisroe SA, Bao C, Schwantes-An TH, Gupta G, et al. Deficiency of the Deubiquitinase UCHL1 Attenuates Pulmonary Arterial Hypertension. Circulation. 2024;150(4):302-16.
Thompson T, Flanagan S, Ortega-Gonzalez D, Zhu T, Yuan X. Immediate but Temporal Response: The Role of Distal Epithelial Cells in Wound Healing. Stem Cell Rev Rep. 2024;20(6):1587-98.
Troutman AD, Arroyo E, Sheridan EM, D'Amico DJ, Brandt PR, Hinrichs R, et al. Skeletal muscle atrophy in clinical and preclinical models of chronic kidney disease: A systematic review and meta-analysis. J Cachexia Sarcopenia Muscle. 2024;15(1):21-35.
Troutman AD, Srinivasan S, Metzger CE, Fallen PB, Chen N, O'Neill KD, et al. Musculoskeletal Health Worsened from Carnitine Supplementation and Not Impacted by a Novel Individualized Treadmill Training Protocol. Am J Nephrol. 2024;55(3):369-79.
Ullah MM, Collett JA, Bacallao RL, Basile DP. Impaired hemodynamic renal reserve response following recovery from established acute kidney injury and improvement by hydrodynamic isotonic fluid delivery. Am J Physiol Renal Physiol. 2024;326(1):F86-f94.
Victoria-Castro AM, Corona-Villalobos CP, Xu AY, Onul I, Huynh C, Chen SW, et al. Participant Experience with Protocol Research Kidney Biopsies in the Kidney Precision Medicine Project. Clin J Am Soc Nephrol. 2024;19(2):202-12.
Williams JC, Jr., Bowen WS, Lingeman JE, Rivera M, Worcester EM, El-Achkar TM. Two distinct phenotypes of calcium oxalate stone formers could imply different long-term risks for renal function. Urolithiasis. 2024;52(1):133.
Williams JC, Jr., Bowen WS, Lingeman JE, Rivera M, Worcester EM, El-Achkar TM. Two distinct phenotypes of calcium oxalate stone formers could imply different long-term risks for renal function. Res Sq. 2024.
Xia H, Jerde TJ, Fehrenbacher JC. Sensory innervation in the prostate and a role for calcitonin gene-related peptide in prostatic epithelial proliferation. Front Mol Neurosci. 2024;17:1497735.

Arkenberg MR, Ueda Y, Hashino E, Lin CC. Photo-click hydrogels for 3D in situ differentiation of pancreatic progenitors from induced pluripotent stem cells. Stem Cell Res Ther. 2023;14(1):223.
Arkenberg MR, Ueda Y, Hashino E, Lin CC. Photo-click hydrogels for 3D in situ differentiation of pancreatic progenitors from induced pluripotent stem cells. Res Sq. 2023.
Border S, Lucarelli N, Eadon MT, El-Achkar TM, Jain S, Sarder P. Computational Pathology Fusing Spatial Technologies. Clin J Am Soc Nephrol. 2023;18(5):675-7.
Bryniarski MA, Sandoval RM, Ruszaj DM, Fraser-McArthur J, Yee BM, Yacoub R, et al. Defining the Intravital Renal Disposition of Fluorescence-Quenched Exenatide. Mol Pharm. 2023;20(2):987-96.
Canela VH, Bowen WS, Ferreira RM, Syed F, Lingeman JE, Sabo AR, et al. A spatially anchored transcriptomic atlas of the human kidney papilla identifies significant immune injury in patients with stone disease. Nat Commun. 2023;14(1):4140.
Datta-Mannan A, Molitoris BA, Feng Y, Martinez MM, Sandoval RM, Brown RM, et al. Intravital Microscopy Reveals Unforeseen Biodistribution Within the Liver and Kidney Mechanistically Connected to the Clearance of a Bifunctional Antibody. Drug Metab Dispos. 2023;51(3):403-12.
Gisch DL, Brennan M, Lake BB, Basta J, Keller M, Ferreira RM, et al. The chromatin landscape of healthy and injured cell types in the human kidney. bioRxiv. 2023.
Han L, Huang D, Wu S, Liu S, Wang C, Sheng Y, et al. Lipid droplet-associated lncRNA LIPTER preserves cardiac lipid metabolism. Nat Cell Biol. 2023;25(7):1033-46.
Jain S, Pei L, Spraggins JM, Angelo M, Carson JP, Gehlenborg N, et al. Advances and prospects for the Human BioMolecular Atlas Program (HuBMAP). Nat Cell Biol. 2023;25(8):1089-100.
Kaczmarek R, Piñeros AR, Patterson PE, Bertolini TB, Perrin GQ, Sherman A, et al. Factor VIII trafficking to CD4+ T cells shapes its immunogenicity and requires several types of antigen-presenting cells. Blood. 2023;142(3):290-305.
Karnik S, Noori-Dokht H, Williams T, Joukar A, Trippel SB, Sankar U, et al. Decreased SIRT1 Activity Is Involved in the Acute Injury Response of Chondrocytes to Ex Vivo Injurious Mechanical Overload. Int J Mol Sci. 2023;24(7).
Kidwell A, Yadav SPS, Maier B, Zollman A, Ni K, Halim A, et al. Translation Rescue by Targeting Ppp1r15a through Its Upstream Open Reading Frame in Sepsis-Induced Acute Kidney Injury in a Murine Model. J Am Soc Nephrol. 2023;34(2):220-40.
Kim K, Wann J, Kim HG, So J, Rosen ED, Roh HC. Uncoupling protein 1-driven Cre (Ucp1-Cre) is expressed in the epithelial cells of mammary glands and various non-adipose tissues. bioRxiv. 2023.
LaFavers KA, Gaddy AR, Micanovic R, Lingeman J, Williams JC, Jr., Coe FL, et al. Water Loading and Uromodulin Secretion in Healthy Individuals and Idiopathic Calcium Stone Formers. Clin J Am Soc Nephrol. 2023;18(8):1059-67.
Lake BB, Menon R, Winfree S, Hu Q, Melo Ferreira R, Kalhor K, et al. An atlas of healthy and injured cell states and niches in the human kidney. Nature. 2023;619(7970):585-94.
Liang S, Bao C, Yang Z, Liu S, Sun Y, Cao W, et al. SARS-CoV-2 spike protein induces IL-18-mediated cardiopulmonary inflammation via reduced mitophagy. Signal Transduct Target Ther. 2023;8(1):108.
Molitoris BA, Dunn KW, Sandoval RM. Proximal tubule role in albumin homeostasis: controversy, species differences, and the contributions of intravital microscopy. Kidney Int. 2023;104(6):1065-9.
Mulcrone PL, Lam AK, Frabutt D, Zhang J, Chrzanowski M, Herzog RW, et al. Chemical modification of AAV9 capsid with N-ethyl maleimide alters vector tissue tropism. Sci Rep. 2023;13(1):8436.
Nanamatsu A, Micanovic R, Khan S, El-Achkar TM, LaFavers KA. Healthy Women Have Higher Systemic Uromodulin Levels: Identification of Uromodulin as an Estrogen Responsive Gene. Kidney360. 2023;4(9):e1302-e7.
Narayanan G, Halim A, Hu A, Avin KG, Lu T, Zehnder D, et al. Molecular Phenotyping and Mechanisms of Myocardial Fibrosis in Advanced Chronic Kidney Disease. Kidney360. 2023;4(11):1562-79.
Pasupuleti SK, Ramdas B, Burns SS, Palam LR, Kanumuri R, Kumar R, et al. Obesity-induced inflammation exacerbates clonal hematopoiesis. J Clin Invest. 2023;133(11).
Rogers LM, Huggins M, Doster RS, Omage JI, Gaddy JA, Eastman A, et al. Impact of Metabolic Stress on BeWo Syncytiotrophoblast Function. Chembiochem. 2023;24(24):e202300410.
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;324(2):F135-f7.
Tang PC, Chen L, Singh S, Groves AK, Koehler KR, Liu XZ, et al. Early Wnt Signaling Activation Promotes Inner Ear Differentiation via Cell Caudalization in Mouse Stem Cell-Derived Organoids. Stem Cells. 2023;41(1):26-38.
Ueda Y, Nakamura T, Nie J, Solivais AJ, Hoffman JR, Daye BJ, et al. Defining developmental trajectories of prosensory cells in human inner ear organoids at single-cell resolution. Development. 2023;150(12).
Wagner MC, Sandoval RM, Yadav SPS, Campos SB, Rhodes GJ, Phillips CL, et al. Lrpap1 (RAP) Inhibits Proximal Tubule Clathrin Mediated and Clathrin Independent Endocytosis, Ameliorating Renal Aminoglycoside Nephrotoxicity. Kidney360. 2023;4(5):591-605.
Winfree S, McNutt AT, Khochare S, Borgard TJ, Barwinska D, Sabo AR, et al. 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;103(6):100104.
Wu L, Chen A, Salama P, Winfree S, Dunn KW, Delp EJ. NISNet3D: three-dimensional nuclear synthesis and instance segmentation for fluorescence microscopy images. Sci Rep. 2023;13(1):9533.
Zhang W, Kyritsi K, Isidan A, Park Y, Li P, Cross-Najafi AA, et al. Development of Scaffold-Free Three-Dimensional Cholangiocyte Organoids to Study the Progression of Primary Sclerosing Cholangitis. Am J Pathol. 2023;193(9):1156-69.
Zhou Z, Van der Jeught K, Li Y, Sharma S, Yu T, Moulana I, et al. A T Cell-Engaging Tumor Organoid Platform for Pancreatic Cancer Immunotherapy. Adv Sci (Weinh). 2023;10(23):e2300548.
Amioka N, Franklin MK, Kukida M, Zhu L, Moorleghen JJ, Howatt DA, et al. Renal Proximal Tubule Cell-specific Megalin Deletion Does Not Affect Atherosclerosis But Induces Tubulointerstitial Nephritis in Mice Fed Western Diet. bioRxiv. 2024.
Amioka N, Franklin MK, Kukida M, Zhu L, Moorleghen JJ, Howatt DA, et al. Renal Proximal Tubule Cell-Specific Megalin Deletion Does Not Affect Atherosclerosis But Induces Tubulointerstitial Nephritis in Mice Fed a Western Diet. Arterioscler Thromb Vasc Biol. 2025;45(1):74-89.
Arkenberg MR, Jafarkhani M, Lin CC, Hashino E. Chemically defined and dynamic click hydrogels support hair cell differentiation in human inner ear organoids. Stem Cell Reports. 2025;20(2):102386.
Asghari M, Sabo AR, Barwinska D, Ferreira RM, Ferkowicz M, Bowen WS, et al. Integration of spatial multiplexed protein imaging and transcriptomics in the human kidney tracks the regenerative potential timeline of proximal tubules. bioRxiv. 2024.
Atwani R, Nagare RP, Rogers A, Prasad M, Lazar V, Sandusky G, et al. Correction: Integrin-linked kinase-frizzled 7 interaction maintains cancer stem cells to drive platinum resistance in ovarian cancer. J Exp Clin Cancer Res. 2024;43(1):175.
Atwani R, Nagare RP, Rogers A, Prasad M, Lazar V, Sandusky G, et al. Integrin-linked kinase-frizzled 7 interaction maintains cancer stem cells to drive platinum resistance in ovarian cancer. J Exp Clin Cancer Res. 2024;43(1):156.
Atwani R, Rogers A, Nagare R, Prasad M, Lazar V, Sandusky G, et al. Integrin-linked kinase-frizzled 7 interaction maintains cancer stem cells to drive platinum resistance in ovarian cancer. Res Sq. 2024.
Border S, Ferreira RM, Lucarelli N, Manthey D, Kumar S, Paul A, et al. FUSION: A web-based application for in-depth exploration of multi-omics data with brightfield histology. bioRxiv. 2024.
Burmakin M, Gilmour PS, Gram M, Shushakova N, Sandoval RM, Molitoris BA, et al. Therapeutic α-1-microglobulin ameliorates kidney ischemia-reperfusion injury. Am J Physiol Renal Physiol. 2024;327(1):F103-f12.
Collett JA, Basile DP. Beast of (renal) burden? Bst1-expressing neutrophils in kidney injury. Am J Physiol Renal Physiol. 2024;326(2):F165-f6.
Datta-Mannan A, Choi H, Jin Z, Liu L, Lu J, Stokell DJ, et al. Reducing target binding affinity improves the therapeutic index of anti-MET antibody-drug conjugate in tumor bearing animals. PLoS One. 2024;19(4):e0293703.
El-Achkar TM, Eadon MT, Kretzler M, Himmelfarb J. Precision Medicine in Nephrology: An Integrative Framework of Multidimensional Data in the Kidney Precision Medicine Project. Am J Kidney Dis. 2024;83(3):402-10.
Ferkowicz MJ, Verma A, Barwinska D, Melo Ferreira R, Henderson JM, Kirkpatrick M, et al. Molecular Signatures of Glomerular Neovascularization in a Patient with Diabetic Kidney Disease. Clin J Am Soc Nephrol. 2024;19(2):266-75.
Ferreira RM, Gisch DL, Phillips CL, Cheng YH, Asthana M, Lake BB, et al. A MEF2C transcription factor network regulates proliferation of glomerular endothelial cells in diabetic kidney disease. bioRxiv. 2024.
Ghajar-Rahimi G, Barwinska D, Whipple GE, Kamocka MM, Khan S, Winfree S, et al. Acute kidney injury results in long-term alterations of kidney lymphatics in mice. Am J Physiol Renal Physiol. 2024;327(5):F869-f84.
Gisch DL, Brennan M, Lake BB, Basta J, Keller MS, Melo Ferreira R, et al. The chromatin landscape of healthy and injured cell types in the human kidney. Nat Commun. 2024;15(1):433.
Heruye SH, Myslinski J, Zeng C, Zollman A, Makino S, Nanamatsu A, et al. Inflammation primes the murine kidney for recovery by activating AZIN1 adenosine-to-inosine editing. J Clin Invest. 2024;134(17).
Jain S, Pei L, Spraggins JM, Angelo M, Carson JP, Gehlenborg N, et al. Author Correction: Advances and prospects for the Human BioMolecular Atlas Program (HuBMAP). Nat Cell Biol. 2024;26(5):839.
Janosevic D, De Luca T, Melo Ferreira R, Gisch DL, Cheng YH, Hato T, et al. miRNA and mRNA Signatures in Human Acute Kidney Injury Tissue. Am J Pathol. 2025;195(1):102-14.
Kim K, Wann J, Kim HG, So J, Rosen ED, Roh HC. Uncoupling protein 1-driven Cre (Ucp1-Cre) is expressed in the epithelial cells of mammary glands and various non-adipose tissues. Mol Metab. 2024;84:101948.
Kolb AJ, Corridon P, Ullah M, Pfaffenberger ZJ, Xu WM, Winfree S, et al. Sulfotransferase 1C2 Increases Mitochondrial Respiration by Converting Mitochondrial Membrane Cholesterol to Cholesterol Sulfate. Biochemistry. 2024;63(18):2310-22.
Martinez MM, Walsh JR, Kamocka MM, Lee H, Dunn KW. Longitudinal intravital microscopy of the mouse kidney: inflammatory responses to abdominal imaging windows. Am J Physiol Renal Physiol. 2024;327(5):F845-f68.
Melnyk O, Guo JK, Li ZA, Jo JH, Hughes JW, Linnemann AK. Intravital imaging reveals glucose-dependent cilia movement in pancreatic islets in vivo. Metabolism. 2025;163:156105.
Mohan G, Khan I, Diaz SM, Kamocka MM, Hulsman LA, Ahmed S, et al. Quantification of Lymphangiogenesis in the Murine Lymphedema Tail Model Using Intravital Microscopy. Lymphat Res Biol. 2024;22(3):195-202.
Nanamatsu A, de Araújo L, LaFavers KA, El-Achkar TM. Advances in uromodulin biology and potential clinical applications. Nat Rev Nephrol. 2024;20(12):806-21.
Oliveira Souza RO, Yang C, Arrizabalaga G. Myosin A and F-Actin play a critical role in mitochondrial dynamics and inheritance in Toxoplasma gondii. PLoS Pathog. 2024;20(10):e1012127.
Ornitz Oliveira Souza R, Yang C, Arrizabalaga G. Myosin A and F-Actin play a critical role in mitochondrial dynamics and inheritance in Toxoplasma gondii. bioRxiv. 2024.
Peng P, Chavel C, Liu W, Carlson LM, Cao S, Utley A, et al. Pro-survival signaling regulates lipophagy essential for multiple myeloma resistance to stress-induced death. Cell Rep. 2024;43(7):114445.
Rokop ZP, Zhang W, Ghosh N, Biswas N, Das A, Lin J, et al. Exacerbated ischemia-reperfusion injury in fatty livers is mediated by lipid peroxidation stress and ferroptosis. Surgery. 2024;175(6):1539-46.
Snider PL, Sierra Potchanant EA, Sun Z, Edwards DM, Chan KK, Matias C, et al. A Barth Syndrome Patient-Derived D75H Point Mutation in TAFAZZIN Drives Progressive Cardiomyopathy in Mice. Int J Mol Sci. 2024;25(15).
So J, Strobel O, Wann J, Kim K, Paul A, Acri DJ, et al. Robust single nucleus RNA sequencing reveals depot-specific cell population dynamics in adipose tissue remodeling during obesity. bioRxiv. 2024.
Tang H, Gupta A, Morrisroe SA, Bao C, Schwantes-An TH, Gupta G, et al. Deficiency of the Deubiquitinase UCHL1 Attenuates Pulmonary Arterial Hypertension. Circulation. 2024;150(4):302-16.
Thompson T, Flanagan S, Ortega-Gonzalez D, Zhu T, Yuan X. Immediate but Temporal Response: The Role of Distal Epithelial Cells in Wound Healing. Stem Cell Rev Rep. 2024;20(6):1587-98.
Troutman AD, Arroyo E, Sheridan EM, D'Amico DJ, Brandt PR, Hinrichs R, et al. Skeletal muscle atrophy in clinical and preclinical models of chronic kidney disease: A systematic review and meta-analysis. J Cachexia Sarcopenia Muscle. 2024;15(1):21-35.
Troutman AD, Srinivasan S, Metzger CE, Fallen PB, Chen N, O'Neill KD, et al. Musculoskeletal Health Worsened from Carnitine Supplementation and Not Impacted by a Novel Individualized Treadmill Training Protocol. Am J Nephrol. 2024;55(3):369-79.
Ullah MM, Collett JA, Bacallao RL, Basile DP. Impaired hemodynamic renal reserve response following recovery from established acute kidney injury and improvement by hydrodynamic isotonic fluid delivery. Am J Physiol Renal Physiol. 2024;326(1):F86-f94.
Victoria-Castro AM, Corona-Villalobos CP, Xu AY, Onul I, Huynh C, Chen SW, et al. Participant Experience with Protocol Research Kidney Biopsies in the Kidney Precision Medicine Project. Clin J Am Soc Nephrol. 2024;19(2):202-12.
Williams JC, Jr., Bowen WS, Lingeman JE, Rivera M, Worcester EM, El-Achkar TM. Two distinct phenotypes of calcium oxalate stone formers could imply different long-term risks for renal function. Urolithiasis. 2024;52(1):133.
Williams JC, Jr., Bowen WS, Lingeman JE, Rivera M, Worcester EM, El-Achkar TM. Two distinct phenotypes of calcium oxalate stone formers could imply different long-term risks for renal function. Res Sq. 2024.
Xia H, Jerde TJ, Fehrenbacher JC. Sensory innervation in the prostate and a role for calcitonin gene-related peptide in prostatic epithelial proliferation. Front Mol Neurosci. 2024;17:1497735.

Behrouzi, A.; Xia, H.; Thompson, E. L.; Kelley, M. R.; Fehrenbacher, J. C., Oxidative DNA Damage and Cisplatin Neurotoxicity Is Exacerbated by Inhibition of OGG1 Glycosylase Activity and APE1 Endonuclease Activity in Sensory Neurons. Int J Mol Sci 2022, 23 (3).
Bhamidipati, T.; Kumar, M.; Verma, S. S.; Mohanty, S. K.; Kacar, S.; Reese, D.; Martinez, M. M.; Kamocka, M. M.; Dunn, K. W.; Sen, C. K.; Singh, K., Epigenetic basis of diabetic vasculopathy. Front Endocrinol (Lausanne) 2022, 13, 989844.
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) 2022, 305 (7), 1701-1711.
Canela, V. H.; Dzien, C.; Bledsoe, S. B.; Borofsky, M. S.; Boris, R. S.; Lingeman, J. E.; El-Achkar, T. M.; Williams, J. C., Jr., Human jackstone arms show a protein-rich, X-ray lucent core, suggesting that proteins drive their rapid and linear growth. Urolithiasis 2022, 50 (1), 21-28.
Cokic, I.; Chan, S. F.; Guan, X.; Nair, A. R.; Yang, H. J.; Liu, T.; Chen, Y.; Hernando, D.; Sykes, J.; Tang, R.; Butler, J.; Dohnalkova, A.; Kovarik, L.; Finney, R.; Kali, A.; Sharif, B.; Bouchard, L. S.; Gupta, R.; Krishnam, M. S.; Vora, K.; Tamarappoo, B.; Howarth, A. G.; Kumar, A.; Francis, J.; Reeder, S. B.; Wood, J. C.; Prato, F. S.; Dharmakumar, R., Intramyocardial hemorrhage drives fatty degeneration of infarcted myocardium. Nat Commun 2022, 13 (1), 6394.
Collins, K. S.; Eadon, M. T.; Cheng, Y. H.; Barwinska, D.; Melo Ferreira, R.; McCarthy, T. W.; Janosevic, D.; Syed, F.; Maier, B.; El-Achkar, T. M.; Kelly, K. J.; Phillips, C. L.; Hato, T.; Sutton, T. A.; Dagher, P. C., Alterations in Protein Translation and Carboxylic Acid Catabolic Processes in Diabetic Kidney Disease. Cells 2022, 11 (7).
Dunn, K. W.; Hall, A. M.; Molitoris, B. A., Editorial: Proceedings of the 2021 Indiana O'Brien Center Microscopy Workshop. Front Physiol 2022, 13, 891526.
Eadon, M. T.; Dagher, P. C.; El-Achkar, T. M., Cellular and molecular interrogation of kidney biopsy specimens. Curr Opin Nephrol Hypertens 2022, 31 (2), 160-167.
El-Achkar, T. M.; Winfree, S.; Talukder, N.; Barwinska, D.; Ferkowicz, M. J.; Al Hasan, M., Tissue Cytometry With Machine Learning in Kidney: From Small Specimens to Big Data. Front Physiol 2022, 13, 832457.
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Ryan, J.; Morgan, R. E.; Chen, Y.; Volak, L.; Dunn, R. T.; Dunn, K. W., Intravital multiphoton microscopy with fluorescent bile salts in rats as an in vivo biomarker for hepatobiliary transport inhibition. Drug metabolism and disposition: the biological fate of chemicals 2018.
Ryan, J.; Morgan, R. E.; Chen, Y.; Volak, L. P.; Dunn, R. T., 2nd; Dunn, K. W., Intravital Multiphoton Microscopy with Fluorescent Bile Salts in Rats as an In Vivo Biomarker for Hepatobiliary Transport Inhibition. Drug metabolism and disposition: the biological fate of chemicals 2018, 46 (5), 704-718.
Sandoval, R. M.; Molitoris, B. A.; Palygin, O., Fluorescent Imaging and Microscopy for Dynamic Processes in Rats. Methods Mol Biol 2019, 2018, 151-175.
Shankar Babu, M.; Mahanta, S.; Lakhter, A. J.; Hato, T.; Paul, S.; Naidu, S. R., Lapachol inhibits glycolysis in cancer cells by targeting pyruvate kinase M2. PloS one 2018, 13 (2), e0191419.
Soonpaa, M. H.; Lafontant, P. J.; Reuter, S.; Scherschel, J. A.; Srour, E. F.; Zaruba, M. M.; Rubart-von der Lohe, M.; Field, L. J., Absence of Cardiomyocyte Differentiation Following Transplantation of Adult Cardiac-Resident Sca-1(+) Cells Into Infarcted Mouse Hearts. Circulation 2018, 138 (25), 2963-2966.
Swallow, E. A.; Aref, M. W.; Chen, N.; Byiringiro, I.; Hammond, M. A.; McCarthy, B. P.; Territo, P. R.; Kamocka, M. M.; Winfree, S.; Dunn, K. W.; Moe, S. M.; Allen, M. R., Skeletal accumulation of fluorescently tagged zoledronate is higher in animals with early stage chronic kidney disease. Osteoporosis international : a journal established as result of cooperation between the European Foundation for Osteoporosis and the National Osteoporosis Foundation of the USA 2018, 29 (9), 2139-2146.
Szentgyorgyi, L.; Shepherd, C.; Dunn, K. W.; Fawcett, P.; Barker, J. M.; Exton, P.; Maybauer, M. O., Extracorporeal membrane oxygenation in severe respiratory failure resulting from burns and smoke inhalation injury. Burns : journal of the International Society for Burn Injuries 2018, 44 (5), 1091-1099.
Thomas, Y.; Androphy, E. J., Human Papillomavirus Replication Regulation by Acetylation of a Conserved Lysine in the E2 Protein. Journal of virology 2018, 92 (3).
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.
Varberg, K. M.; Winfree, S.; Dunn, K. W.; Haneline, L. S., Kinetic Analysis of Vasculogenesis Quantifies Dynamics of Vasculogenesis and Angiogenesis In Vitro. Journal of visualized experiments : JoVE 2018, (131).
Wang, L.; Wang, Y.; Chen, A.; Jalali, A.; Liu, S.; Guo, Y.; Na, S.; Nakshatri, H.; Li, B. Y.; Yokota, H., Effects of a checkpoint kinase inhibitor, AZD7762, on tumor suppression and bone remodeling. International journal of oncology 2018, 53 (3), 1001-1012.
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., Quantitative Large-Scale Three-Dimensional Imaging of Human Kidney Biopsies: A Bridge to Precision Medicine in Kidney Disease. Nephron 2018, 140 (2), 134-139.
Wolf, E. R.; McAtarsney, C. P.; Bredhold, K. E.; Kline, A. M.; Mayo, L. D., Mutant and wild-type p53 form complexes with p73 upon phosphorylation by the kinase JNK. Science signaling 2018, 11 (524).
Yamamoto, W. R.; Bone, R. N.; Sohn, P.; Syed, F.; Reissaus, C. A.; Mosley, A. L.; Wijeratne, A. B.; True, J. D.; Tong, X.; Kono, T.; Evans-Molina, C., Endoplasmic reticulum stress alters ryanodine receptor function in the murine pancreatic beta cell. The Journal of biological chemistry 2019, 294 (1), 168-181.
Zhang, W.; Bhetwal, B. P.; Gunst, S. J., Rho kinase collaborates with p21-activated kinase to regulate actin polymerization and contraction in airway smooth muscle. The Journal of physiology 2018, 596 (16), 3617-3635.

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