The CHI team demonstrates highly specialized expertise in a diverse portfolio of cutting-edge technological platforms including cell isolation, biobanking, single cell and bulk genomics, high parameter cytometry, and proteomics. Specifically, the CHI staff specializes in the following technological platforms and their associated computational analyses:
Single Cell and Bulk Genomics
- CITE-seq on blood and tissue samples to characterize transcriptomic profiles and expression of more than 100 cell surface proteins simultaneously.
- ATAC-seq (often alongside CITE-seq within a single experiment) to assess chromatin accessibility and transcriptome profiling.
- Single-cell RNA-seq for transcriptomic profiling in cellularly diverse samples.
- Immuno-profiling by TCR and/or BCR sequencing.
- CHI Genomics Unit Capabilities Sheet
High Parameter Cytometry and cell sorting
- Up to 40-color spectral flow cytometry for precision immunophenotyping of PBMC, T-cell subsets, and specific tissues.
- Mass cytometry using Helios CyTOF instrumentation and stimulation assays to simultaneously assess 8 phospho-pathways in 20 cell populations.
- Flow sorting to enrich rare and antigen specific populations for single cell sequencing.
- CHI Flow Cytometry Unit Capabilities Sheet
Proteomics
- The aptamer based SomaLogic SomaScan® assay to profile expression of 11,000 proteins from small volume samples of plasma, serum, CSF, urine, and more.
Bioinformatics
- NGS, Flow, and SomaScan Data QC and analysis.
- Transcriptomics data analysis for single-cell RNA-seq, CITE-seq, and Bulk RNA-seq.
- Epigenetics data analysis for ChIP-seq and ATAC-seq.
- Genomics data analysis for whole genome and exome variant calling.
- Functional analysis for GO enrichment, Gene set enrichment, Pathway analysis, DNA motifs, and integration.
- Computational pipelines for large-scale analysis and distribution, and Shiny apps.
- Multi-omics analysis and data integration.