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Spatial and single cell analysis of tumor microenvironment by seqFISH+

Award Information
Agency: Department of Health and Human Services
Branch: National Institutes of Health
Contract: 1R44CA247353-01
Agency Tracking Number: R44CA247353
Amount: $1,999,998.00
Phase: Phase II
Program: SBIR
Solicitation Topic Code: NCI
Solicitation Number: PAR18-303
Solicitation Year: 2018
Award Year: 2020
Award Start Date (Proposal Award Date): 2020-04-01
Award End Date (Contract End Date): 2022-03-31
Small Business Information
Pasadena, CA 91107-5211
United States
DUNS: 080426411
HUBZone Owned: No
Woman Owned: No
Socially and Economically Disadvantaged: No
Principal Investigator
 (631) 889-6186
Business Contact
Phone: (626) 460-8095
Research Institution

Tumor microenvironment (TME) is a key determinant of tumor growth, disease progression and
resistance to chemotherapy. There is a diverse repertoire of distinct cell type that are found in
the tumor microenvironment, with many that have not been fully enumerated. In addition, little is
known about the “geography” of the tumors and the spatial organization of the distinct cell types.
There is therefore, an immediate need of transformative tools to enable in-depth understanding
of the TME in many forms of malignancies.
Spatial Genomics Inc is commercializing seqFISH+ (Eng et al, Nature 2019) which can achieves
multiplexing of 10,000 genes at the mRNA level in single cells in tissues with spatial information
preserved. Using the seqFISH+ transcriptome profiles, novel cells types in situ and spatial
organizations can be directly identified and visualized in tumor tissue slices.
These capabilities make seqFISH+ a powerful tool for examining the different cell types and their
interactions in the tumor microenvironment. In this SBIR proposal, we will develop an instrument
and the associated software and reagents that will allow researchers to perform seqFISH+ in
tumor slices. In collaboration with Amgen and Children’s Hospital at LA (CHLA), we will apply
seqFISH+ to image the tumor microenvironment in both mouse model systems and human
pediatric neuroblastoma samples.NARRATIVE
Tumor microenvironment is a feature to understand in tumor biology. Spatial Genomics has
developed a tool to comprehensive map the expression of all of the genes in the genome at
single cell resolution that is preserved in the native tumor microenvironment. This technology
has transformative implications to cancer biology and can generate a true spatial atlas of tumors
with the distinct cell types.

* Information listed above is at the time of submission. *

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