A major upgrade has arrived for the CosMx® Spatial Molecular Imager (SMI). The new CosMx SMI 2.0 upgrade enhances both the instrument software and the AtoMx® Spatial Informatics Platform (SIP) analysis workflow, delivering significant improvements in sensitivity, speed, and single-cell segmentation accuracy. Together, this upgrade sets a new standard for high fidelity single-cell spatial transcriptomics.
After the CosMx 2.0 update, CosMx instruments demonstrate up to a 2x increase in RNA detection efficiency across all commercial RNA assays. This includes both 1K and 6K targeted panels and enables more transcripts to be detected per cell. Learn more about the CosMx software update in our video demo of new features.
Transcripts per cell detected by the original CosMx SMI release (dark blue) vs the CosMx SMI 2.0 update (light blue) from three different tissue types and two different RNA assays.
Whole Transcriptome Enablement
The CosMx 2.0 update also supports the CosMx Whole Transcriptome (WTX) assay, making CosMx the first and only spatial platform to image the entire protein-encoding transcriptome inside every single cell. Our new WTX technology lets you reveal complete biology with subcellular whole transcriptome imaging for uncharted discoveries. The WTX assay is now shipping—learn more or request a quote today.
Faster Time to Result
CosMx 2.0 delivers faster time to result than the original CosMx SMI release. This is true across all of the CosMx RNA assays, with our newest WTX assay providing 19x more gene coverage than our 1K assay with only twice as much instrument time.
Turnaround times for key CosMx RNA panels.
Enhanced Cell Segmentation Accuracy
AtoMx SIP will include Bruker-trained AI models for cell segmentation, improving delineation of single-cell boundaries and increasing precision in transcript assignment. Paired with the CosMx software update, these technology advancements deliver unmatched performance for high fidelity single-cell spatial transcriptomics.
“A historic milestone in the study of spatial biology.”
– Dr. William Hwang, MD, PhD
Assistant Professor at Harvard Medical School
Same‑Slide Multiomics Workflow
Following the software update, the CosMx platform will also support same-slide analysis of the whole transcriptome and up to 72 immuno-oncology proteins with single-cell resolution. Researchers studying tumor heterogeneity, immune microenvironments, and pathway-driven disease processes will benefit directly from the same-slide multiomics capability, which will be available in late 2025.
Access to the CosMx SMI 2.0
This integrated software upgrade is available at no cost for users with active service contracts. Contact your local FAS or email support.spatial@bruker.com for more information.
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