Download GeneAssist™ Pathway Atlas - Thermo Fisher Scientific

PRODUCT BULLETIN GeneAssist™ Pathway Atlas
GeneAssist™ Pathway Atlas
www.ambion.com/tools/geneassist
•
Learn how your protein is involved in
different cellular pathways
•
Find the interrelationships between
proteins in a pathway
•
Over 350 different pathways are
currently available
•
Illustrations show molecular
interactions and cellular compartments
• View
gene, disease, and product
information by selecting proteins within
the illustration
•
Quickly and easily find and
order Silencer® siRNAs and the
corresponding TaqMan® Gene
Expression Assays
The GeneAssist™ Pathway Atlas.
From Products to Proteins
Cell signaling, metabolic, and disease pathway maps are becoming increasingly
intricate as more genes and proteins are mapped to cellular functions. As a result,
there is a growing need to understand which pathways involve certain genes, as
well as the interrelationships between the proteins within those pathways. The
GeneAssist™ Pathway Atlas meets these demands by providing more than 350
interactive pathway maps along with detailed gene and protein information for
each protein in the pathway. For easy product ordering, an interface is included
which reports the recommended Silencer® siRNAs for gene silencing and the
corresponding TaqMan® Gene Expression Assays.
Search or Browse by Pathway
Inside GeneAssist™ Pathway Atlas, you will find more than
350 easy-to-understand signal transduction, metabolic and
disease state pathway maps. The pathways can be browsed
alphabetically by name or searched using keywords or gene
identifiers such as Entrez Gene ID, gene name, gene symbol, or
NCBI transcript accession number (Figure 1). Once a pathway
is selected, the results are presented in the Pathway Map
illustration showing all proteins known in the pathway and their
interactions in the appropriate cellular compartments (Figure
2). On this page, you will also find a link to an overview of the
pathway with references (Figure 3, Pathway Overview Page).
Detailed Gene and Protein Information
From the Pathway Map, just click on any protein or protein
complex to access the Protein and Gene Information page
containing the corresponding protein and gene identifiers,
Silencer®siRNAs, and TaqMan® Gene Expression Assays. The
example in Figure 4 shows the detailed information for the
Protein Family: HRas, KRas2, NRas, RRas, MRas, RRase2.
At the top of the page is general information on the genes.
Choosing “Gene ID” or one of the “Transcripts” listed takes
you to the relevant NCBI information pages. As shown in
Figure 5, the “Disease Information” link reveals details on the
protein and its role in various disease processes along with the
relevant references.
Select Gene-specific Products
On the right of the Protein and Gene Information page is the
product ordering information for Silencer® siRNAs and TaqMan®
Gene Expression Assays corresponding to the selected gene.
To simplify the product selection process, three siRNAs and
a single TaqMan Gene Expression Assay are recommended
for each gene, and can be added to an online shopping basket
directly from this page. Where available, validated siRNAs are
listed with links to the validation data. These siRNAs have been
empirically tested and proven to knock down expression of
the target gene. In many cases, more than three siRNAs and a
single TaqMan Gene Expression Assay are available for a given
target. These products can be accessed by clicking on the
“Show Additional siRNAs” or the “Show Additional Assays”,
respectively.
View siRNA Target and TaqMan Primer/Probe Binding Sites
To view the siRNA target and/or TaqMan primer and probe
binding sites along the gene transcript, select the “View
Alignment Map” link. This brings up an interactive graphical
representation of the gene of interest (Figure 6). The default
option shows RefSeq transcripts; however, you can also view
GenBank mRNAs, giving you the freedom to identify siRNAs
and assays that target non-RefSeq transcripts.
Figure 1. Search/browse by pathway, gene name, ID, symbol or NCBI
transcript.
Figure 2. Pathway Map Page.
Figure 3. Pathway Overview Page.
Figure 4. ProteinGene Information Page.
Link to disease information page (yellow)
Links to NCBI Entrez (orange)
Order Online
Products selected within the GeneAssist™ Pathway Atlas
are simply added to an Applied Biosystems shopping basket.
If you already have an existing Applied Biosystems basket
in progress, you have the option to add those items to that
basket (select “Append to Existing Basket”), or create a new
basket. After you are finished selecting your siRNAs and
TaqMan® Gene Expression Assays, you can continue shopping
on the Applied Biosystems website for most Ambion and
Applied Biosytems products, and then check out all your items
together in a convenient, single transaction.*
*Please note that the online ordering basket within GeneAssist™ is an
Simplify Gene Silencing Experiments
Silencer ® Pre-designed siRNAs
• Ready to use siRNAs for human, mouse, and rat genes
• Searchable database makes it simple to find siRNAs to
your genes of interest
• Efficient gene knockdown guaranteed
Find Silencer Pre-designed siRNAs and corresponding
TaqMan® Gene Expression Assays on the web at
www.ambion.com/info/siRNA.
Applied Biosystems basket, and not an Ambion basket. Items ordered
on the Ambion website outside of the GeneAssist™ tool go through
a separate checkout process and cannot be combined with a new or
existing Applied Biosystems basket.
Verify Gene Silencing
Figure 5. Disease Information Page.
TaqMan® Gene Expression Assays
• Gene-specific TaqMan® probe and primer sets for
quantitative gene expression studies in human, mouse,
rat, Rhesus, C. elegans, Drosophila, and Arabidopsis
• Convenient single tube format and 20X formulation
• Universal thermal cycling conditions
Find TaqMan Gene Expression Assays and corresponding
Silencer siRNAs for your genes of interest at
www.allgenes.com.
Figure 6. Alignment Map Box .
For research use only. Not for use in diagnostic procedures.
Ambion siRNA products are manufactured under license from the
Massachusetts Institute of Technology to U.S. Patent Nos. 7,056,704
and 7,078,196 and pending counterparts, and is provided for research or
educational purposes only.
ORDERING INFORMATION
Description
Quantity
Silencer ® Pre-designed siRNA, standard purity
20 nmol
AM16704
Silencer ® Pre-designed siRNA, standard purity
5 nmol
AM16708
Silencer Pre-designed siRNA, standard purity
(when 3 or more are purchased to the same target)
5 nmol
AM16708A
Silencer ® Pre-designed siRNA, HPLC purified
40 nmol
AM16804
Silencer ® Validated siRNA, standard purity
5 nmol
AM51331
Silencer Validated siRNA, standard purity
20 nmol
AM51333
TaqMan ® Gene Expression Assays (Inventoried)
250 x 20 µL rxns
®
®
Part Number
4331182
Silencer® siRNAs and TaqMan® Assays - Proven Performance. Proven Together.
With RNA interference, you can elucidate gene function in a matter of days using the most
complete suite of premium quality reagents available for RNA experiments from Applied
Biosystems and Ambion, an Applied Biosystems Business.
Our potent, pre-designed siRNAs, optimized qRT-PCR gene expression assays and reagents
and the protocols provided with them, streamline each step of an RNAi experiment. The
result? Reduced technical variability in your experiments, full technical support across you
RNAi application, and freedom to focus on making critical biological discoveries!
For more information, order “Using siRNAs to Delineate Gene Function: A Step-by-Step
Guide” on-line at www.ambion.com/litreq or contact your local sales representative. Ask
for 137AP01-01.
For Research Use Only. Not for use in diagnostic procedures.
© Copyright 2007, Applied Biosystems. All rights reserved. Applied Biosystems and AB (Design) are registered trademarks and GeneAssist is a trademark of Applera Corporation
or its subsidiaries in the U.S. and/or certain other countries. Ambion and Silencer are registered trademarks of Ambion, Inc., an Applied Biosystems Business in the U.S. and/or
certain other countries. TaqMan is a registered trademark of Roche Molecular Systems.
Printed in the USA, 01/2007 Publication 137PB22-01
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