Spatial Transcriptomics Services
GENE EXPRESSION & SUBCELLULAR LOCALIZATION OF mRNA TRANSCRIPTS
Spatial transcriptomics services enable researchers to effectively map gene expression within the context of the makeup of tissue. Subsequently, this technology allows scientists to analyze spatial patterns. Thus, science is able to identify which genes are being expressed and in which specific area of the tissue this expression is active. Furthermore, this spatial context provides valuable insights into tissue organization.
SeqMatic delivers advanced molecular profiling and spatial transcriptomics services to enhance gene expression studies on a regular basis. Moreover, the SeqMatic services enable the classification of tissue based on total mRNA. Additionally, when working with FFPE or fresh frozen tissues, the SeqMatic spatial transcriptomics services effectively map the complete transcriptome while preserving crucial morphological context. In fact, this preservation of context is essential for accurate analysis.
Scientists across various fields actively advance their research with SeqMatic’s spatial transcriptomic services. Specifically, these applications range from developmental biology studies to disease pathology investigations. Finally, the technology has proven invaluable in clinical translational research applications, particularly in understanding disease mechanisms.
Available Spatial Gene Expression Workflows:
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Visium
The Visium Spatial Gene Expression platform employs PolyA capture technology, making it versatile across species and free from bias. SeqMatic also offers the Visium CytAssist platform, which uses specialized probes to sequence both fresh frozen tissue and FFPE samples from human and mouse specimens.
Diagram description: In a Visium direct placement workflow, a fresh frozen tissue section is placed onto a Visium gene expression slide and imaged for histological purposes (either H&E for morphological context, or IF for protein co-detection). Each Capture Area on a Visium slide has an array that captures mRNA. The spatial barcodes are added to the mRNA. The libraries are then sequenced and data visualized to determine which genes are expressed, and where, as well as in what quantity.
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CytAssist
The spatial transcriptomics platform Visium CytAssist has a pre-set of probes (human or mouse) which allows the use of fresh frozen or FFPE tissue sections. The advantage of automation is that it uniformly distributes and transfers the probe set and provides consistency within the workflow. Custom probe sets can also be designed for use with the assay.
Learn more about SeqMatic’s CytAssist Services.
Diagram description: The Visium CytAssist workflow begins on a standard glass slide, where researchers perform sectioning, tissue preparation, and either H&E or IF staining, followed by imaging. Next, after probe hybridization, two standard glass slides and a Visium slide with two Capture Areas are placed in the CytAssist instrument so that the tissue sections on the standard slides can be aligned on top of the Capture Areas. Within the instrument, a brightfield image is captured to provide spatial orientation for data analysis, followed by hybridization of transcriptomic probes to the Visium slide. The remaining steps, starting with probe extension, follow the standard Visium workflow outside of the instrument.
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Histopathology
SeqMatic expertly processes frozen and formalin-fixed paraffin-embedded (FFPE) tissues while also providing custom processing solutions for single stain chromogenic and immunofluorescent services. Through these services, the company helps customers optimize and validate antibodies, then generates detailed scans and comprehensive reports.
Service Capabilities
Specifications
Service Capabilities
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Serial sections taken from a mouse brain FFPE sample and processed with the Visium Spatial for FFPE assay demonstrate high reproducibility, both in clustering and total unique molecular identifiers (UMIs) detected |
Specifications
- Compatibility: Human or mouse FFPE blocks, or pre-sectioned FFPE or fresh frozen (FF) tissues
- High cellular resolution: Each Capture Area contains either 5,000 (6.5 x 6.5 mm) or 14,000 (11 x 11 mm) barcoded spots that are 55 µm in diameter (100 µm center to center between spots, providing an average resolution of 1 to 10 cells per spot)
- Sensitive detection: RTL probe chemistry ensures high specificity and sensitivity
- Whole transcriptome analysis: Profile the whole transcriptome in entire human and mouse tissue sections (18,000 human and 21,000 mouse genes)
The SeqMatic Difference
Expert NGS
The SeqMatic approach starts with proven genomic workflows and proprietary controls that have been refined and optimized over the past decade to deliver considerably more data than Illumina specifications.
Expert NGS
The SeqMatic approach starts with proven genomic workflows and proprietary controls that have been refined and optimized over the past decade to deliver considerably more data than Illumina specifications.
View MoreConscientious Attention To Detail
We learn about the goals of our customer’s scientific research and the type of sequencing data that would be most beneficial to their project.
Conscientious Attention To Detail
We learn about the goals of our customer’s scientific research and the type of sequencing data that would be most beneficial to their project.
View MoreTailor-made Services with Fast TAT
Then we modify our workflow to target those specific reads. Couple that effort with world class turnaround time.
Tailor-made Services with Fast TAT
Then we modify our workflow to target those specific reads. Couple that effort with world class turnaround time.
View MoreOptimal Solutions to Research Needs
This application of best science, higher quality data, more read depth per lane, and fast delivery makes SeqMatic an exceptional partner and value per research dollar spent.
Optimal Solutions to Research Needs
This application of best science, higher quality data, more read depth per lane, and fast delivery makes SeqMatic an exceptional partner and value per research dollar spent.
View MoreGet Your Results
Optimal solutions are custom-made according to research needs
Pre-Submission
Planning & Consultation - Assurance of de-identified sample submission and handling
Sample Submission
Nucleic Acid Extraction - We accept a wide range of sample types
Library Preparation
Library Generation - Amplified cDNA is used for sequence libraries' construction
Sequencing
Different platforms for different data outputs
Data Analysis
Custom BioInformatics