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RNA Research

Optimized Tools to Improve Downstream Results for RNA-Seq, cDNA Synthesis, RT-PCR, and Microarrays

Most Sensitive RNA Gel Stain

EMBER™ Ultra RNA Gel Kit offers unrivaled sensitivity for routine RNA gel staining

Measure RNA Integrity

EMBER500™ RNA Prestain Loading Dye is a much brighter and more convenient RNA gel stain than EtBr

RNA Quantitation

AccuBlue® RNA Quantitation Kit offers selective RNA quantitation over a wide linear range of 5-1000 ng

Extract RNA from FFPE Tissue

Extract RNA with a higher RIN score, higher DV200, and in higher yields for downstream NGS, RT-PCR, or microarray analysis.

Extract RNA from Fresh Tissue

Simple spin column-based extraction workflow yielding up to 120 μg of RNA from fresh cells or tissues.

Extract Total RNA from EVs

Optimized kit for extracting total RNA, including mRNA and miRNA, from purified extracellular vesicles.

Eliminate RNase Activity

RNase-X™ Decontamination Solution effectively eliminates RNase contamination on work surfaces to protect precious RNA samples.

Detect RNase Contamination

RNaseReveal™ Activity Assay Kit offers reliable and sensitive detection of RNase activity in liquid samples.


For RNA-Seq, cDNA Synthesis, RT-PCR, & Microarrays

The Most Sensitive RNA Gel Stain Available

The EMBER™ Ultra RNA Gel Kit provides the highest sensitivity and resolution for visualizing RNA on an agarose gel. The kit is designed as an improved and more sensitive alternative to the EMBER500™ RNA Prestain Loading Dye. The kit is available in a convenient pre-coated agarose format and does not need a post-electrophoresis staining step.

  • Easy-to-use pre-coated agarose format for RNA gel electrophoresis
  • Superior sensitivity, detect as little as ≤5 ng RNA
  • No need for post-electrophoresis staining
  • Includes formamide in the loading dye
  • Optimal for blue LED gel imagers and compatible with UV imagers

See the Difference

Comparison of EMBER™ Ultra RNA Gel (left) with 1% agarose gel post-stained with SYBR® Gold. NEB ssRNA Ladder or total Jurkat cell RNA were denatured at 70°C for... See More
Five-fold dilutions of ssRNA Ladder from NEB (200 ng to 12.5 ng per lane) were separated on a 1% agarose/1X TBE gel using the EMBER™ Ultra RNA Gel Kit. The gel ... See More

Sensitive RNA Prestain Loading Dye

Evaluate RNA Integrity & Purity

Staining RNA with ethidium bromide (EtBr) requires a significant amount of the dye yet still offers very limited sensitivity for RNA when prestaining or post-staining gels. EMBER500™ was developed by Biotium scientists to offer much brighter signal and higher sensitivity than EtBr for RNA gel electrophoresis, allowing users to use less RNA sample to quickly verify RNA is free from degradation and DNA contamination.

 

  • Sensitive: Brighter and much more sensitive than EtBr, allows use of less RNA sample
  • Convenient: Denature, load, track and stain RNA samples in a single step on a regular agarose gel
  • Versatile: Stains both DNA and RNA for evaluating total RNA integrity and DNA contamination
  • Flexible Detection: Detect with UV transilluminators or blue LED gel imagers
Human total cellular RNA in water was mixed with EMBER500™ RNA Prestain Loading Dye or loading dye with 250 ug ethidium bromide (EtBr). Samples were heated for ... See More

Accurate RNA Quantitation For Qubit® Or Microplate Reader

AccuBlue® Broad Range RNA Quantitation Kits

  • Convenient: Wide linear range spans
    Qubit®/Quant-iT™ HS and BR ranges
  • Selective: Can tolerate equivalent amounts of dsDNA (see Figure 2 below)
  • Flexible: For fluorescence microplate reader or small fluorometer like Qubit®
  • Accurate: The mammalian-derived total RNA standard provides the highest accuracy when quantifying samples from similar sources
The AccuBlue® Broad Range RNA Quantitation Kit boasts a wide linear range (5 ng–1000 ng RNA), while providing exceptional accuracy, sensitivity, and RNA selectivity. It is ideal for use in quantifying RNA for sensitive applications such as Next-Gen Sequencing (NGS) or reverse transcription PCR (RT-PCR). Unlike absorbance-based measurements, AccuBlue® RNA Quantitation Kit is highly selective for single-stranded RNA over double-stranded RNA or DNA, and accurately quantifies short ssRNA such as miRNA.

Selective Fluorescence-Based RNA Quantitation

The AccuBlue® Broad Range RNA Quantitation assay has a linear range of 5-1000 ng RNA in a fluorescent plate reader, a wider range than similar assays.
The AccuBlue® Broad Range RNA Quantitation Kit is highly selective for RNA over dsDNA. This figure shows that it can tolerate an equal amount of dsDNA without a... See More

Extract More Amplifiable RNA from FFPE Tissues

FFPE samples or other formalin-fixed tissue are a challenge for RNA extraction, often resulting in low yields and poor performance for downstream applications such as RT-PCR and next-generation sequencing (NGS). Most existing extraction methods rely on high heat to remove crosslinks and adducts, which are only partially effective and lead to additional fragmentation. The CELLDATA RNAstorm™ 2.0 FFPE RNA Extraction Kit uses proprietary CAT5™ catalytic technology, built on research initiated at Stanford University, to remove formaldehyde damage without harsh conditions. The result: higher RNA yield, better RIN, and superior DV200 scores—key for RNA-seq success.

Try RNAstorm™ 2.0 FFPE RNA Extraction Kit

The CAT5™ catalytic technology in the CELLDATA RNAstorm™ 2.0 FFPE RNA Extraction Kit yields more amplifiable RNA for better RT-PCR, microarray, and NGS results. The superior quality of RNAstorm™-derived RNA has been demonstrated by a higher RIN score, higher yield, higher DV200—identified by an Illumina tech note as the best predictor of RNA-seq success—plus improved alignment. Get more from your FFPE samples.

  • Novel CAT5™ technology for chemical reversal of formaldehyde crosslinking
  • Offers higher yields of RNA over competitor FFPE extraction kits
  • Yields RNA with higher integrity and less fragmentation for improved downstream analysis
  • Milder conditions that don’t require high temperatures or harsh solvents
  • Easy to follow spin column-based workflow
Comparison of RNA recovery by quantitative RT-PCR from FFPE tissues. “Q” represents a competitive commercial FFPE extraction kit.
Increased DV200 values are observed for RNA extracted using the RNAstorm™ kit relative to a popular commercial kit. The DV200 represents percentage of RNA with ... See More

More Options for Magnetic Beads & DNA Extraction

The CELLDATA RNAstorm™ 2.0 FFPE RNA Extraction Kit is also available in a magnetic bead-based format that can be adapted for multiwell plates. A combination kit that includes the CELLDATA™ DNAstorm 2.0 FFPE DNA Extraction Kit is also available for extracting both DNA and RNA.

High Quality RNA from Fresh Cells & Tissues in Minutes

RNAstorm™ Fresh Cell and Tissue RNA Isolation Kit

The CELLDATA RNAstorm™ Fresh Cell and Tissue RNA Isolation Kit allows extraction of high quality total RNA from cultured cells or fresh tissue in as little as 20 minutes. High yields (up to 120 μg) can be obtained using a simple and quick column-based protocol. Contaminating DNA is removed using a DNase treatment step, and the protocol avoids toxic chemicals such as phenol or chloroform.

  • High Yield: Yields up to 120 μg of total RNA
  • Rapid & Simple: 20 minute spin-column workflow, no phenol-chloroform or precipitation
  • Versatile Downstream Analysis: High quality RNA for RNA-Seq, RT-PCR, cDNA synthesis, or microarrays
Total RNA was extracted from 107 Jurkat cells, mouse liver tissue (~8 mg) and calf liver tissue (~17 mg) using the RNAstorm™ RNA Isolation Kit and a ... See More

Efficient Total RNA Extraction from Purified EVs

ExoBrite™ EV Total RNA Isolation Kit

The ExoBrite™ EV Total RNA Isolation Kit was designed to address the challenges of EV RNA extraction by offering an optimized and easy-to-use kit for total RNA isolation, including mRNA and miRNAs, from purified EVs. The isolated EV RNA can then be used for downstream analysis such as qPCR or RNAseq.

 

  • Developed for EVs: Optimized for total RNA extraction from purified EVs
  • High-Yields: Recover ~10-20 ng of RNA from 1×1010 SEC-enriched EVs
  • Downstream Analysis: Suitable for applications such as qPCR or RNAseq
  • Easy: Simple column-based purification with no phenol/chloroform or ethanol precipitation steps
The ExoBrite™ EV Total RNA Isolation Kit was used to extract RNA from 6 x 10^10 EVs (derived from Jurkat cells, isolated by SEC) and a total yield of 100 ng RNA... See More

Eliminate RNase Activity with RNAse-X™

Protect Precious RNA Samples with RNase-X™

RNase-X™ Decontamination Solution, provided in a convenient spray bottle, is a ready-to-use cleaning agent for removing RNase. It features an optimized formulation for maximum removal of RNase to protect precious RNA samples during purification, quantitation, amplification, and other analytical workflows. The solution may be applied to benchtops, pipets, tip boxes, equipment, and outside of reaction vessels such as microfuge tubes.

  • High-Performance: Effectively eliminates RNase contamination on work surfaces
  • Versatile: Ideal for cleaning benchtops, pipettors, and other tools
  • Convenient: Provided in a ready-to-use spray bottle
  • Cost-Effective: Excellent performance at a lower cost compared to RNaseZap™

RNase-X™ effectively removes RNase from surfaces

RNase-X™ effectively removes RNase from surfaces. To simulate RNase-contaminated surfaces, the insides of microfuge tubes were left untreated (water), or coated... See More
Analysis of RNase activity in the final water washes using the RNaseAlert™ assay from IDT.

Sensitive Detection of RNase Activity

Ideal for QC Workflows or Detecting Contamination

Reliably detect RNase activity in liquid samples with the RNaseReveal™ Activity Assay Kit. Featuring a highly optimized buffer and substrate for maximum sensitivity, the RNaseReveal™ Activity Assay Kit is an ideal solution for control quality workflows or for detecting RNase contamination in solutions to be used with RNA work.

The substrate can be detected by any fluorescence plate reader or fluorometer capable of detecting green fluorescence. Biotium also offers RNase A (Cat. No. 99871-600uL) for use with this kit.

A dilution series of RNase A (Cat. No. 99871-600uL) was prepared and 800 pg down to 0.08 pg was tested in the RNaseReveal™ assay. The lowest amount of RNase A (... See More

 

  • Reliable RNase Detection: Exceptional sensitivity, as little as ~0.08 pg RNase
  • Rapid: Simple 40 minute assay
  • Versatile: Suitable for handheld fluorometer or fluorescence plate reader

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FAQs

FFPE-derived RNA is much more challenging to quantitate accurately than RNA obtained from fresh samples. It is not enough to know the absolute amount of RNA that is present, but also whether the RNA will work in downstream applications, which depends on the following factors:

  • Fragment size distribution: a 5 µg sample (as measured by Qubit) can be useless for RNA-Seq if it consists of fragments < 200 nt.
  • Chemical modification: for RNA obtained from formalin-fixed samples, various chemical adducts and crosslinks, including base modifications, base-base crosslinks, and base-protein crosslinks can make nucleic acid molecules inaccessible to enzymes and therefore inactive in downstream applications.
  • Contamination: cellular debris, proteins, salts, and detergents used during purification can bias downstream assays. For example, UV/Vis-based methods such as Nanodrop are particularly susceptible to contaminants that absorb in the 200-280 nm range.
  • Fluorescence-based methods such as Qubit are liable to significant error. When working with low concentrations of DNA or RNA, dye-based detection may not be linear. One must also be mindful of contamination by genomic DNA in an RNA sample because the dyes used for fluorescence quantitation are not entirely specific for FFPE-derived DNA or RNA.
  • Quantitative PCR is the preferred method for quantitation of heavily damaged and modified nucleic acids.

The assays can be scaled down for 384-well plates. Scale the volumes of all reagents and DNA proportionally. The ratios of DNA, dye, and enhancer (if applicable) should remain the same as in the standard 96-well protocol. However, using less than 200 uL reaction in a 96-well plate may result in lower signal.

The RNAstorm™ FFPE and DNAstorm™ FFPE extraction kits include a recommended Deparaffinization Reagent. Unlike other common methods (e.g., xylenes), the Deparaffinization Reagent is efficient, non-toxic, and does not require the use of a fume hood. In our testing, the included reagent is at least as effective as xylenes at removing paraffin and allowing purification of high-quality nucleic acids.

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