PRODUCT BULLETIN
TaqMan® Non-coding RNA Assays
TaqMan® Non-coding RNA Assays
Specific and reproducible quantification of long non-coding RNA transcript
expression levels
• Assays are based on proven TaqMan®
Assay technology and use the existing
assay design pipeline
• Enable specific and reproducible
quantification of long non-coding RNA
expression levels
• Available for human, mouse, and rat
species
Non-coding RNA
Non-coding RNAs (ncRNAs) are RNAs
that are transcribed from the genome but
are not translated into proteins. Although
much of the protein-coding portion of the
transcriptome has been extensively studied
and characterized, ncRNAs represent a
largely open and undiscovered area that
has tremendous potential to advance
understanding of cell regulatory and disease
mechanisms. Some estimates indicate
that up to half of all transcription in human
and mouse may result in non-coding RNAs
(Mattick 2005, Science).
Non-coding RNA has been implicated in a
broad variety of cellular functions, including
transcriptional regulation, messenger
RNA stability and translation, epigenetic
regulation, and assembly of macromolecular
complexes. Based upon these functionalities, this class of RNA can be broken into
two main categories:
• Regulatory ncRNAs (e.g., miRNA, piRNA,
Xist)
• Structural/housekeeping ncRNAs (e.g.,
tRNA, snRNA, rRNA)
The regulatory ncRNA category can be
further subdivided according to ncRNA
size. Long ncRNAs are transcripts that are
longer than 200 nucleotides, distinguishing
them from small regulatory RNAs such as
microRNAs (miRNAs). Having genomic tools
to better characterize and profile these long
ncRNAs will help elucidate their involvement
in cellular regulatory networks and disease
etiology.
TaqMan® Non-coding RNA Assays
TaqMan® Non-coding RNA Assays help
enable specific and reproducible quantification of long ncRNA expression levels. These
assays are based on proven TaqMan® Assay
technology, leveraging the existing Applied
Biosystems® TaqMan® Gene Expression
Assay design pipeline to generate gold
standard assays to accurately detect ncRNA
targets. Only Applied Biosystems offers
TaqMan® Assays for measuring expression of
long ncRNAs.
Table 1 shows the number of available
TaqMan® Non-coding RNA Assays for human,
mouse, and rat species. New assays will
continually be added to the collection.
Table 1. Available numbers of TaqMan® Non-coding
RNA Assays for human, mouse, and rat.
Species
# of Assays
Human
14,074
Mouse
10,441
Rat
Total
47
24,562
As of January 2010
Assay Design and Selection
TaqMan® Non-coding RNA Assays are
designed using design algorithms similar
to those used for TaqMan® Gene Expression
Assays. One of the main differences
between our gene expression assays and
the new non-coding RNA assays is that
the non-coding assays were designed to
only detect non-coding transcript targets.
In contrast, coding assays are designed to
detect one or more coding transcripts of the
same gene. Annotation for the new assays
comes from NCBI and the RNAdb (http://
research.imb.uq.edu.au/rnadb/), the most
comprehensive non-coding RNA database
available. In addition, to help facilitate the
microarray validation workflow, we have
designed a number of assays for transcripts
that are available on Invitrogen™ NCode™
Non-coding RNA Arrays.
Workflow
As with the TaqMan® Gene Expression Assays
collection, new TaqMan® Non-coding RNA
Assays can be used with or without preamplification. Figure 1 shows examples of
workflows with recommended master mixes
and reagents.
I. No Preamp
1. RT
2. Real-time PCR
cDNA
Total RNA
II. Preamp
High Capacity
RNA-to-cDNA Kit
TaqMan® Gene Expression
Master Mix (2X)
1. RT
2. Preamp
cDNA
Total RNA
(<125 ng)
High Capacity
RNA-to-cDNA Kit
Non-coding RNA Assays in
384- or 96-well plates
3. Dilution
3. Real-time PCR
PCR 14 cycles
Pooled 96 assays +
TaqMan® PreAmp
Master Mix (2X)
TaqMan® Gene
Expression
Master Mix (2X)
Non-coding RNA Assays in
384- or 96-well plates
Figure 1. TaqMan® Non-coding RNA Assay Workflow Options.
Finding and Ordering TaqMan® Non-coding
RNA Assays
TaqMan® Non-coding RNA Assays can be
searched for on the Applied Biosystems website (www.appliedbiosystems.com/ncRNA)
using a search interface similar to that of
TaqMan® Gene Expression Assays. Users can
search for non-coding assays, gene expression assays, or all assays (Figure 2).
Figure 2. TaqMan® Non-coding RNA Assays Use an Online Search Interface Similar to That of TaqMan® Gene
Expression Assays.
ORDERING INFORMATION
Description
# of 20 µL reactions
TaqMan Non-coding RNA Assays
®
Part Number
360
4426961
750
4426962
2,900
4426963
For more information or to order TaqMan® Non-coding RNA Assays, visit www.appliedbiosystems.com/ncRNA.
For Research Use Only. Not intended for any animal or human therapeutic or diagnostic use.
Practice of the patented 5’ Nuclease Process requires a license from Applied Biosystems. The purchase of TaqMan® Non-coding Assays includes an immunity from suit under patents
specified in the product insert to use only the amount purchased for the purchaser’s own internal research when used with the separate purchase of an Authorized 5’ Nuclease Core
Kit. No other patent rights are conveyed expressly, by implication, or by estoppel. For further information on purchasing licenses contact the Director of Licensing, Applied Biosystems,
850 Lincoln Centre Drive, Foster City, California 94404, USA.
Trademarks of Life Technologies Corporation and its affiliated companies: AB Logo™, Applied Biosystems®, Invitrogen™, NCode™. TaqMan is a registered trademark of Roche Molecular
Systems, Inc.
© 2010 Applied Biosystems. All rights reserved. Printed in the USA. 01/2010 Publication 127PB23-01 B-086997
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