Suyog Pathare
Scientist — spatial biology and tissue imaging
I develop and validate multiplex RNA and protein imaging assays on tissue, and I build open tools for checking the quality of those images.
About
I am a scientist with 5+ years of industry wet-lab R&D at 10x Genomics, ReCode Therapeutics and Akoya Biosciences. My work centers on spatial biology: I helped develop and validate the Xenium Protein assay, which detects RNA and protein in the same cells on one tissue section, and I have run IHC, ISH/FISH and multiplex immunofluorescence on FFPE and fresh frozen tissue, including tissue from 100+ cancer patients.
Before that, I worked on inhaled mRNA-LNP therapies in primary airway cells, and on blood clot mechanics during my MS in Biomedical Engineering at San Jose State University.
Multiplex tissue imaging
Measuring RNA and protein together in the same cells, on the same section.
Assay development and validation
Taking assays from experimental design through reproducibility studies, SOPs and handoff.
Image quality control
Quantitative, reproducible checks on whether a tissue image is good enough to analyze.
Open source · v0.1 in development
TissueQC
Quantitative quality control for multiplex fluorescence tissue images.
For each channel, TissueQC reports a tissue mask, the fraction of saturated pixels, a descriptive signal-to-background ratio and tile-based intensity uniformity, together with a reproducibility record of the input file, software versions and parameters. Metric definitions and validation on public datasets are in progress.
MIT license
Publications
RCT2100 Rescue of Cystic Fibrosis Transmembrane Conductance Regulator Function in CF Human Bronchial Epithelial Cells and Mucociliary Clearance in CF Ferrets
Fibrin Prestress Due to Platelet Aggregation and Contraction Increases Clot Stiffness
Selected posters
Integrated Same-Cell Multiomics Profiling with Xenium In Situ Reveals a Neuron-Associated Proliferative Tumor Subpopulation in Glioblastoma
Advancing Tumor Characterization and Immune Phenotyping Through Multiomic In Situ Profiling of RNA and Proteins
Exploring Tumor Microenvironment Heterogeneity Through Multiomic In Situ Profiling of RNA and Protein
Rapid Whole-Slide Spatial Analysis of FFPE Tissues with True Multiomic Panels Enables the Discovery of Key Cellular Niches
Hi-Plex RNA Spatial Phenotyping of Human Tissues at Single-Cell Resolution
A Novel RNA-Based Single-Cell Spatial Phenotyping Workflow for Immune Profiling of Whole Slide Samples
Platelet Contraction Increases Clot Stiffness by Increasing Fibrin Prestress
Experience
Sep 2024 – 2026
10x Genomics
Development and validation of the Xenium Protein assay; spatial RNA and protein workflows on FFPE and fresh frozen tissue.
Jul 2023 – Aug 2024
ReCode Therapeutics
Potency assays for inhaled mRNA-LNP candidates in primary airway cells.
May 2021 – Jun 2023
Akoya Biosciences
In situ RNA detection assays and multiplex RNA and protein imaging on the PhenoCycler platform.
2019 – 2021
San Jose State University
Platelet function and blood clot mechanics.
Education
2021
MS, Biomedical Engineering
2017
BE, Biomedical Engineering
Let’s talk.
The best way to reach me is by email or LinkedIn.