The mission of the HCEMM Single Cell Omics ACF is to provide high quality multi-omics services to HCEMM research groups, academia and industrial partners.

The facility is equipped with high resolution mass spectrometers suitable for a broad range of proteomics applications including protein identification, relative protein quantification, phosphorylation analysis, and identification of protein interacting partners using co-immunoprecipitation. Characterization of purified proteins, de novo peptide sequencing, protein crosslinking experiments and molecular mass determination of purified single-protein samples are also available upon request. High-pH chromatographic fractionation for more comprehensive analysis of complex biological samples is also available. We also provide assistance in study design and perform data analysis and storage.

As a unique service in Hungary, we also offer comprehensive shotgun lipidomic analysis with identification and quantification of hundreds of lipid species including principal phospholipid, sphingolipid and neutral lipid classes. The chip-based robotic delivery system ensures cross contamination-free, high throughput measurements from a wide variety of samples such as yeasts, insects, cell cultures, several tissues, organs and biofluids. We provide both absolute and relative quantifications of the lipidome from sample amounts routinely processed in the everyday laboratory and clinical practice but downscaling to a few cells is also possible.

Finally, we offer single cell transcriptomics services. With the implementation of 10X Chromium technology in our core facility we are able to analyze 3’ transcriptome gene expression at single-cell resolution, targeting thousands of cells simultaneously. This innovative single cell technology is used in combination with Illumina next generation sequencing and it has advantages over conventional bulk sequencing in its ability to detect rare cell types, uncover tumor heterogeneity, trace lineages, discover drug-resistant cell populations, and characterize complex cell populations such as immune cells in peripheral blood. This high-throughput single-cell sequencing solution is highly suitable for larger projects that require data for a few thousand cells per sample. The method currently is optimized in our laboratory for 3’ transcriptome profiling of cultured cells, but it has the potential to extend in the near future for other applications such as single cell fixed RNA profiling, single cell immune profiling, or single cell ATAC.