# Core C:  Single Cell Phenotyping

> **NIH NIH U19** · YALE UNIVERSITY · 2021 · $954,979

## Abstract

Abstract
We propose to use a systems approach that combines well-defined cohorts with unbiased large-scale
profiling to elucidate signatures defining immune responsiveness in the context of divergent disease
outcomes. Standardization, both at the assay and analytical levels, will allow comparisons and
integration of data across projects. To maximize the immune profiles of samples generated in our
Projects—and the shared analysis and interpretation of data— we propose a Single Cell Phenotyping
Core to conduct and analyze multiparameter immune markers using shared platforms. The platforms of
the Core include mass cytometry (CyTOF) for multiparameter single cell analysis of samples from the
Research Projects (Aim 1). This new technology, which overcomes many of the limitations of
fluorescence-based flow cytometry, provides unprecedented cellular analysis of multiple cell populations
simultaneously and is a powerful technique for translational investigations. Our core will support
seamless web interface and in depth computational analysis needs of the projects (Aim 2). In addition,
we will use nanowell-based single-cell analysis for multispectral imaging cytometry (MuSIC) to measure,
analyze and report the surface expression of up to 16 markers on immunocytes in sorted populations of
interest or in sparse samples, including synovial fluid and EM biopsies (Aim 3). Finally, we will extend the
capabilities of the nanowell platform for performing single-cell RNA-sequencing, which provides a unique
and unbiased approach for resolving heterogeneous subsets of immune cells (Aim 4). Array-wide RNA-
sequencing of targeted cell types or sparse samples is an innovative platform to probe the intrinsic
differences between cells of interest and to refine the molecular signatures of cells implicated in disease.

## Key facts

- **NIH application ID:** 10317010
- **Project number:** 3U19AI089992-10S2
- **Recipient organization:** YALE UNIVERSITY
- **Principal Investigator:** RUTH R MONTGOMERY
- **Activity code:** U19 (R01, R21, SBIR, etc.)
- **Funding institute:** NIH
- **Fiscal year:** 2021
- **Award amount:** $954,979
- **Award type:** 3
- **Project period:** 2020-05-14 → 2021-11-30

## Primary source

NIH RePORTER: https://reporter.nih.gov/project-details/10317010

## Citation

> US National Institutes of Health, RePORTER application 10317010, Core C:  Single Cell Phenotyping (3U19AI089992-10S2). Retrieved via AI Analytics 2026-05-23 from https://api.ai-analytics.org/grant/nih/10317010. Licensed CC0.

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