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RNA Sequencing

Standardized and validated services
that are enabling discovery.

Not sure which RNA sequencing approach is right for you?

Our Project Scientist team is happy to walk through the different options for your experiment. We take into consideration sample quality, quantity, and experimental goals to select the approach that will help address your needs.

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Concerned about performing RNA extraction?  Don’t have the time or bandwith to optimize extraction conditions? Contact your Project Scientist and ask them to add RNA extractions to your project.

Standard Sequencing Fully Analyzed in Just Three Weeks

With Cofactor’s Production-Grade sequencing, you can access our most popular protocols at the lowest prices and
fastest turnaround times. From total RNA QC to data delivery – you’ll see results in three weeks with all of the offerings listed below.

Scroll down for more information on each protocol.

Production-Grade Sequencing Products

Product Name Catalog Number Description Price per Sample
mRNAble CFG001-30CFG001-60 Standard mRNA sequencing & analysis, 30 million single-end readsStandard mRNA sequencing & analysis, 60 million single-end reads $485$785
Total RNAble CFG002-40CFG002-70 Ribosomal-depletion/total RNA sequencing & analysis, 40 million single-end readsRibosomal-depletion/total RNA sequencing & analysis, 70 million single-end reads $625$828
picoRNA CFG003-30CFG003-60 Low-input mRNA sequencing & analysis, 30 million single-end readsLow-input mRNA sequencing & analysis, 60 million single-end reads $670$925
FFPExact CFG004-40CFG004-70 Whole transcriptome fragmented RNA sequencing & analysis, 40 million single-end readsWhole transcriptome fragmented RNA sequencing & analysis, 70 million single-end reads $725$925
miRNAble CFG005-10 miRNA sequencing & analysis, 10 million single-end reads $410
RNAccess CFG006-30CFG006-60 Coding-region focused human RNA sequencing & analysis, 30 million single-end readsCoding-region focused human RNA sequencing & analysis, 60 million single-end reads $695$975
RNAmplify CFG007-40CFG007-70 Ultra low-input/low-quality RNA sequencing & analysis, 40 million single-end readsUltra low-input/low-quality RNA sequencing & analysis, 70 million single-end reads Contact UsContact Us
RNAdvantage* CFG008-80 Fusion detection + Comparative Expression RNA-sequencing & analysis, 40 million paired-end clusters, 80 million total reads $1500

Samples must meet minimum quality and quantity requirements. Total RNAable includes samples from human, mouse, and rat only. Please contact us to discuss other sample types for this Catalog Number. Maximum sample number of 24 for 3 week turnaround; Minimum sample number of 10 for price listed. All offerings above include single-end 75 bp sequencing and full comparative expression analysis, unless otherwise noted. All products listed above are for research use only.  *RNAdvantage requires 4 week turnaround due to additional analysis time required.

Don’t see the experimental design you need? We’re happy to discuss customized experimental design solutions with you.

Need RNA extraction added to your Project? Let us know!

Looking for our immune profiling assay?
Visit the Cofactor ImmunoPrism page. 

RNAble

Standard RNA Expression Characterization

Can you confidently extract 1 μg of RNA with a RIN score of 7 or greater? Then our standard RNA-seq approach is the right choice for you.

mRNAble

poly(A) enrichment of mRNA species in your samples

 

  • Focus your sequencing reads on coding regions of the transcriptome
  • Make the most of your analysis with transcript annotation
  • Excellent approach for non-model organisms

Total RNAble

Depletion of ribosomal species allows for analysis of non-coding species

 

  • Allows for the analysis of lncRNA and non-polyadenylated species
  • More forgiving molecular approach able to accommodate some sample degradation
  • Access the breadth of your sample’s transcriptome
  • Ideal for model organisms (human, mouse, and rat)

All projects include Cofactor’s molecular quality control checkpoints at each stage in the molecular workflow, and full comparative expression analysis delivered via the ActiveSite interface.

For research use only.

RNA Sequencing
picoRNA

Low-input RNA Expression Characterization

Precious biological samples resulting from:

  • Laser capture microdissection (LCM)
  • Low numbers of sorted cells
  • Fine needle aspirate biopsies (FNAs)
  • Other small snap-frozen tissue biopsies

often yield very minimal, yet high-quality RNA (< 250 ng).

Cofactor has developed a robust amplification protocol, coined picoRNA, to allow unbiased interpretation of transcriptome data from as low as 10-20 cells (100 pg of RNA).

Our picoRNA offering ensures:

  • Minimized amplification bias
  • Focused analysis of mRNA/poly-adenylated species
  • Accurate representation of the transcriptome, even at low input

With this approach you can avoid pooling biological replicates, interrogate previously inaccessible low-input samples, and trust the picoRNA results from your samples.

 

For research use only.

RNA Sequencing
FFPExact

Low-quality RNA Expression Characterization

With the vast majority of patient samples and clinical archives stored as formalin-fixed and paraffin embedded (FFPE) tissue blocks, a reliable solution for chemically-modified and fragmented RNA from FFPE is required.

For samples with >250 ng of RNA, our FFPExact pipeline first evaluates RNA fragmentation via DV200 analysis, then applies standardized library prepara­tion protocols to guarantee reproducible, interpreta­ble results from these valuable samples.

FFPExact delivers:

  • Non-biased analysis of fragmented RNA
  • Minimization of reads lost to ribosomal content
  • Access to valuable clinical archives and patient samples

Think your FFPE samples won’t yield >250 ng of total RNA? Afraid your low-input samples may be fragmented or degraded? Request our RNAccess protocol. 

 

For research use only.

RNA Sequencing
RNA Sequencing
miRNAble

Small RNA Expression Characterization

Standard RNA-seq experiments use size selection steps which do not retain small RNA molecules.  In order to ensure this information is accessed, fragment size monitoring and size selection is required. Cofactor’s small RNA characterization is optimized for total RNA samples*, which streamlines sample delivery for you.

Cofactor’s miRNAble ensures:

  • Enrichment of small RNA molecules including miRNA, snoRNA, and more
  • Economical read depth (10 million reads) ensures high coverage of desired molecules
  • Annotation using comprehensive database and comparative expression analysis

*Note: Total RNA must be extracted using an approach that retains small RNA. Please contact us to discuss appropriate extraction methods.

 

For research use only.

RNA Sequencing
RNAccess

Interrogate Samples with both Low-input and Low-quality

Cofactor is pleased to offer RNAccess, an approach focused on the coding-regions of the human transcriptome. Developed to accommodate samples with both lower-input and lower-quality, this protocol is ideal for FFPE archived samples from biobanks or retrospective studies. Akin to a whole exome sequencing approach, this protocol pairs well with WES data for characterizing the most important regions of the transcriptome.

 

Cofactor’s RNAccess approach delivers:

Focused coding-region coverage of the transcriptome

High-quality libraries from as low as 20 ng of input material

Input tailored protocol accommodates the fragmentation level of each sample

 

This protocol is suitable for human samples only. Ideal for FFPE clinical archives and other low quality samples.

 

For research use only.

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RNAmplify

Interrogate Rare Clinical Archives with Low-input and Low-quality RNA

Developed for the most challenging human samples, especially where other approaches have failed, Cofactor’s RNAmplify accepts low ng qauntities of RNA for ribosomal reduction. This whole-transcriptome approach provides total RNA content for comparative expression.

 

Cofactor’s RNAmplify approach delivers:

  • Whole-transcriptome coverage for rare clinical archives and FFPE materials
  • High-quality libraries from low ng quantities of input material
    • Viable approach for seemingly impossible-to-analyze materials

 

 

For research use only.

Core-Needle Biopsy and Laser-Capture Microdissected Tissues

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RNAdvantage

Fusion + Comparative Expression from a single sample

RNAdvantage is a coding-region focused RNA-seq protocol optimized for:

High-sensitivity fusion detection with minimization of false negatives

Exon-level annotation of gene fusions from the COSMIC database

Comparative expression characterization of the coding-regions of the transcriptome

 

RNAdvantage accepts:

RNA from fresh-frozen or formalin-fixed paraffin embedded (FFPE) human samples

High, moderate, and low quality samples (evaluated via DV200)

RNA from rare clinical archives with only a few FFPE sections available

 

Don’t compromise your results by having to interrogate fusions and expression separately.

With Cofactor’s RNAdvantage, you’ll gain significant insights using a single RNA sample.

This protocol is suitable for human samples only.

 

For research use only.

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RNA-seqDx

CAP-Validated Assays

Does your translational or clinical project require higher regulatory oversight? Then our clinical assay offerings are right for you.

RNA-seqDx

Survey the entire transcriptome to provide a broad look at a patient’s disease state.

ImmunoPrism

Quantitatively measure 8 key immune cells in solid tumor samples from as little as two FFPE sections.

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Learn more about our other offerings.

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