# Single-nucleus sequencing and in situ mapping of mRNA molecules in human kidney

> **NIH NIH UH3** · UNIVERSITY OF CALIFORNIA, SAN DIEGO · 2020 · $700,944

## Abstract

Abstract
The human kidney is a complex organ reported to contain over 25 cell types spatially
organized into a million nephrons connected to a urine-transporting network. However,
the actual cellular heterogeneity is likely to be much greater. Together, kidney structures
function in heterogeneous environments created by the distinct organization (cortical-
medullary) and distribution of distinct cell types. Genetic differences, injury and stress
can result in kidney disease. A large gap exists in our understanding of the molecular
blueprint that drives homeostatic interactions or pathology in kidney. A complete
catalog of molecular signatures of all kidney cell types in 3D space, with single cell
resolution, is crucial for an improved understanding of normal kidney functions, and
acute and chronic kidney disease (AKD and CKD). In this project we will fill this existing
gap with three specific aims. In the UG3 phase, with Aim 1, we will collect, preserve and
prepare human kidney specimens from consented patients (existing and new) and
optimize a single-nucleus RNA sequencing method to human kidneys. In Aim 2, we will
optimize an multiplexed in situ RNA imaging method for spatially mapping the
transcripts of 100+ genes within human kidney. In the UH3 phase (Aim 3), we will
generate a reference cell atlas of human kidney with cell types, sub-types and their
relative composition, a true 3D sub-micron resolution spatial map, and apply this
knowledge to uncover molecular differences at a cellular level in CKD

## Key facts

- **NIH application ID:** 10005042
- **Project number:** 5UH3DK114933-04
- **Recipient organization:** UNIVERSITY OF CALIFORNIA, SAN DIEGO
- **Principal Investigator:** Sanjay Jain
- **Activity code:** UH3 (R01, R21, SBIR, etc.)
- **Funding institute:** NIH
- **Fiscal year:** 2020
- **Award amount:** $700,944
- **Award type:** 5
- **Project period:** 2017-09-15 → 2022-06-30

## Primary source

NIH RePORTER: https://reporter.nih.gov/project-details/10005042

## Citation

> US National Institutes of Health, RePORTER application 10005042, Single-nucleus sequencing and in situ mapping of mRNA molecules in human kidney (5UH3DK114933-04). Retrieved via AI Analytics 2026-05-24 from https://api.ai-analytics.org/grant/nih/10005042. Licensed CC0.

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