Canopy Biosciences is an emerging life science company located in the Cortex Innovation District of St. Louis, Missouri. Founded in 2016 by industry veterans in biomedical research and genetic engineering, Canopy has successfully identified cutting-edge technologies from some of the world’s most respected academic institutions and rapidly brought them to market as innovative products and services.


Turning discoveries into products

Our product portfolio is a result of our strategic approach to identify great discoveries, validate results, and quickly commercialize products and services that will make an immediate impact on today’s biomedical research.

Gene Editing

Simplify gene editing by providing the
latest tools, custom kits, and full-service
cell line engineering

Gene Expression

Innovative technologies for high
throughput analysis of gene expression

Bioprocessing

Highly-reproducible, broad coverage
kits for HCP detection

CHIP CYTOMETRY AND MULTI-OMIC SERVICES

  • CRISPR Cell Line Services
  • Microbiome Sequencing Service
  • NanoString Gene Expression Services
  • RNA Seq Services
  • RareSeq™ Error Corrected NGS Service
  • CLIA Certified Services (FISH)
  • IHC Services for CLIA Laboratories
  • Nucleic Acid Extraction Services
  • ChipCytometry

find out more below:

CRISPR CELL LINE SERVICE

Have a project perfect for our CRISPR Complete Kit but need a CRISPR cell line service to perform the editing? No problem–Canopy Biosciences offers a comprehensive custom CRISPR cell line service based on the CRISPR-Cas9 system. Just tell us your target gene and the mutation that you want to make, and with our CRISPR cell line service, we’ll make the knockout, knock-in, point mutation, or other modification in your favorite cell line.

ABOUT THE CRISPR-CAS9 SYSTEM

The CRISPR-Cas9 system relies on two components—a targeting domain (sgRNA–orange) and a nuclease domain (Cas9–blue). This system allows for the generation of double-stranded breaks, at highly specific and targeted sites within the genome. Harnessing the cell’s own natural repair mechanisms, we can cause frameshift mutations leading to gene knockout or provide a template for the cell to repair from leading to targeted insertions.

Image credit: Ding Y, Li H, Chen L-L and Xie K (2016) Recent Advances in Genome Editing Using CRISPR/Cas9. Front. Plant Sci. 7:703. doi: 10.3389/fpls.2016.00703

crispr diagram

STEP 1: FILL OUT OUR PROJECT EVALUATION FORM.

Canopy’s team of cell line engineers will evaluate the feasibility and scope of your project and provide a formal quotation

Fill out our project evaluation form here.

STEP 2: CHOOSE FROM ONE OF OUR CELL LINES OR SHIP US YOURS.

We’ll evaluate your cell line’s amenability for gene editing.

STEP 3: CANOPY WILL CUSTOM-DESIGN AND VALIDATE REAGENTS.

All reagents needed to perform your project, including CRISPR guide RNAs and donors for insertion projects, will be custom-designed for your project.

STEP 4: CANOPY WILL PERFORM THE GENE EDITING.

Canopy will nucleofect your cells with the editing reagents, screen cell pools for modifications, single cell dilute, and screen and identify clones containing your desired mutation.

STEP 5: EDITING COMPLETE!

Following clonal expansion, Canopy will return you your cell line, tailored with your exact modifications.

CELL LINES AVAILABLE

Canopy has experience editing >80 different cell lines, including popular lines such as HEK-293HCT-116NIH 3T3K562, and HeLa, as well as ES cells and iPSC. Have a unique or highly specialized line? No problem—simply send your line to us and we will characterize the line to see if its amenable to gene editing.

PROJECT TYPES AVAILABLE

  • Gene Knockout
  • Targeted Deletion
  • Codon Change
  • Targeted Integration
  • Point Mutation
  • Gene Tagging
  • . . . and more

EZ Species:

Microbiome Sequencing Service

 

  • Easily ID the bacterial composition of your sample, down to the species level
  • Achieve shotgun sequencing quality data with the efficiency of 16S sequencing

Go beyond the genus

Standard 16S rRNA hypervariable region sequencing and analysis is only specific enough to yield genus level sample identification, leaving important taxonomic information on the table.

EZ Species achieves identification resolution down to the species level

A Hybrid Approach

Combining multiplex PCR amplification with high-throughput sequencing of multiple regions of the genome captures advantages of both shotgun sequencing and 16S rRNA profiling while providing lower costs and higher accuracy

Dynamic Algorithm assures accuracy

Our unique algorithm queries data against 2 databases for assured accuracy: a curated 16S rRNA variable region database and a dynamic, experimental specific sub-database of predicted species level amplicons. Once species calls are made, abundance of each can be calculated.

EZ SPECIES MICROBIOME ID

EZ SPECIES MICROBIOME SEQUENCING SERVICESPackages start at up to 48 samples; Sequencing and bioinformatics analysis to identify microflora present down to the species level and provide abundance estimates

NanoString Services from Canopy Biosciences

A service provider that gives you more.

  • Premium Interactive Data Analysis package
  • Nucleic acid expertise
  • Experience with both off-the-shelf and custom panels
  • Professional technical support and customer service
  • Sample-to-data in 3 weeks!*

*depending on project complexity and # of samples, but most projects are completed in 3 weeks

Why choose NanoString technology?

NanoString nCounter gene expression assays hit the sweet spot of analysis and throughput. With ~800 genes surveyed per sample, quantitative results, a robust and forgiving technology, gene expression analysis using NanoString gives you more.

Faster than qPCR. Simpler than NGS.

Traditional RNA analysis requires conversion and amplification reactions which can introduce bias, error and variability. With NanoString’s direct digital counting, you can count the native RNA present in a sample. Quantitative measurement of changes in gene expression- Faster than qPCR, a simpler workflow than NGS.

Reproducibility in poor quality samples

Even highly fragmented, low quality FFPE samples provide highly correlated data with NanoString’s nCounter assays. This robust technology has been shown to be reproducible across multiple sites, multiple users and multiples lots of reagent. Unlock the important clinical and research data in this challenging sample type by analyzing the expression of up to 800 genes per sample.

Ordering is Easy!

1. SELECT YOUR GENE PANEL

Choose from one of the predesigned panels or design your own

2. TELL US ABOUT YOUR SAMPLES

  • Sample type (isolated RNA, FFPE, blood, etc)
  • Number of samples
  • Species

3. CHOOSE YOUR DATA ANALYSIS PACKAGE

Raw and normalized data is included in your NanoString run; or you can select our premium Interactive Data Analysis Package

RNA Seq Services

Sequencing RNA provides both abundance and sequence information yielding a deep understanding of gene expression.

RNA Seq services from Canopy Biosciences are designed to be collaborative and customer friendly so your focus is on your data.

Our approach to RNA Seq projects is customer centric with consultative discussion on study goals, sample type, and best library prep methodology for your experiment.

Service Offerings

Canopy Biosciences recognizes the complex nature of RNA Seq experiments, so we approach each project with a collaborative intent. However, to kick off the experimental design, we’ve launched 3 package offerings: mRNA Seq, Total RNA Seq and FFPE RNA Seq. To start a conversation with a scientist about your experiment, fill out a project inquiry.

Sequencing

Sequencing coverage, or read depth, is an important variable of any RNA seq experiment. It refers to the number of unique reads that include a nucleotide in the reconstructed sequence; the average number of times a base is read.

In RNA seq, this indicates the sequence but also the frequency of the RNA molecule, giving way to expression level analysis. Our goal is to design your experiment with optimum read depth.

can-sequencing-frequency

Differential Gene Expression Analysis

We have a custom bioinformatics pipeline that demultiplexes and analyzes sequencing data. As part of our service, differential expression analysis is performed to assess differences between experimental groups. Gene Ontology (GO) terms and KEGG pathways are annotated, noting critical genes. Changes within these genes are calculated, clustered and the expression profile is created. The statistical significance of these expression changes is then determined.

Interested in the Differential Gene Expression Analysis pipeline?

Data Analysis Report

What to do with all this data? RNA seq experiments result in large complex data sets including sequencing fastq files and bioinformatics pipeline files. Let us sort through it and provide an organized report highlighting the sequencing run, the comparison data between your treatment groups, significant changes in gene expression and pathway analysis. Once you know where to focus, you can dig into the raw data yourself- but we’ve given you a starting point.

RareSeq™

A complete service offering for error corrected sequencing

Increase the sensitivity of your NGS experiment 100X to discover what you’ve never been able to measure. RareSeq™ sample prep methodology and NGS data analysis service is now available, giving researchers the accuracy and sensitivity they’ve been looking for.

Separate the Signal from the Noise

Standard NGS methodology introduces errors during PCR and the sequencing workflow. These errors result in noise that makes it challenging to differentiate between errors and true variants. RareSeq™ NGS data analysis services uncovers these true variants.

RareSeq™ eliminates the noise

How it Works

We use a proprietary unique molecular index strategy combined with a custom bioinformatics pipeline to identify ultra-rare variants- down to 1:10,000. Sequencing errors are corrected by aligning reads sharing the same UMI. RareSeq™ NGS data analysis service eliminates false positives while maintaining the highest level of sensitivity on the market.

Ultra-sensitive and Quantitative

Detect and quantitate previously undetectable mutations in heterogeneous DNA with RareSeq™. Quantitative to a variant allele frequency (VAF) of 1:10,000, RareSeq™ is a highly reproducible and sensitive to identify indels and SNVs.

Accuracy and Precision

The error rate of NGS has been reported to be between 1-3%. Ensuring variant detection is accurate, RareSeq™ is validated by ddPCR demonstrating the high degree of correlation in identified variant allele fractions (VAFs).

HISTOPATHOLOGY & IHC SERVICES BY BOARD-CERTIFIED PATHOLOGISTS

We offer typical pathology services such as tissue processing, paraffin embedding and sectioning, but our core competency lies in our board-certified pathologists, who review slides, score tumors and guide macrodissections. We develop and perform custom IHC and enzyme assays as well as routine stains. Our suite of services include:

  • Tissue processing, grossing, paraffin embedding, and sectioning
  • Routine and special stains
  • Pathologist review of slides
  • Pathology guided microdissection for nucleic acid isolation
  • Pathologist slide scoring and tumor content marking
  • Assay development

We employ open IHC platforms to develop, test and validate custom protocols using new or client provided antibodies. Our IHC services are performed in our CLIA laboratory using client transferred protocols or ones developed in-house under customer direction for the analysis of research and clinical trial samples. All assay development and validation studies are guided by our board-certified pathologists.

CLINICAL FLUORESCENCE IN SITU HYBRIDIZATION (FISH) SERVICES

We offer a broad menu of FISH and mutational analysis tests spanning a wide spectrum of solid tumors including breast, prostate, colon, lung, brain and cervical cancers. With BioView’s Allegro™ fluorescent imaging system and Solo™ workstation for FISH analysis, we can provide novel and routine FISH assay development, optimization and validation. This imaging system makes capture and transfer of images to clients easy and seamless.

We also specialize in assay scoring guideline creation and molecular cytogenetic strategy development. In partnership with Advanced Cell Diagnostics, we offer RNA in-situ hybridization assays for the detection of both coding and non-coding RNA. For a complete list of our clinical tests, contact us

MUTATIONAL ANALYSIS

We develop molecular strategies for mutational analysis by designing and executing assays utilizing real-time PCR and Sanger sequencing. Our BioMark™ HD system from Fluidigm’s microfluidics platform is ideal for gene fusion analysis, SNP genotyping and copy number variation assays.

We also offer services for development and validation of gene expression assays on ABI real-time PCR systems.

Our combined suite of platforms coupled with our experience in pathologist-directed recovery of nucleic acid samples from slides enables us to use multiple platforms to identify and characterize mutations.

NANOSTRING® NCOUNTER GENE EXPRESSION ASSAYS

Canopy Biosciences and Core Diagnostics have both been premier providers of NanoString Services. As an early adopter of the technology in our CLIA certified lab, we have been performing assays on the nCounter platform since 2014 and are recognized as a service lab provider by NanoString. In partnership with NanoString, we have been trained to offer all of the technologies they list on their website.

  • Gene Expression panels
  • Protein panels
  • DNA Panels (SNV and CNV assays)
  • miRNA panels

NanoString’s nCounter instrument offers digital quantification of RNA based on color-coded barcodes. This enables high throughput analysis of hundreds of genes in a single sample and the limited hands on time allows us to run thousands of research and clinical samples.

NUCLEIC ACID EXTRACTION SERVICES

Our team has experience and in-depth knowledge in how to isolate nucleic acids from a wide variety of samples. Tumor areas of FFPE sections delineated by our board-certified pathologists, DNA and RNA isolation from slides, extraction from clinical patient blood samples for NanoString gene expression assays are just a few examples of isolations common to our CLIA certified lab. Our menu of RNA extraction services includes common sample types as well as complex clinical samples.

  • blood
  • fresh frozen
  • FFPE
  • Serum and plasma
  • Cell pellets

With the combination of our histopathology services, nucleic acid isolation, and gene expression analysis, Canopy is your partner for research and clinical biomarker analysis and immune profiling.

VALIDATED IHC ASSAYS

  • Bcl6
  • HER2
  • c-MyC
  • CD10
  • CD117/c-Kit
  • CD11
  • CD138
  • CD15
  • CD163
  • CD19
  • CD1a
  • CD20
  • CD21
  • CD22
  • CD23
  • CD24
  • CD3
  • CD30
  • CD31
  • CD34
  • CD4
  • CD43
  • CD44
  • CD45
  • CD5
  • CD56
  • CD57
  • CD68
  • DC7
  • CD79a
  • CD8
  • CD99
  • CDX2
  • CyclinD1
  • EGFR
  • ERG
  • ERG-2
  • ER
  • FoxP3
  • GATA-3
  • GLUT-1
  • HSP70
  • HIF-1alpha
  • IGF-1R
  • Inhibin, Alpha
  • Ki67
  • Ki67 + Caspase3
  • L26 + CD3
  • CD45RB
  • MLH-1
  • MSH-2
  • MSH6
  • Oct-2
  • Oct-3/4
  • p21
  • p53
  • p63
  • PAX-5
  • PAX-6
  • PAX-8
  • PCNA
  • PD-1
  • PD-L1
  • UCHL-1 phosho
  • EGFR phosho
  • Histone M3
  • PR
  • PTEN
  • PU-1
  • Rb
  • SOX-2
  • Topo II
  • TRIM29
  • TTF-1
  • VEGF
  • WT-1
  • ZAP-70

If you do not see your marker, let us know and we will develop an assay for you.

Analysis and Scoring by Board Certified Pathologist

  • Traditional 0, 1, 2, 3 scoring
  • H-scoring
  • Develop scoring criteria and guidelines

Flexible sample types and comprehensive sample processing capabilities

  • Tissue in fixative
  • FFPE Blocks
  • Un-stained FFPE and Frozen Slides
  • Fresh Frozen Tissue

Experience with multiple tissue types including tissue arrays

  • Human or mouse
  • No tissue, no problem! Tissue procurement service also available

Single or multiplexed assays

  • Dual or triplex chromogenic assays
  • Looking for high plex staining? Check out our Chip Cytometry service

Custom or already optimized assays

  • H&E staining
  • Routine assays for important markers such as Ki67, CD4, and CD8
  • Any assay from our list
  • Custom assay development

Immunohistochemistry (IHC) Services in CLIA Laboratory

IHC services for research or clinical trial samples in our CLIA-certified laboratory, reviewed by board-certified pathologists.

NEXT STEPS

Canopy is a premier service provider of several gene expression technologies including NanoString nCounter, RNA & DNA sequencing. Let us help you with your next project!

Quality assured

It’s been established how important the extraction step is to downstream workflows. But what’s also critical is the methodolgy to QC the extracts. Across the multiple Canopy Biosciences lab facilities, we employ a variety of technologies to accurately QC the isolation we’ve performed. Armed with this information, and our extensive experience in genomic assays, we can work with you on downstream experiments.

Trusted results, accurate read outs, knowledgeable next steps.

Experience that matters

Canopy Biosciences has a proven track record of quality and expertise in extraction services in conjunction with our NanoString and RNA Seq portfolio. Now, it is available as a stand-alone service!

We have experience with a variety of samples including:

  • Tissue: Fresh frozen, FFPE, preserved in RNAlater
  • Blood: PAXgene, Tempus, preserved in RNAlater, preserved in RNAprotect
  • Cells: frozen, lysis buffer, preserved in RNAlater
  • Dual DNA/RNA extractions from tissue, cells or FFPE
  • Plasma, serum, urine
  • And more!

Why outsource extractions?

Nucleic acid isolation lies at the beginning of any molecular biology workflow and this step is integral to the success of downstream assays. Ensuring that RNA and DNA extractions are done correctly with the highest yield and nucleic acid integrity is imperative. Choose an experienced partner for this critical step.

Nucleic Acid Extraction Services

Quality, Expertise, and Flexibility

  • Fast turn around time
  • Experience with a variety of sample types
  • Stringent QC post extraction
  • Easy submission process and constant communication
  • Custom protocol capabilities

CHIPCYTOMETRY

Precise Spatial Multiplexing

ChipCytometry combines high-quality imaging with advanced image analysis software to enable a truly quantitative measure of each marker in your assay for every individual cell in your sample.

High-plex Spatial Immunology

ChipCytometry enables quantitative measure of virtually unlimited protein biomarkers on the same sample. With our innovative serial multiplexing, you can build your assay from the ground up and re-interrogate your sample for additional markers at a later point in time.

From Image to Dot Plot

Convert image data into quantitative flow-like dot plots and phenotype each cell in your sample individually—whether it is a tissue sample or PBMCs.

Quantify the Toughest Markers

Easily quantify both low-expressing and high-expressing protein biomarkers in the same sample with digital HDR imaging.

Open-Source Reagents

The ChipCytometry platform is built on commercially available, fluorescently labeled antibodies. No need for tricky, proprietary conjugation chemistry—use the clones you already know.

Validated Antibodies

ChipCytometry offers a number of pre-validated targets for immunology, oncology, and neurobiology applications. Download the ChipCytometry Validated Targets list.

Instrumentation

The ZellScannerONE is a benchtop imaging system that allows you to bring the power of ChipCytometry to your lab.

Clinical Services

Take your clinical trial to the next level with Canopy Bioscience’s Clinical Service Team. With our ChipCytometry clinical service, you can perform deep phenotyping on tissue samples or PBMCs from clinical trial patients.