# Multi-Omics Core

> **NIH NIH P01** · BETH ISRAEL DEACONESS MEDICAL CENTER · 2024 · $239,364

## Abstract

Multi-omics Core (Core B) – Project Summary
The Multi-omics Core (Core B) will provide unique, centralized bulk, single-cell, and spatial profiling capabilities
for phenotypic and functional multi-omics analyses of the mechanisms informing the efficacy of bNAb (Project
1) and vaccination (Project 2) against the HIV/SHIV/SIV viral reservior. These include bulk and single-cell
genomic methodologies (ATAC-seq, RNA-seq, CITE-seq and viral sequencing), and spatial-omic profiling
(PANINI, CODEX and CosMx) with the unique established ability to assess HIV viral reservoir states.
In collaboration with Project Leaders and other Cores, Core B will leverage its deep expertise in bulk, single-
cell, and spatial multi-omics to design, profile, and analyze samples from the Projects, providing essential
technical support to execute the planned studies. Interfacing intimately with the Computational Analysis Core C
downstream, we will empower a deep, multi-model understanding to help identify cellular and/or spatial
signatures that can predict or inform mechanisms of interventional efficacy against HIV viral reservoirs.
The Specific Aims of the Core are to: 1) Perform bulk and single-cell genomic profiling (RNA-seq, ATAC-seq,
CITE-seq, viral sequencing) of PBMC and dissociated tissues for samples from Projects 1 & 2 to identify
molecular and cellular correlates of orchestrated host immune responses and viral transcripts in the presence
and absence of intervention; 2) Employ customized Spatial Proteomics and Genomics (RNA and DNA) using
CODEX-PANINI to dissect host-pathogen interactions in situ within viral tissue reservoirs in the presence and
absence of intervention; and, 3) Apply customized targeted Spatial Transcriptomics with CosMx to identify
molecular signatures of orchestrated host immune responses and viral transcripts in tissues due to intervention.
Core B members are leaders in the fields of single-cell and spatial genomic technology development, and will
be involved in all Projects at every stage. Core B will interface with the other investigators in sample preparation,
processing, data acquisition, quality control, and preparation of manuscripts. Core C will be co-led by Drs. Sizun
Jiang (Harvard/BIDMC), Alex K. Shalek (MIT/Ragon/Broad), and Malika Boudries (BIDMC). All Core members
have extensive experience in methods for high quality bulk, single-cell and spatial multi-omics data generation.
They will work closely with the other cores (e.g., Computational Core C and NHP Core D) for seamless
integration of all aspects of this innovative P01. Specifically, Drs. Shalek, Boudries and Jiang will oversee bulk
and single-cell related data acquisition, and Drs. Jiang and Shalek will oversee spatial-omics data acqusition
(CODEX-PANINI and CosMX). In summary, Core B will ensure that innovative technological platforms, with the
unique established ability to assess HIV viral reservoir states and cells, are robustly applied to the mechanistic
studies proposed in...

## Key facts

- **NIH application ID:** 10886125
- **Project number:** 5P01AI177687-02
- **Recipient organization:** BETH ISRAEL DEACONESS MEDICAL CENTER
- **Principal Investigator:** Sizun Jiang
- **Activity code:** P01 (R01, R21, SBIR, etc.)
- **Funding institute:** NIH
- **Fiscal year:** 2024
- **Award amount:** $239,364
- **Award type:** 5
- **Project period:** 2023-07-11 → 2028-04-30

## Primary source

NIH RePORTER: https://reporter.nih.gov/project-details/10886125

## Citation

> US National Institutes of Health, RePORTER application 10886125, Multi-Omics Core (5P01AI177687-02). Retrieved via AI Analytics 2026-05-28 from https://api.ai-analytics.org/grant/nih/10886125. Licensed CC0.

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