Shop All Synthetic RNAi Controls

Silencer™ Select Negative Control No. 1 siRNA (Invitrogen™)

The Silencer® Select Negative Control No. 1 siRNA is a non-targeting negative control siRNA with the same chemical modifications for enhanced efficacy as in other Silencer® Select siRNAs. Properties of Silencer® Select control siRNAs:

• Validated siRNA controls for optimizing siRNA experiments
• GAPDH Positive Control functionally tested in several common cell lines
• Negative Controls functionally proven to have minimal effects on cell proliferation and viability
• Include Silencer® Select modifications for enhanced specificity
• For use in human, mouse, and rat cells

What are Silencer® Select siRNAs?
Silencer®Select siRNAs are our next-generation siRNAs. These siRNAs incorporate the latest improvements in siRNA design, off-target effect prediction algorithms, and chemical modifications to yield siRNAs with unrivalled efficacy, potency, and specificity. The result is fewer failed experiments due to poor silencing, and cleaner, more consistent phenotypic data.

Silencer® Select Negative Control siRNAs
Negative control siRNAs—siRNAs with sequences that do not target any gene product—are essential for determining the effects of siRNA delivery and for providing a baseline to compare siRNA-treated samples. We have designed and extensively tested two Silencer® Select Negative Control siRNAs. These siRNAs include the same modifications for reducing off-target effects as found in other Silencer® Select siRNAs and have no significant sequence similarity to mouse, rat, or human gene sequences. These negative control siRNAs have been tested by microarray analysis and shown to have minimal effects on gene expression. In addition, these two controls have been tested in multi-parametric, cell-based assays and are proven to have no significant effect on cell proliferation, viability, or morphology in the cell lines tested.

Quality control
We synthesize and purify each Silencer® Select siRNA in state-of-the-art facilities to meet the highest-quality standards. As part of our rigorous quality control procedures, each RNA oligonucleotide is analyzed by MALDI-TOF mass spectrometry, and analytical HPLC is used to monitor purity. To provide the utmost in quality, we also assess each annealed siRNA by gel electrophoresis to confirm that the strands anneal properly. The result is premium-quality siRNA that is purified and ready to use.

BLOCK-iT™ Fluorescent Oligo, for electroporation (Invitrogen™)

BLOCK-iT™ Fluorescent Oligo provides:

• A strong, easily detectable FITC signal indicating transfection efficiency
• Chemical modifications for a clearer, more persistent cellular signal than labeled siRNA
• Proven correlation of transfection efficiency with Stealth RNAi™ siRNA and traditional siRNA molecules

This makes the BLOCK-iT™ Fluorescent Oligo an ideal indicator of transfection efficiency for RNAi experiments. BLOCK-iT™ Fluorescent Oligo is available in two configurations: one designed for lipid-mediated transfection (2 x 125 µL) at 20 µM and one designed for electro-poration (75 µl) at 1 mM.

Silencer™ Select GAPDH siRNA (Invitrogen™)

Ambion® Silencer® SelectGAPDH Positive Control siRNA, In Vivo Ready is extensively validated and an ideal control for many aspects of an siRNA experiment. The control is highly purified as required for animal use. 250 nmol is provided.

• Premium-quality siRNA, highly purified and ready to use
• Functionally tested in several common cell lines
• Include Silencer® Select modifications for enhanced specificity
• For use in human, mouse, and rat cells

What are Silencer® Select siRNAs?
Silencer® Select siRNAs incorporate the latest improvements in siRNA design, off-target effect prediction algorithms, and chemical modifications to yield siRNAs with unrivalled efficacy, potency, and specificity. The result is fewer failed experiments due to poor silencing, and cleaner, more consistent phenotypic data.

Silencer® Select GAPDH Positive Control siRNA:
The Silencer® SelectGAPDH positive control is extensively validated and an ideal ´test´ siRNA for those just beginning siRNA experiments, because it is validated to work in multiple cell lines. Because it targets GAPDH mRNA (a common internal control), many assays are available to measure its effects, including real-time RT-PCR as well as the Ambion® KDalert™ GAPDH Assay Kit.

Quality Control:
Silencer® Select siRNAs are manufactured in a state-of-the-art facility under the highest quality standards. Rigorous quality control procedures include MALDI-TOF mass spectrometry analysis and analytical HPLC to monitor purity. Each siRNA is also assessed by gel electrophoresis to confirm that the strands anneal properly. Furthermore, In Vivo Ready siRNAs undergo additional purification with a semipermeable membrane to remove excess salt. This is followed by sterile filtratation and endotoxin testing. At concentrations of 50 µM in deionized water, In Vivo Ready siRNAs contain. <0.6 mM Na+, <2.0 mM K+, and <0.1 mM Mg2+. Silencer® Select siRNA controls have specific chemical modifications; they are designed to be used with Silencer® Select siRNAs. If you are using other siRNA products, such as BLOCK-iT™ siRNAs, Ambion® Silencer® siRNAs, or STEALTH RNAi™ siRNAs, we recommend that you use control siRNAs designed for use with those siRNAs for more reliable experimental results.

Ambion™ In Vivo Negative Control #1 siRNA (Invitrogen™)

Ambion® In Vivo siRNA Controls
• Validated siRNA controls for optimizing siRNA experiments targeting coding and noncoding transcripts
• Positive Control siRNAs functionally tested in several common cell lines
• Negative Controls functionally proven to have minimal effects on cell proliferation and viability
• Include Silencer® Select modifications for enhanced specificity or Ambion® In Vivo modifications for increased stability
• For use in human, mouse, and rat cells

What are Ambion® In Vivo siRNAs?
Ambion® In Vivo siRNAs are designed using the proven Silencer® Select algorithm and incorporate chemical modifications for superior serum stability with in vivo delivery. The added serum stability does not compromise the performance of the siRNAs. Ambion® In Vivo siRNAs have been shown to be non-toxic in vivo (mouse) and non-immunogenic (cell-based assays). In cell-based assays, Ambion® In Vivo siRNAs exhibit equivalent or better potency than Silencer® Select siRNAs. The result is better confidence in your in vivo RNAi experiments, better knockdown when paired with an efficient delivery solution, and the assurance of limited non-specific effects.

Negative Control siRNAs
Negative control siRNAs—siRNAs with sequences that do not target any gene product—are essential for determining the effects of siRNA delivery and for providing a baseline to compare siRNA-treated samples. Ambion® In Vivo siRNAs and have no significant sequence similarity to mouse, rat, or human gene sequences. These negative control siRNAs have been tested by microarray analysis and shown to have minimal effects on gene expression. In addition, these negative control siRNA has been tested in multi-parametric cell-based assays and are proven to have no significant effect on cell proliferation, viability, or morphology in the cell lines tested.

Quality Control
Ambion® synthesizes and purifies each Ambion® In Vivo siRNA in state-of-the-art facilities to meet the highest quality standards. As part of our rigorous quality control procedures, each RNA oligonucleotide is analyzed by MALDI-TOF mass spectrometry, and analytical HPLC is used to monitor purity. To provide the utmost in quality, we also assess each annealed siRNA by gel electrophoresis to confirm that the strands anneal properly. The result is premium-quality siRNA that is purified and ready to use.

In Vivo Ready Controls
Our "In Vivo Ready" Control siRNAs are subjected to that extra level of purification and testing required for the introduction of siRNAs into animals. After HPLC purification and annealing, each siRNA is further purified utilizing a process that removes excess salt via a semi-permeable membrane. The result is highly pure siRNA with minimal salt content, suitable for in vivo applications. In vivo siRNAs are then sterile filtered, and tested for the presence of endotoxin. At concentrations of 50 µM in presence of deionized water, in vivo Ready siRNAs contain <5.0 mM Na+, <0.06 mM K+, and <0.02 mM Mg2+.

Stealth RNAi™ siRNA Negative Control Hi GC (Invitrogen™)

Stealth RNAi™ siRNA Negative Controls are a great way to measure the effect of your experimental Stealth RNAi™ siRNA duplex versus background. These controls are: –Designed in 3 levels of GC content (Lo, Med, Hi) with 3 sequences available per level so researchers can match GC content to their experimental Stealth RNAi™ siRNA –Not homologous to anything in vertebrate transcriptome –Tested not to induce stress response Stealth RNAi™ siRNA Negative Control Kit contains all three controls (Lo, Med, Hi GC content-excluding sequences #2 and #3) and each is also available separately. Get the ideal negative controls for your RNAi experiment so you can assess your results accurately.

Silencer™ Negative Control No. 2 siRNA (Invitrogen™)

Ambion® Silencer® Negative Control #2 siRNA has no significant sequence similarity to mouse, rat, or human gene sequences. The control has also been tested in cell-based screens and proven to have no significant effect on cell proliferation, viability, or morphology. 40 nmol is provided.

• Nontargeting with limited sequence similarity to known genes
• Validated for use in human, mouse, and rat cells
• Functionally proven to have minimal effects on cell proliferation and viability
• HPLC purified, duplexed, and ready to use

Negative control siRNAs are essential for determining transfection efficiency and to control for the effects of siRNA delivery. In siRNA screening applications, negative control siRNAs are also critical for setting the "hit" threshold that determines whether an siRNA is considered to have a positive, negative, or neutral effect in a particular assay.

Accessory Product: Silencer® siRNA Screening Control Panel (SKU#AM4640)
The Silencer® siRNA Screening Control Panel includes seven negative control siRNAs and is for those researchers performing siRNA screens that employ hundreds or thousands of siRNAs per experiment. Because negative control siRNAs may have unintended effects in a particular assay, a negative control siRNA should be carefully chosen. The Silencer® siRNA Screening Control Panel simplifies this process. As an added benefit, a positive control siRNA to human, mouse, and rat KIF11 (Eg5) is included in the panel. Knockdown of KIF11, which encodes a kinesin family motor protein, leads to mitotic arrest. Silencer® control siRNAs are unmodified 21-mers; they are designed to be used with Silencer® siRNAs, BLOCK-iT™ siRNAs, and other unmodified 21mer siRNAs. If you are using other siRNA products, such as Ambion® Silencer® Select siRNAs or STEALTH RNAi™ siRNAs, we recommend that you use control siRNAs designed for use with those siRNAs for more reliable experimental results.

Anti-miR™ hsa-let-7c miRNA Inhibitor Positive Control (Invitrogen™)

Ambion® Anti-miR™ miRNA Inhibitors are chemically modified, single-stranded nucleic acids designed to specifically bind to and inhibit endogenous microRNA (miRNA) molecules. These ready-to-use inhibitors can be introduced into cells using transfection or electroporation parameters similar to those used for siRNAs. Anti-miR™ let-7c miRNA Inhibitor Positive Control provides a convenient, validated positive control for experiments using Anti-miR miRNA Inhibitors. Endogenous let-7 miRNA negatively regulates HMGA2, a ubiquitously expressed, nonhistone chromatin protein that modulates gene expression through changes in chromatin architecture. When transfected into human and mouse cells, Anti-miR hsa-let-7c miRNA Inhibitor blocks endogenous let-7c miRNA, resulting in increased levels of HMGA2 mRNA.

Accessory Products:
Also available are Anti-miR™ miRNA Inhibitors (SKU #AM17000 and #AM17001). To select your miRNA sequence and order, please visit the GeneAssist™ miRNA Workflow Builder. Anti-miR™ miRNA Inhibitor Negative Control #1 (SKU #AM17010) is a random sequence that has been validated to produce no identifiable effects on known miRNA function. Cy™3 and FAM™ dye-labeled Anti-miR Negative Controls (SKU #AM17011 and #AM17012, respectively) are also available. The Pre-miR™ miRNA Starter Kit (SKU #AM1540) can be used to optimize transfection of Pre-miR™ miRNA Precursors.

Silencer™ GAPDH Positive Control siRNA, in vivo ready (Invitrogen™)

Ambion® Silencer® GAPDH Positive Control siRNA, In Vivo Ready is ideal for developing and optimizing siRNA experiments. The control is validated for use in human cell lines and optimized for mouse and rat. It is highly purified as required for animal use. 250 nmol is provided.
• Validated siRNA controls for optimizing siRNA experiments
• Gene-specific control siRNAs provided with scrambled, negative controls
• Functionally tested in several common cell lines
• HPLC purified, duplexed, and ready to use

Quality Control:Silencer® siRNAs are manufactured in a state-of-the-art facility under the highest quality standards. After HPLC purification and annealing, each siRNA is further purified utilizing a process that removes excess salt via a semipermeable membrane. The result is highly pure siRNA with minimal salt content, suitable for in vivo applications. In vivo siRNAs are then sterile filtered and tested for the presence of endotoxin. At concentrations of 50 µM in deionized water, In Vivo Ready siRNAs contain <0.6 mM Na+, <2.0 mM K+, and <0.1 mM Mg2+. Silencer® control siRNAs are unmodified 21-mers; they are designed to be used with Silencer® siRNAs, BLOCK-iT™ siRNAs, and other unmodified 21mer siRNAs. If you are using other siRNA products, such as Ambion® Silencer® Select siRNAs or STEALTH RNAi™ siRNAs, we recommend that you use control siRNAs designed for use with those siRNAs for more reliable experimental results.

FAM™ Dye-Labeled Anti-miR™ Negative Control #1 (Invitrogen™)

A FAM™ dye–labeled synthetic miRNA inhibitor for miRNA functional analysis. 5 nmol is supplied, purified and ready to transfect. Ambion® Anti-miR™ miRNA Inhibitors are chemically modified, single-stranded nucleic acids designed to specifically bind to and inhibit endogenous microRNA (miRNA) molecules. These ready-to-use inhibitors can be introduced into cells using transfection or electroporation parameters similar to those used for siRNAs. FAM™ Dye Labeled Anti-miR™ Negative Control #1 is a random sequence Anti-miR molecule that has been extensively tested in human cell lines and tissues and validated to produce no identifiable effects on known miRNA function. It is used for monitoring transfection efficiency in transfection experiments using Anti-miR miRNA Inhibitors. The fluorescent label enables direct observation of cellular uptake, distribution, and localization of the control. The molecule is labeled at its 5' end and has the same oligonucleotide sequence as unlabeled Anti-miR™ miRNA Inhibitor Negative Control #1 (SKU #AM17010).

Accessory Products:
Also available are Anti-miR™ miRNA Inhibitors (SKU #AM17000 and #AM17001). To select your miRNA sequence and order, please visit the GeneAssist™ miRNA Workflow Builder. Cy™3 dye-labeled Anti-miR™ Negative Controls (SKU #AM17011) are available. The Pre-miR™ miRNA Starter Kit (SKU #AM1540) can be used to optimize transfection of Pre-miR™ miRNA Precursors.

Ambion™ In Vivo GAPDH Positive Control siRNA (Invitrogen™)

Ambion® In Vivo siRNA Controls
• Validated siRNA controls for optimizing siRNA experiments targeting coding and noncoding transcripts
• Positive Control siRNAs functionally tested in several common cell lines
• Negative Controls functionally proven to have minimal effects on cell proliferation and viability
• Include Silencer® Select modifications for enhanced specificity or Ambion® In Vivo modifications for increased stability
• For use in human, mouse, and rat cells

What are Ambion® In Vivo siRNAs?
Ambion® In Vivo siRNAs are designed using the proven Silencer® Select algorithm and incorporate chemical modifications for superior serum stability with in vivo delivery. The added serum stability does not compromise the performance of the siRNAs. Ambion® In Vivo siRNAs have been shown to be non-toxic in vivo (mouse) and non-immunogenic (cell-based assays). In cell-based assays, Ambion® In Vivo siRNAs exhibit equivalent or better potency than Silencer® Select siRNAs. The result is better confidence in your in vivo RNAi experiments, better knockdown when paired with an efficient delivery solution, and the assurance of limited non-specific effects.

GAPDH Positive Control siRNAs
Our extensively validated, positive control siRNA to human, mouse, and rat GAPDH serves multiple functions. First, it is an ideal “test" siRNA for those just beginning siRNA experiments, because it is validated to work in multiple cell lines. In addition, because it targets GAPDH mRNA, which is commonly used as an internal control, its effects are easy to assay, and thus provides an excellent tool to monitor siRNA transfection efficiency by real-time RT-PCR. The Ambion® In Vivo GAPDH Positive Control siRNA shows increased serum and nuclease resistance compared with Silencer® Select siRNAs without loss of potency or specificity and is recommended for in vivo applications.

Quality Control
Ambion® synthesizes and purifies each Ambion® In Vivo siRNA in state-of-the-art facilities to meet the highest quality standards. As part of our rigorous quality control procedures, each RNA oligonucleotide is analyzed by MALDI-TOF mass spectrometry, and analytical HPLC is used to monitor purity. To provide the utmost in quality, we also assess each annealed siRNA by gel electrophoresis to confirm that the strands anneal properly. The result is premium-quality siRNA that is purified and ready to use.

In Vivo Ready Controls
Our "In Vivo Ready" Control siRNAs are subjected to that extra level of purification and testing required for the introduction of siRNAs into animals. After HPLC purification and annealing, each siRNA is further purified utilizing a process that removes excess salt via a semi-permeable membrane. The result is highly pure siRNA with minimal salt content, suitable for in vivo applications. In vivo siRNAs are then sterile filtered, and tested for the presence of endotoxin. At concentrations of 50 µM in presence of deionized water, in vivo Ready siRNAs contain <5.0 mM Na+, <0.06 mM K+, and <0.02 mM Mg2+.

Silencer™ Select Negative Control No. 2 siRNA (Invitrogen™)

Ambion® Silencer® SelectNegative Control #2 siRNA is extensively validated and an ideal control for many aspects of an siRNA experiment. 5 nmol is provided.

• Premium-quality siRNA, highly purified and ready to use
• Functionally proven to have minimal effects on cell proliferation and viability
• Include Silencer® Select modifications for enhanced specificity
• For use in human, mouse, and rat cells

What are Silencer® Select siRNAs?
Silencer® Select siRNAs incorporate the latest improvements in siRNA design, off-target effect prediction algorithms, and chemical modifications, to yield siRNAs with unrivalled efficacy, potency, and specificity. The result is fewer failed experiments due to poor silencing, and cleaner, more consistent phenotypic data.

Silencer® Select Negative Control #2 siRNA:
Negative control siRNAs—siRNAs with sequences that do not target any gene product—are essential for determining the effects of siRNA delivery and for providing a baseline to compare siRNA-treated samples. Silencer® Select Negative Control #2 siRNA has been carefully designed and extensively tested, and has no significant sequence similarity to mouse, rat, or human gene sequences. This negative control siRNA has been tested by microarray analysis and shown to have minimal effects on gene expression. It has also been tested in multi-parametric, cell-based assays and shown to have no significant effect on cell proliferation, viability, or morphology in the cell lines tested.

Quality Control:
Silencer® Select siRNAs are manufactured in a state-of-the-art facility under the highest quality standards. Rigorous quality control procedures include MALDI-TOF mass spectrometry analysis and analytical HPLC to monitor purity. Each siRNA is also assessed by gel electrophoresis to confirm that the strands anneal properly.

Accessory Product: siPORT™ NeoFX™ Transfection Agent (SKU #AM4510 and #AM4511)
siPORT™ NeoFX™ Transfection Agent is a versatile, lipid-based transfection agent for the efficient transfection of siRNA into cultured cells. The protocol can be adapted to a wide range of cells and experimental designs, including high-throughput applications. Silencer® Select siRNA controls have specific chemical modifications; they are designed to be used with Silencer® Select siRNAs. If you are using other siRNA products, such as BLOCK-iT™ siRNAs, Ambion® Silencer® siRNAs, or STEALTH RNAi™ siRNAs, we recommend that you use control siRNAs designed for use with those siRNAs for more reliable experimental results.

Stealth RNAi™ siRNA Negative Control Hi GC Duplex #2 (Invitrogen™)

Stealth RNAi™ siRNA Negative Controls are a great way to measure the effect of your experimental Stealth RNAi™ siRNA duplex versus background. These controls are:

• Designed in 3 levels of GC content (Lo, Med, Hi) with 3 sequences available per level so researchers can match GC content to their experimental Stealth RNAi™ siRNA
• Not homologous to anything in the vertebrate transcriptome
• Tested not to induce stress response Stealth RNAi™ siRNA

Negative Control Kit contains all three controls (Lo, Med, Hi GC content-excluding sequences #2 and #3) and each is also available separately. Get the ideal negative controls for your RNAi experiment so you can assess your results accurately.

mirVana™ miRNA Mimic, miR-1 Positive Control (Invitrogen™)

miRNA mimics are small, chemically modified double-stranded RNA molecules designed to specifically bind to and mimic endogenous miRNA molecules and enable miRNA functional analysis by up-regulation of miRNA activity.

We have now released the second generation of miRNA mimics, mirVana™ miRNA Mimics, which:
Exhibit maximum and consistent effect in vitro at low concentration
• Are non toxic
• Offer superior specificity due to unique Star strand modification
• Target the most updated Sanger content
• Can be used in vitro and in vivo, offering you consistency throughout your entire research project


Positive and negative controls are also available for use along with mirVana™ miRNA Mimics in miRNA up-regulation experiments.

mirVana™ miRNA Mimic miR-1 Positive Control
The mirVana™ miRNA Mimic miR-1 Positive Control is designed to mimic mature miR-1 miRNA after delivery to mammalian cells. miR-1 is associated with down-regulation of many genes. In particular, miR-1-mediated down-regulation of Protein Tyrosine Kinase 9 (PTK9) has been shown to occur at the mRNA level. miR-1 Positive Control is intended for use as a positive control for transfection experiments using mirVana™ miRNA Mimics. Monitor activity of miR-1 Positive Control through its gene silencing of PTK9, using real-time reverse transcription-PCR to detect PTK9 mRNA.

First Generation Mimic Controls
Our first-generation miRNA mimics (and controls), Ambion® Pre-miR™ miRNA Precursors, have lower specificity and potency, plus a lower strand specificity compared to the new mirVana™ miRNA Mimics. These first-generation mimics are recommended for completing ongoing in vitro miRNA studies. For new studies or in vivo studies, we highly recommend our new mirVana™ miRNA Mimics and their corresponding controls.

Silencer™ GAPDH siRNA (human) (Invitrogen™)

Ambion® Silencer® GAPDH Positive Control siRNA (human) is ideal for developing and optimizing siRNA experiments. The control is validated for use in human cell lines. 5 nmol is provided, along with an additional tube of 2 nmol negative control siRNA.
• Validated siRNA controls for optimizing siRNA experiments
• Gene-specific control siRNAs provided with scrambled, negative controls
• Functionally tested in several common cell lines
• HPLC purified, duplexed, and ready to use Silencer® control siRNAs are unmodified 21-mers; they are designed to be used with Silencer® siRNAs, BLOCK-iT™ siRNAs, and other unmodified 21mer siRNAs. If you are using other siRNA products, such as Ambion® Silencer® Select siRNAs or STEALTH RNAi™ siRNAs, we recommend that you use control siRNAs designed for use with those siRNAs for more reliable experimental results.

Pre-miR™ hsa-miR-1 miRNA Precursor Postive Control (Invitrogen™)

The Pre-miR™ hsa-miR-1 miRNA Precursor is intended for use as a positive control in experiments utilizing Pre-miR miRNA Precursors. This precursor was chosen as a positive control because, upon delivery into cells, it effectively down regulates the expression of twinfilin-1, also known as PTK9, at the mRNA level (60-95% reduction. Effective delivery and activity of the Pre-miR hsa-miR-1 miRNA Precursor can be detected by real-time PCR using a TaqMan® Gene Expression Assay to PTK9 (Assay IDs: Hs00702289_s1 [human], Mm01598980_g1 [mouse]).

About Pre-miR miRNA Precursors

Pre-miR™ miRNA Precursor Molecules are small, chemically modified double-stranded RNA molecules designed to mimic endogenous mature miRNAs. These ready-to-use miRNA mimics, which are similar to, but not identical to siRNAs, can be introduced into cells using transfection or electroporation parameters similar to those used for siRNAs. They enable detailed study of miRNA biological effects via gain-of-function experiments (Figure 1). Positive and negative control Pre-miR miRNA Precursors (listed above) or the Pre-miR™ Precursor Starter Kit can be used to optimize transfection of Pre-miR miRNA Precursors.

Pre-miR miRNA Precursor Molecules have been carefully designed and modified to ensure that the correct strand, representing the desired mature miRNA, is taken up into the RNA-induced silencing-like complex responsible for miRNA activity (Figure 2). In contrast to miRNA expression vectors, these synthetic molecules can be used in dose response studies due to their introduction directly into the cell by transfection or electroporation. Thanks to their small size, they are easier to transfect than vectors, and can be delivered using conditions identical to those used for siRNAs.