Project
Developing Tools and Standards for Integration of Multidimensional Human Cell Atlas Data
Focus
Methods Focus, Urinary
Method
Epigenetic Sequencing, Single Cell Transcriptomics, Spatial Genomics
Project Summary
This network proposes a benchmarking framework to generate guidelines, technologies, quality metrics, and new computational tools that will serve as a compass for the Human Cell Atlas’s generation of reproducible and high-quality tissue atlases.
Results & Resources
This group developed tools to integrate single-cell data for multidimensional analysis, starting with mouse kidney samples. They improved zUMIs and powsimR — data processing pipelines designed to reduce ambient RNA in single-cell RNA sequencing data, a crucial problem in single-cell data analysis. This group published SPOTlight, a tool to deconvolute cell types and proportions from tissue sections at the single-cell resolution.
Investigators
Co-Principal Investigators
![Piero Carninci, PhD](https://chanzuckerberg.com/wp-content/uploads/2019/06/Carninci_Piero.jpg)
Piero Carninci, PhD
![Wolfgang Enard, PhD](https://chanzuckerberg.com/wp-content/uploads/2019/06/Wolfgang_Enard.jpg)
Wolfgang Enard, PhD
![Samouil Farhi, PhD](https://chanzuckerberg.com/wp-content/uploads/2019/06/Samouil_Farhi.jpg)
Samouil Farhi, PhD
![Ernest Fraenkel, PhD](https://chanzuckerberg.com/wp-content/uploads/2019/06/Ernest_Fraenkel.jpg)
Ernest Fraenkel, PhD
![Holger Heyn, PhD](https://chanzuckerberg.com/wp-content/uploads/2019/06/Holger_Heyn.jpg)
Holger Heyn, PhD
![Matthias Kretzler, MD](https://chanzuckerberg.com/wp-content/uploads/2019/06/Matthias_Kretzler-1.jpg)
Matthias Kretzler, MD
![Joshua Levin, PhD](https://chanzuckerberg.com/wp-content/uploads/2019/06/Joshua_Levin.png)
Joshua Levin, PhD
![Thierry Voet, PhD](https://chanzuckerberg.com/wp-content/uploads/2019/06/Thierry_Voet.jpg)
Thierry Voet, PhD
Collaborators
![Menna Clatworthy, MBBCh, PhD, FRCP](https://chanzuckerberg.com/wp-content/uploads/2019/06/Menna_Clatworthy-1.jpg)
Menna Clatworthy, MBBCh, PhD, FRCP
![Anna Greka, MD, PhD](https://chanzuckerberg.com/wp-content/uploads/2019/06/Anna_Greka.jpg)
Anna Greka, MD, PhD
![Aviv Regev, PhD](https://chanzuckerberg.com/wp-content/uploads/2019/06/Aviv_Regev-2.jpg)
Aviv Regev, PhD
![Orit Rozenblatt-Rosen, PhD, MSc](https://chanzuckerberg.com/wp-content/uploads/2019/06/Orit_Rozenblatt-Rosen.jpg)
Orit Rozenblatt-Rosen, PhD, MSc
![Sarah Teichmann, PhD](https://chanzuckerberg.com/wp-content/uploads/2019/06/Sarah_Teichmann-2.jpg)
Sarah Teichmann, PhD