Our Technology – In Situ Analysis

Learn how you can apply our technology to your research.

In Situ analysis is an innovative method of nucleic acid analysis performed directly in situ on the tissue section, preserving spatial information.

Our newly developed In Situ technology allows researchers to analyze either fresh/fixed frozen or FFPE samples and rapidly create single-cell gene expression maps of up to hundreds of genes.  The technology ensures high performance (high specificity and high throughput) and reliable, reproducible data.

“Single cell transcriptomics has enabled molecular understanding of the fundamental building block of life now its time to take the next step and understand how these building blocks act together in tissues and organs, which is the functional unit of animals.

Let’s go from molecular cell biology to molecular tissue biology!”

-Professor Mats Nilsson, P.h.D, Science For Life Laboratory, Stockholm University

Next generation In Situ technology

Our In Situ technology contains padlock probes that enable highly specific in situ library preparation of up to hundreds of different RNA sequences.

Library Preparation

The highly specific padlock probes will hybridize to the RNA corresponding to your genes of interest.

The closed circle is then copied locally by a DNA polymerase in a rolling circle amplification (RCA) reaction. This generates a spot of the detected RNA transcript that includes multiple copies of the in situ barcode sequence corresponding to the detected gene at the original position of the RNA target.

Imaging cycles & Decoding

Barcodes are decoded from target-specific spots generated during the library preparation.

  • Decoding starts with the hybridization of the 1st adapter probe pool to the spots and binding of the fluorescently labeled sequencing pool probes to the adapter probes.
  • After imaging, the signal is removed to perform the next cycle.
  • Once all cycles are analyzed, each spot provides a unique fluorescent barcode identifying the targeted RNA.
Tissue Map

Our In Situ technology results in a map of gene expression of selected genes while preserving tissue morphology.

spatial genes expression of fresh frozen human breast cancer sample

In Situ analysis of 31 transcripts in fresh frozen human breast cancer samples using In Situ technology.