The Genomics Core provides resources to BRI and external investigators for genomics analysis, from sample processing through data generation, as well as basic bioinformatics analysis, provided by our Bioinformatics Core Team. Currently available technologies focus on Illumina RNA and DNA sequencing. RNA-seq can be performed from a variety of sample types, including purified total RNA, cell populations (including low input samples of 50-1000 cells), or single cells (either plate-sorted rare populations or high-throughput 10x single-cell analyses). DNA-seq pipelines can also be performed, including bulk CUT&Tag/CUT&RUN, and ATAC-seq and single cell ATACseq and multiome capture. Custom prepared libraries can also be submitted for sequencing.

The Core laboratory houses three Illumina sequencers, two NextSeq2000 instruments and a Miseq, plus a 10x Chromium X and a 10x CytAssist. The Chromium X is able to run GEM-X assays on fresh cells and Flex assays on fixed cells. The CytAssist works to perform spatial profiling using Visium HD technology.

Additional equipment includes a ThermoFisher Kingfisher Flex, for extracting nucleic acid from a variety of sample types using magnetic bead technology with a throughput of up to 96 samples. Two Qiagen QIAcube Connect instruments automate extraction of nucleic acid using spin column technology. Ancillary equipment for sample processing includes a Formulatrix Mantis Liquid Handler, an Agilent TapeStation 4200 (to measure RNA/DNA integrity and size), and a Tecan NanoQuant (for high throughput sample quantitation).

The Human Immunophenotyping (HIP) core at the Benaroya Research Institute (BRI) provides access to cutting-edge technologies and services enabling study of human immune-mediated diseases.

We offer expertise in human immunology along with innovative assays and state-of-the-art technology. We specialize in robust, high-parameter single-cell assays utilizing conventional, spectral, and mass cytometry (CyTOF), which can be paired with sophisticated genomic and bioninformatic analyses through our connections with other outstanding BRI cores. Other services include, but are not limited to, cell sorting, short-term in vitro assays, DNA/RNA extraction, qPCR, and ELISA or multiplex protein analysis (Luminex).

We tailor our support to meet the unique needs of each researcher. A full spectrum of services is available, from guidance on study design and training on new technologies through to execution, data analysis and interpretation. The HIP core serves investigators from BRI and Virginia Mason Medical Center (VMMC) as well as other institutions, including both non- and for-profit organizations.

The Cell and Tissue Analysis (CATA) Group at the Benaroya Research Institute offers an extensive array of flow cytometry, imaging, and histology resources for both BRI investigators as well as external research entities.

Spread over three floors at the BRI, the CATA Group strives to provide researchers with consistent and dependable access to cutting-edge technologies. With expertise in the fields of imaging, histology, and flow cytometry, we seek to not only offer the physical space and machines necessary to carry out your work but also critical support through the whole process, from hands-on training to experiment design and data analysis.