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URL: https://dx.doi.org/DOI:10.17504/protocols.io.8rkhv4w

Authors: Michael Eadon, Daria Barwinska, Ying-Hua Cheng, Michael J. Ferkowicz, Samir V. Parikh, Brad H. Rovin, John P. Shapiro, Pierre C. Dagher, Tarek M. El-Achkar

Group: KPMP

Summary: Recent advances in multi-scale interrogation of human tissue, including advanced imaging techniques and the powerful application of large dataset “omics”, have displayed significant promise toward identifying new and specific therapeutic targets, predicting disease progression, and individualizing treatment in participants with acute and chronic kidney disease. Our site, formed by the alliance of Indiana University and Ohio State University, will implement an unbiased tissue interrogation workflow for KPMP human kidney biopsies that integrates largescale 3D tissue imaging for quantitative supervised and unsupervised analysis/cytometry with sub-segmental “omics” data on the same kidney biopsy specimen. The sub-segmental “omics” pipeline will use fluorescence based Laser MicroDissection (LMD) to isolate specific nephron segments and interstitial/other targeted areas, for downstream analysis with transcriptomics and proteomics. The omics analysis will be eventually expanded to include bulk epigenetics. Acting harmoniously with other KPMP sites, our interrogation techniques are expected to facilitate back-mapping of key molecular pathways to the biopsy, which can subsequently identify foci of injury and/or regeneration that can undergo targeted sampling to generate further enriched omics. Therefore, in addition to a significant contribution to the human kidney atlas, our approach will complement other interrogation techniques within KPMP by providing tissue context and increasing spatial resolution for molecular signatures that arise in heterogeneous areas during kidney disease.

Associated Publications: Barwinska D, El-Achkar TM, Ferreira RM, Syed F, Cheng Y, 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. Science Advances 7(7). doi: 10.1126/sciadv.abd3359

Affiliations: Indiana University School of Medicine, Indiana University School of Medicine, Indiana University School of Medicine, Indiana University School of Medicine, Ohio State University Wexner Medical Center, Ohio State University Wexner Medical Center, Ohio State University Wexner Medical Center, Indiana University School of Medicine, Indiana University School of Medicine

External URL: https://doi.org/10.1126/sciadv.abd3359

Version: 1

Publication Date: 2020

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