• Calculation tips for resuspending and diluting nucleic acids

    Nov 4, 2012, 23:14 PM by
    Lab tips: Use these simple guidelines for making a 100 µM solution; calculating nanomoles, micrograms, copy number, and concentration; and determining concentration equivalencies.
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  • A recombinant Cas9 enzyme that drastically reduces CRISPR off-target effects

    Aug 17, 2017, 19:51 PM by Todd Adamson
    Learn about the Cas9 variant, Alt-R® S.p. HiFi Cas9 Nuclease 3NLS, that greatly reduces off-target cutting events during CRISPR genome editing. At the same time, it maintains the high level of on-target editing efficiency seen with wild-type Cas9 nuclease.
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  • Steps for a successful qPCR experiment

    Sep 12, 2011, 16:00 PM by
    Read these recommendations for 5′ nuclease assay design and experimental setup that will help you obtain accurate and consistent results. Included are tips for primer and probe parameters and use of controls.
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  • Minimizing duplicates and obtaining uniform coverage in multiplexed target enrichment sequencing

    Mar 20, 2018, 13:19 PM by Ellen Prediger
    Did you know that using the right amount of starting material of pooled samples can decrease cost and increase data quality of your multiplexed NGS experiment? Follow these recommendations from IDT scientists to minimize duplicates and obtain uniform coverage in your multiplexed target enrichment sequencing experiments.
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  • One-step strategy to create transgenic and KO mouse models (Easi-CRISPR) uses Megamer ssDNA donors and CRISPR RNPs

    May 18, 2017, 19:18 PM by Todd Adamson
    Read how the use of long, ssDNA donor sequences can improve HDR editing efficiency. These donor sequences, now available as custom Megamer Single-Stranded DNA Fragments from IDT, are injected into mouse embryos, along with CRISPR RNP complexes, to create transgenic and conditional knockout mouse models.
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  • When and how to use nickases for efficient genome editing

    Feb 14, 2018, 17:00 PM by
    Wondering when to use Cas9 nickases in genome editing experiments? Discover how the design of paired guide RNAs and selection of enzyme can affect the efficiency of genome editing mediated by nickases.
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  • A solution for sample crosstalk and index hopping in multiplexed NGS

    Aug 4, 2017, 21:22 PM by Todd Adamson
    Webinar summary: Learn about the steps in NGS sample preparation that can lead to index hopping and sample crosstalk. Dr Kristina Giorda provides expert advice on how to reduce these artifacts at each point, providing cleaner, demultiplexed NGS data.
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  • Tips for minimizing sample misassignment during multiplexed NGS

    Feb 21, 2018, 17:59 PM by
    Learn about the sources of sample crosstalk and how crosstalk can impact data interpretation of your sequencing runs. IDT now offers a collection of novel adapters and TruGrade DNA oligos for minimizing the risk of sample crosstalk, which are ideal for ultra-sensitive NGS applications.
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  • Mitigate index hopping while increasing low-frequency variant detection

    Jan 22, 2018, 20:59 PM by
    Webinar summary: Learn how the addition of unique molecular identifiers (UMIs) can be used for error correction during multiplexed NGS data analysis. By reducing false positives, UMIs lead to improved detection of low-frequency variants.
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  • The key to successful electroporation in CRISPR genome editing experiments

    Mar 30, 2017, 17:22 PM by
    Product spotlight: The most efficient CRISPR-based genome editing results from delivering CRISPR reagents to cells as ribonucleoprotein (RNP) complexes. Should your cells require electroporation, learn why we recommend using Alt-R Electroporation Enhancers to increase genome editing efficiency.
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  • Successful CRISPR genome editing in hard-to-transfect cells (i.e., Jurkat cells)

    Jun 20, 2016, 22:11 PM by
    Use the conditions presented here for Clone E6-1 Jurkat cells as a starting point for optimization of CRISPR reagent delivery in cell types requiring electroporation.
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  • Designing PCR primers and probes

    Oct 21, 2013, 16:10 PM by
    Many factors can influence successful PCR experiments, including primer and probe location, length, interaction and self-folding, melting temperature, annealing temperature, and GC content. Review these general recommendations for designing primers and probes and for choosing target locations for PCR amplification.
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  • Improved pathogen detection by multiplex RT-qPCR

    Jan 24, 2016, 19:17 PM by Todd Adamson
    Learn how gBlocks Gene Fragments can help optimize multiplex qPCR for pathogen detection in human clinical samples.
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  • Developing onsite genotyping of Antarctic penguins

    Aug 24, 2016, 18:15 PM by Todd Adamson
    This research profile highlights the increasing need for mobile qPCR testing using an example from conservation biology. Read how PrimeTime® Custom qPCR Assays have been designed to distinguish genetic variants of Adélie penguins.
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  • 16S rRNA indexed primers amplify phylogenic markers for microbiome sequencing analysis

    Jul 17, 2017, 15:05 PM by Todd Adamson
    The 16S rRNA gene is frequently used in microbiome studies to identify the subset of microbes present in biological samples. Researchers amplify short hypervariable regions from this gene, tag the amplified products with unique barcodes, perform highly multiplexed sequencing runs, and compare the sequences to the known bacterial genome database. However, primer design for such analyses can be challenging given the massive sequence variability in sampled lifeforms. Read about the development and design of these primers, and how you can obtain your own custom, high fidelity versions of these sequences.
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  • rhPCR SNP genotyping method provides confidence calls with >99.5% accuracy

    Jun 20, 2017, 20:16 PM by Todd Adamson
    Use this simple, single-tube genotyping platform to get >99.5% call accuracy. The method is based on RNase H2-dependent PCR technology and uses RNA-DNA hybrid primers, blocked at the 3′ end, that prevent primer-dimer artifacts and non-specific amplification.
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  • LISH method enables highly multiplexed, sensitive gene expression in FFPE samples, without RT

    Aug 9, 2017, 20:37 PM by Todd Adamson
    Ligation in situ hybridization (LISH) enables sensitive, multiplex detection of mRNA expression in archival FFPE samples, without RNA isolation or reverse transcription. The authors show that LISH can be used to detect expression in archived FFPE specimens up to 10 years old and that it can be highly multiplexed (>100 target sequences). Review the mechanism of this technique, and learn about its many applications.
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  • Guaranteed knockdown of RNA in loss-of-function studies

    Jul 28, 2016, 16:41 PM by Todd Adamson
    Product spotlight: Still using standard siRNAs? Predesigned DsiRNAs in the TriFECTa Kits are guaranteed to knockdown gene expression in RNA interference (RNAi) studies.
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  • Storing oligos: 7 things you should know

    Jun 20, 2017, 17:07 PM by Todd Adamson
    Lab tips: Researchers often have questions about the stability of their oligos and how best to store them. Review these important considerations and supporting data, which were generated from an ongoing, multi-year, longitudinal stability study.
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  • Intact, single cell analysis of protein and nucleic acid biomarkers for clinical diagnostics

    Aug 28, 2015, 17:49 PM by Todd Adamson
    One of IDT’s GMP customers, IncellDx, uses high throughput cellular analysis technologies and assays to simultaneously identify specific protein, RNA, and DNA species within intact cells. They describe their technology and the product quality and services the IDT GMP division provides.
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  • CRISPR-Cpf1, an alternative to Cas9 for targeting AT-rich genomes

    Jul 7, 2017, 16:32 PM by Todd Adamson
    Did you know that use of CRISPR endonuclease Cpf1 (also known as Cas12a) can greatly expand the number of target sites available for genome editing? Unlike the G-rich PAM requirement of Cas9, Cpf1 recognizes a T-rich PAM, TTTV. Not only is this enzyme useful for targeting AT-rich genomes, but it has applications in altering disease or phenotype-linked mutations in AT-rich regions through homology-directed repair. In addition, Cpf1 does not require a tracrRNA for function. Learn more about Cpf1 editing efficiency and TTTV site frequency in this article.
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  • My oligos have arrived: Now what?

    Jan 14, 2014, 20:21 PM by
    Review these recommendations for resuspension and storage of newly received oligonucleotides.
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  • Tips for using BLAST to locate PCR primers

    May 16, 2011, 10:10 AM by
    Need a quick way to find the location of primers within a gene or the expected size of the resultant PCR product? In this tip we show you how to get this information using BLAST.
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  • Time to go GMP?

    Jun 17, 2011, 22:37 PM by
    Learn how GMP manufacture of oligos for diagnostic use can provide your organization with defined specifications and control over manufacturing processes.
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  • Running agarose and polyacrylamide gels

    Jun 17, 2011, 14:45 PM by
    One of the most widely used tools in molecular biology, electrophoresis provides a simple, low-cost way to separate nucleic acids based on size for quantification and purification. Get some tips on running your gels. From here you can also access a detailed PAGE troubleshooting guide.
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  • Methods for site-directed mutagenesis

    Jan 10, 2012, 22:00 PM by
    Review these traditional PCR-based methods for creating a specific mutation in a known sequence, in vitro. Then read our follow-up article, Site-directed mutagenesis—Improvements to established methods (see the "Additional reading" sidebar) which describes how you can generate the same types of mutations, more quickly and efficiently, using custom, synthetic dsDNA fragments.
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  • Oligonucleotide modifications: Choosing the right mod for your needs

    Apr 11, 2012, 22:07 PM by
    Learn about our broad family of oligonucleotide modifications, and get suggestions for selecting modifications that can help you in your research.
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  • Cloning strategies, Part 2: Cohesive-end cloning

    Apr 11, 2012, 20:34 PM by
    Cohesive-end cloning is one of the most commonly employed techniques in molecular biology. Review these tips and tricks for cloning using restriction enzymes.
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  • Annealing oligonucleotides

    Jun 15, 2012, 21:11 PM by
    Use this quick protocol for making double-stranded DNA from single-stranded, complementary oligonucleotides. Also review some considerations for making and using annealed oligos.
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  • qPCR terminology—what does it mean?

    Jun 15, 2013, 15:54 PM by
    Review these definitions of some of the most commonly used terms and distinctions encountered in qPCR experiments.
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  • Cloning strategies, Part 3: Blunt-end cloning

    Jun 15, 2012, 16:34 PM by
    Blunt-end cloning is one of the easiest and most versatile methods for cloning dsDNA into plasmid vectors. It is easy because the blunt-ended insert requires little to no preparation. Read an overview of blunt-end cloning with tips for making this cloning approach successful.
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  • Which biotin modification to use?

    Sep 20, 2012, 18:27 PM by
    Biotin is important in many kinds of molecular biology applications, in part due to its very high affinity for streptavidin and avidin. It is used in mobility shift assays, and for enrichment, purification, and attachment to solid surfaces. Biotin can also be used for tagging target molecules with dye- or enzyme-labeled streptavidin. But did you know there are numerous forms of biotin that can be used for such applications? Read about the differences between Standard Biotin, Biotin dT, Biotin-TEG. Dual Biotin, Photocleavable Biotin, DesthioBiotin-TEG, and Biotin Azide.
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  • Oligo quantification—getting it right

    Jan 18, 2013, 20:33 PM by
    Did you know that a supplier's yield readings can differ from what the researcher calculates after resuspension? Learn the importance of using the [right] molar extinction coefficient in calculations of oligonucleotide concentration.
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  • How important are those NGS metrics?

    Jun 12, 2014, 20:20 PM by
    Of the many metrics used in evaluating target capture data for NGS applications, read about which ones our researchers consider important for evaluating performance of target enrichment panels.
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  • Understanding melting temperature (Tm)

    Oct 21, 2013, 14:26 PM by
    Read this advice from our own thermodynamics specialist, Dr Richard Owczarzy, on the effects of melting temperature (Tm) on hybridization. He provides considerations for better oligo and PCR/qPCR assay design, including oligo concentration, salt, and base pairing mismatch positioning.
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  • Improving uniform coverage of targeted sequences for NGS

    Nov 3, 2014, 16:39 PM by
    Learn about the challenges researchers face for obtaining uniform coverage of NGS data and how IDT xGen® Lockdown® Probes are uniquely positioned to facilitate uniform sequence coverage.
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  • Calculations: Converting from nanograms to copy number

    Oct 21, 2013, 05:00 AM by
    Here is a calculation often used when creating a qPCR standard curve. Link to a free, online tool that will do it for you.
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  • Target enrichment facilitates focused next generation sequencing

    Jan 15, 2014, 20:43 PM by
    Understand the rationale and benefits of enriching subsets of the genome (target enrichment by hybrid capture) prior to sequencing. Use this strategy for genotyping, identifying splice variants and indels, and profiling genomic recombination events as well as viral and transposon integration sites.
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  • Fluorescent dyes with no licensing restrictions—a growing portfolio

    Jan 16, 2014, 21:53 PM by
    Need fluorescent dyes suitable for commercial and diagnostic applications? These have no patent licensing restrictions. Review this table of Freedom Dye alternatives for commonly used proprietary dyes.
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  • Getting started with Alt-R<sup>®</sup> CRISPR-Cas9 genome editing

    Nov 30, 2015, 22:43 PM by
    Webinar summary: Learn about the components of the Alt-R® CRISPR-Cas9 System for improved genome editing. Get information on designing Alt-R CRISPR crRNA oligos, and review the genome editing protocol from the user guide.
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  • ESI mass spectrometry—why we use it for oligonucleotide quality control

    Jan 31, 2017, 15:36 PM by
    IDT has been, and still is, a pioneer in using mass spectrometry for quality control in oligonucleotide synthesis. Learn about why a particular method, electrospray ionization (ESI), is used ubiquitously in our manufacturing processes.
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  • Tips for resuspending and diluting your oligonucleotides

    Mar 31, 2017, 15:49 PM by
    You have received your custom oligonucleotides, and now it is time to resuspend and dilute them. Here are a few tips from our scientists that will help facilitate use of the oligos in your experiments.
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  • Stratifying patients for targeted therapy through precision cancer medicine

    Aug 25, 2017, 16:42 PM by
    Research profile: Sameek Roychowdhury, MD, PhD, Medical Oncologist at The Ohio State University Comprehensive Cancer Center – James Cancer Hospital and Solove Research Institute also leads the precision-cancer medicine program. Read about the precision medicine trials his team conducts to identify individualized cancer treatments. Dr Roychowdhury also provides insights on moving from a tissue-of-origin to a pathway-based classification of cancer and the role molecular taxonomy may play.
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  • Antisense Oligonucleotides (ASOs)

    Nov 9, 2015, 19:50 PM by
    Modification Highlight: Antisense oligos are the first oligonucleotide-based approach for disrupting gene expression. Learn about new applications for antisense oligos, including the study of lncRNA function.
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  • Unraveling RNA—the importance of a 2' hydroxyl

    Mar 16, 2011, 05:00 AM by
    On paper, the small structural differences between RNA and DNA may not look substantial but, in practice, these small differences have major significance for the biological role of RNA. Find out how.
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  • 3 valuable functions of a fluorescently labeled CRISPR-Cas9 tracrRNA

    Mar 30, 2017, 21:31 PM by
    Product spotlight: Use a fluorescently labeled CRISPR-Cas9 tracrRNA to monitor transfection and simplify screening for editing events.
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  • Oligo modification—post-synthesis conjugation explained

    Sep 12, 2011, 16:48 PM by
    Did you know IDT can add modifications to your oligos post-synthesis using NHS Ester chemistry? We can also add modifications through azide and alkyne groups post-synthesis, using click chemistry. Read about how these reactions are done, and get answers to common questions regarding post-synthesis conjugation.
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  • Oligo synthesis: Why IDT leads the oligo industry

    Dec 18, 2015, 20:03 PM by
    Read about the phosphoramidite method of oligonucleotide synthesis that IDT uses in its manufacturing processes. We also highlight the additional measures we take to ensure our customers receive the highest quality oligos and nucleic acid products in the shortest time possible.
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  • Need a library of related DNA or RNA oligo sequences?

    Jan 29, 2016, 21:06 PM by
    Product spotlight: Build variability into your oligo sequences by incorporating Mixed Bases. We offer mixes of multiple base types as well as nonstandard and modified bases.
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  • 6 pieces of data that will change how you set up your CRISPR-Cas9 experiments

    Feb 29, 2016, 22:04 PM by
    To improve the efficiency of CRISPR-Cas9 genome editing, IDT scientists evaluated several factors that influence how we design and perform genome editing experiments, including Cas9 delivery, crRNA and tracrRNA length, and protospacer size and site selection. Review the data and results for 6 important factors that were addressed. These findings resulted in a set of potent CRISPR tools that are offered as the Alt-R CRISPR-Cas9 System.
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  • CRISPR guide RNA format affects genome editing outcomes

    Feb 4, 2016, 22:28 PM by
    Learn how the use of different formats for CRISPR guide RNAs can lead to different genome editing outcomes. The optimized, short RNA oligos that make up Alt-R® CRISPR-Cas9 crRNAs and tracrRNAs outperform other CRISPR guide RNA formats. In addition to their improved editing efficiency, these short RNA oligos do not incorporate into the target genome, providing cleaner editing results by avoiding a common problem associated with DNA constructs.
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  • Improve your genome editing with the Alt-R S.p. Cas9 Nuclease 3NLS and modified crRNAs

    Apr 28, 2016, 21:51 PM by
    Product Spotlight: Methods for CRISPR-Cas9 genome editing are diverse, but not all of them perform equally well. Learn about the Alt-R® S.p. Cas9 Nuclease 3NLS that, when used in combination the optimized Alt-R CRISPR crRNA and tracrRNA, provides a highly effective editing solution that is also easy to use.
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  • Long, custom RNA oligos—Ultramer RNA Oligonucleotides

    Feb 28, 2017, 20:15 PM by
    Product spotlight: Use Ultramer RNA Oligonucleotides to increase specificity and improve performance in a variety of RNA-related applications. Learn more about these high-quality, single-stranded custom oligos, made up to 120 bases.
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  • Use of template switching oligos (TS oligos, TSOs) for efficient cDNA library construction

    Mar 8, 2017, 23:53 PM by
    Product spotlight: Conventional cDNA construction strategies usually result in an underrepresentation of the 5' ends of cDNA. However, use of a template switching chimeric DNA:RNA oligo and MMLV reverse transcriptase can improve on this. See how this approach, dubbed SMART, makes it possible to efficiently amplify the entire full-length transcript pool, in a completely sequence-independent manner.
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  • NGS detection of low frequency genetic variants using novel, molecular sequencing adapters

    Apr 14, 2017, 23:12 PM by
    Webinar summary: Watch this webinar recording to learn about unique molecular adapters and a high-performance target capture method for NGS analysis of low frequency variants.
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  • A simple method to detect on-target editing or measure genome editing efficiency in CRISPR experiments

    Mar 30, 2017, 13:37 PM by
    Product spotlight: Learn why the Alt-R Genome Editing Detection Kit, a PCR-based, T7 endonuclease I (T7EI) assay, is the recommended method for CRISPR mutation detection.
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  • Simple model for point mutation correction uses ssDNA repair oligo and CRISPR-Cas9 RNP

    Feb 3, 2017, 15:55 PM by
    Citation summary: This publication demonstrates how CRISPR-Cas9 ribonucleoprotein (RNP) used for DNA cleavage, and a ssDNA oligonucleotide used for repair, will correct single base mutations without collateral mutagenesis in the surrounding sequence. Read the authors' explanation for why this CRISPR reagent delivery format is so successful.
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  • Synthetic CpG ODNs activate immune cells through the Toll-like receptor (TLR) pathway

    Apr 11, 2017, 15:52 PM by
    Did you know that synthetic CpG oligodeoxynucleotides (ODNs) can serve as an adjuvant to enhance the immune response of vaccines by mimicking the immune-stimulatory effects of unmethylated bacterial or viral sequences? Read about the 3 classes of CpG ODNs and how their distinct structures are tied to their varied functions. Order these modified oligos from IDT.
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  • Generate codon balanced libraries for mutagenesis with trimer modifications

    Jun 29, 2016, 16:41 PM by
    Incorporating oligo codon trimers into oligo libraries results in balanced encoding of amino acids and eliminates unwanted stop codons. Such oligo libraries are useful for mutagenesis experiments to prepare proteins for screening for potential improvements in biological function.
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  • Analyzing the exome—focus your NGS analysis with high-performance target capture

    May 23, 2017, 18:39 PM by
    Webinar summary: increase read depth and the number of samples per run, while decreasing sequencing cost and simplifying data analysis. See how using individually synthesized, quality-checked, DNA target capture probes (xGen Lockdown Probes) covering the human exome (xGen Exome Research Panel) perform across a variety of metrics and how the xGen Exome Research Panel compares to other available exome panels.
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  • Insert an abasic site into your sequence

    Feb 26, 2016, 20:51 PM by
    Use the dSpacer, rSpacer, and Abasic II modifications to introduce abasic sites into DNA or RNA oligonucleotides. These modifications create a single base space that replicates the loss of base pairing ability by a nucleotide.
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  • ve-SEQ: An improved approach to high throughput, whole genome viral sequencing

    Jan 14, 2016, 21:08 PM by
    Citation summary: Read how scientists at the University of Oxford use xGen Lockdown Probes in ve-SEQ, a novel method for detecting and sequencing HCV genotypes.
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  • Increase the melting temperature of short, AT-rich primers and probes

    Dec 29, 2015, 06:00 AM by
    Add this modified base to increase the melting temperature (Tm) of primers and probes. It is especially useful when you need to work with short, A-T rich sequences.
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  • Get the most out of your NGS samples—expandable tumor and disease target capture panels

    Jul 22, 2015, 05:00 AM by
    Product spotlight: Learn about expandable NGS target capture panels that enrich for mutated genes implicated in tumors and genes associated with inherited diseases. Designed in collaboration with experts from the Emory Genetics Laboratory and the Cancer Genome Atlas, both panels return consistent results with high reproducibility and deep uniform coverage.
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  • Which type of oligo purification should I choose?

    Mar 29, 2013, 05:00 AM by
    Do your oligos need purification for your intended application? Use these recommendations based on oligo length, application, yield required, and presence of modifications to determine which oligonucleotide purification method to select.
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  • Tips for successful lncRNA knockdown: Design, delivery, and analysis of antisense and RNAi reagents

    Sep 30, 2015, 15:53 PM by
    IDT research scientist Kim Lennox has been optimizing effective lncRNA knockdown with antisense and RNAi reagents. Here she provides some tips for successful lncRNA knockdown.
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  • No Cas9 PAM NGG sequence in your target region for genome editing?

    Mar 24, 2016, 05:00 AM by
    A restricted or AT-rich target region for genome editing experiments may lack a PAM NGG motif recognized by S. pyogenes Cas9. The Acidaminococcus sp. BV3LC Cpf1 enzyme uses a PAM site of TTTV (i.e., TTTA, TTTC, TTTG), making it especially useful for targeting AT-rich regions. Read about this and other alternatives for targeting sequences with few or no NGG sites.
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  • Consider SNPs when designing PCR and qPCR assays

    Jan 31, 2017, 20:20 PM by
    NGS has led to a dramatic increase in identified SNPs. SNPs can pose a problem when they underlie primer or probe sequences used in PCR/qPCR. Learn what effect they can have and how you can minimize their impact on your PCR assays.
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  • Mutagenesis using gBlocks<sup>®</sup> Gene Fragments

    Sep 21, 2012, 20:46 PM by
    Citation summary: Learn how just 3 synthetic, high fidelity, double-stranded gBlocks Gene Fragments were used to mutate 18 different sites over the entire exon 7, 1039 bp sequence.
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  • Cloning strategies, Part 1: Assembly PCR for novel gene synthesis

    Sep 21, 2012, 21:57 PM by
    Lab tips: Learn how you can use single-stranded oligos or a mix of single- and double-stranded DNA to produce longer genes of up to several thousand base pairs. No restriction sites are needed, and the approach is beneficial for assembling constructs that contain modular elements, such as antibodies.
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  • Oligos for molecular diagnostics

    Jan 17, 2013, 19:58 PM by
    Understand the difference between Good Manufacturing Practices (GMP) and ISO 13485 certification. Learn what these credentials mean for oligonucleotides manufactured for human diagnostics.
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  • Multiplex qPCR—how to get started

    Mar 29, 2013, 19:29 PM by
    Learn how multiplex qPCR can save sample, reagent cost, and time. The article provides recommendations for multiplex qPCR assay design and experimental setup.
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  • Getting enough full-length oligo?

    Sep 29, 2017, 22:10 PM by
    The coupling efficiency achieved by an oligonucleotide manufacturer has a direct effect on the quality of the oligonucleotides produced. Find out why coupling efficiency should be important to you.
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  • Alternative dyes for FISH, FRET, and qPCR

    Jan 18, 2013, 06:00 AM by
    Product spotlight: Use ATTO-labeled oligonucleotides as alternatives in applications including fluorescence in situ hybridization (FISH), fluorescence resonance energy transfer (FRET), and dual-labeled probes used in qPCR experiments.
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  • Ordering modified oligonucleotides

    Jan 18, 2013, 06:00 AM by
    Learn about the many oligo modifications IDT can provide, both as online selections and through special requests. IDT will consider any modification you need. Find out how to request and order them here.
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  • Interpreting melt curves: An indicator, not a diagnosis

    Jan 20, 2014, 17:42 PM by
    Performing intercalating dye PCR/qPCR assays? Review examples of PCR melt curve data with our scientists to determine what it can/cannot tell us about resulting PCR amplicons.
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  • Design efficient PCR and qPCR primers and probes using online tools

    Aug 24, 2015, 19:11 PM by
    Simplify planning of your qPCR experiments using IDT free, online tools for oligonucleotide analysis and PCR primer design. This article provides an overview of our predesigned qPCR assays and the basics of designing customized PCR primers and hydrolysis probes with the PrimerQuest Tool.
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  • Site-directed mutagenesis—improvements to established methods

    Jun 30, 2015, 22:06 PM by
    Site-directed mutagenesis techniques have relied primarily on PCR and standard cloning methods. Read about some of the common cloning methods used for mutagenesis and how double-stranded DNA fragments (gBlocks Gene Fragments) can save you both time and money.
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  • Increase sensitivity and precision in your qPCR experiments

    Aug 12, 2015, 22:24 PM by
    Learn how you can use double-quenched probes to decrease background, and increase sensitivity and precision in your qPCR experiments.
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  • Genomic target selection using individually synthesized capture probes

    Jun 15, 2012, 05:00 AM by
    Research profile: Foundation Medicine, Inc describes development of its cancer diagnostic genomic test for solid tumors, with the goal to provide a fully informative profile that helps physicians make personalized therapy decisions for patients with cancer. It has been optimized for FFPE samples and small specimens and interrogates over 182 cancer-related genes plus 37 introns from 14 genes frequently rearranged in cancer. Their research shows how biotinylated Ultramer Oligonucleotides perform better than array-synthesized probes during target capture for next generation sequencing with this panel.
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  • Click chemistry-generated, internal dye-labeled oligonucleotides

    Sep 12, 2011, 05:00 AM by
    Learn about "click chemistry" reactions, used to join small chemical subunits in a modular fashion, yielding singular reaction products that are typically physiologically stable and stereospecific.
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  • Easy resuspension and dilution of oligonucleotides

    Sep 21, 2012, 05:00 AM by
    Save time by using these free resuspension and dilution calculators. A variety of units can be used as input values. Review the screen shots that show how these calculation tools can help you move on with your research.
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  • Next generation sequencing in the clinic: A perspective from Dr Elaine Mardis

    Jan 17, 2013, 23:41 PM by
    Research profile: Dr Elaine Mardis shares her views on the current uses of NGS, the challenges that NGS technologies face, and what can be expected in the future.
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  • A novel non-enzymatic assay for SNP detection in cancer DNA

    Nov 6, 2015, 06:00 AM by
    Citation summary: Learn how scientists use a long, biotinylated Ultramer Oligo to capture specific gene fragments for the identification of SNPs with single-molecule resolution. Their method is not only cost-effective, but avoids enzyme-based technologies, such as PCR and NGS, that vary in fidelity and increase risk of introducing amplification bias.
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  • RNA-guided gene drives for inheritance bias in yeast: Safe, responsible genome editing

    Mar 4, 2016, 06:00 AM by
    Citation summary: Read about how a group of researchers use gBlocks Gene Fragments and novel precautionary measures to responsibly investigate Cas9-based eukaryotic inheritance bias of gene drives.
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  • Somatic mutations acquired in BRCA1 during embryonic development can cause early-onset breast cancer

    Jun 4, 2015, 05:00 AM by
    Citation summary: See how focused sequencing using target capture probes helps identify a post-fertilization mutation in BRCA1 that may predict risk of early-onset breast cancer.
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  • Gene panels vs. gene-by-gene analysis for assessing disease risk

    Jul 31, 2015, 05:00 AM by
    Citation summary: Authors compared an NGS-based gene panel and traditional testing data for diagnostic use and disease risk assessment in hereditary breast and ovarian cancer. Read how xGen Lockdown Probes were able to rescue drop-out regions of SureSelect (Agilent) probe panels.
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  • 3C-MTS technology identifies distant genomic interactions made by a cancer risk locus

    Aug 28, 2015, 05:00 AM by
    Citation summary: Chromosome conformation capture-based multiple target sequencing (3C-MTS) technology is used to obtain a genome-wide view of regions that physically interact with the prostate cancer risk locus 8q24. This method combines a 3C assay with multi-target capture sequencing using xGen Lockdown Probes.
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  • Next generation sequencing for risk assessment in acute myeloid leukemia

    Sep 30, 2015, 05:00 AM by
    Citation summary: Read how these researchers use next generation sequencing (NGS) techniques with patients diagnosed with AML to identify associations between specific mutations and disease outcome. These techniques were also used to track the elimination of leukemia-specific mutations in AML patients following chemotherapy. The xGen AML Cancer Panel v1.0 was used to target and capture 264 commonly mutated genes in AML.
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  • Probe-based target enrichment improves ChIP-seq analysis of HIV and HTLV provirus

    Jul 22, 2016, 05:00 AM by
    Citation summary: Learn how scientists used xGen Lockdown Probes for target enrichment after ChIP enrichment to significantly increase proviral sequence reads within a human genomic background. The method was easily customizable for provirus subtypes, tolerant of mismatch, and should be adaptable for similar applications.
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  • Targeting cancer pathways: sensitive, comprehensive detection of genomic alterations using a custom NGS panel

    Oct 14, 2016, 05:00 AM by
    Citation summary: Learn how researchers use xGen Lockdown Probes to screen cancer samples for key genes related to targeted cancer therapies.
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  • NGS target capture recommendations for FFPE samples

    Feb 8, 2017, 16:33 PM by
    Webinar summary: Learn how it is possible to create high quality target capture libraries from formalin-fixed, paraffin-embedded samples. Dr Kristina Giorda presents an FFPE sample workflow with a concise explanation of DNA quality analysis and how quality assessment can be used to guide the amount of DNA input for NGS library preparation.
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  • Advantageous properties of Dicer-Substrate Interfering RNA (DsiRNA) enable improved RNAi-based gene silencing

    Jan 15, 2014, 06:00 AM by
    Citation summary: Comparison of cononical siRNA design to DsiRNAs for performance in siRNA processing and RISC assembly, leading to stronger silencing efficacy.
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  • Use thiol modifications to prepare synthetic oligos for attachment chemistry

    Jun 21, 2017, 15:43 PM by
    Product spotlight: Thiol modifiers are a common type of chemical modification for synthetic oligos. They are designed to react with a broad array of activated accepting groups, such as maleimide and gold microspheres. Use them to prepare synthetic oligos for subsequent attachment chemistry.
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  • Nano-delivery of DsiRNAs results in improved gene silencing and anticancer activity

    Mar 23, 2015, 05:00 AM by
    Citation summary: Find out how a dendrimer-based, targeted nano-delivery system that uses Dicer Substrate RNAs (DsiRNAs) leads to improved gene silencing and anticancer activity in prostate cancer models in vitro and in vivo.
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  • Enzyme-linked DNA aptamer assay provides advantages over standard immunoassays

    Mar 28, 2016, 05:00 AM by
    Citation summary: Find out how this research team used candidate aptamers in an enzyme-linked aptamer sorbent assay (ELASA) to detect human insulin-like growth factor-I, a biomarker for recombinant human growth hormone, used in athletic doping.
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  • Choosing a qPCR assay: Inventoried or predesigned?

    Jun 11, 2011, 16:40 PM by
    You may know that several companies offer inventoried qPCR assays. But did you know that these assays are often pre-manufactured and stocked, waiting perhaps for years for that order to be placed? In contrast, IDT PrimeTime® Predesigned qPCR Assays are manufactured at the time of order, and can therefore take into account sequence updates such new annotations.
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  • qPCR validation of microarray data using PrimeTime qPCR Assays and ZEN Double-Quenched Probes

    Jan 18, 2013, 06:00 AM by
    Citation summary: See this example of how researchers use of ZEN Double-Quenched Probes with PrimeTime qPCR Assays for qRT-PCR experiments to validate microarray data.
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  • Studying protein interactions with gBlocks Gene Fragments

    Jan 18, 2013, 06:00 AM by
    Citation summary: Read how scientists use a fragment of adenomatous polyposis coli protein (APC), expressed from a gBlocks Gene Fragment, to monitor interactions of an axin mutant and wild-type RGS domain with this protein. The results provide a better understand of axin’s role in the β-catenin destruction complex, part of a Wnt signaling pathway.
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  • Using qPCR assays in multiplex experiments

    Jun 17, 2011, 19:44 PM by
    Product spotlight: Starting multiplex qPCR experiments? IDT PrimeTime Predesigned and Custom qPCR Assays offer multiple dye/quencher combinations and primer/probe ratios to simplify the multiplex experiment design.
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  • Predictable control of gene expression by mRNA, 3&prime; untranslated region motifs

    Mar 29, 2013, 05:00 AM by
    Citation summary: See how these researchers use gBlocks Gene Fragments as qPCR standards to generate DNA standard curves for absolute quantification of mRNA.
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  • Identifying stem cell differentiation biomarkers

    Jun 17, 2011, 20:12 PM by
    Research profile: Scientists at ReGenesys are using PrimeTime qPCR Assays in multiplex qPCR experiments to identify biomarkers that allow them to stage cells as they de-differentiate into stem cells. Learn about their work with a bone marrow derived cell line, called MultiStem, a primitive mesenchymal stem cell variant. MultiStem cells have the potential to be used as an off-the-shelf product to treat several diseases.
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  • Decrease qPCR background, improve qPCR signal

    Sep 12, 2011, 21:20 PM by
    Product spotlight: See data demonstrating that probes containing a second, internal quencher provide increased signal detection and greater assay sensitivity in qPCR assays vs. single-quenched probes, such as probes with BHQ Quenchers. ZEN™ and TAO™ Double-Quenched Probes also make it more feasible to use longer probes due to the resulting lower background fluorescence.
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  • ReadyMade negative controls for gene silencing (RNAi) experiments

    Jan 10, 2012, 22:50 PM by
    Obtain universal negative controls for DsiRNA transfections. These controls are premade, inexpensive, and ready to ship.
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  • Validating sequencing results of a repetitive element with digital droplet PCR

    Feb 25, 2016, 06:00 AM by
    Citation summary: Mobilization of long interspersed element 1 (L1) can be involved in human disease and cancer. See how the specificity and sensitivity of digital droplet PCR can be used to validate the detection of rare L1 insertion events.
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  • Overlapping biocontainment strategies for genetically modified <em>E. coli</em>

    Feb 26, 2015, 06:00 AM by
    Citation summary: gBlocks Gene Fragments are used to create codon optimized components of a biocontainment system for genetically modified E. coli.
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  • Expanded genome modification roles for CRISPR/Cas9 using Cas9-VPR and shortened sgRNAs

    Sep 29, 2015, 05:00 AM by
    Citation summary: This paper describes how Cas9 enzyme function can be modulated to perform genome editing and gene regulation functions simultaneously, and how these activities can be used to construct complex genetic circuits. IDT gBlocks Gene Fragments were used to assemble U6-driven sgRNA expression cassettes and a CRISPR-repressible promoter (CRP) library.
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  • qPCR assays for optimized viral detection in clinical samples

    Apr 6, 2016, 05:00 AM by
    Learn how ZEN Double-Quenched Probes were used in a unique qPCR experiment to help rapidly and accurately detect the highly variable norovirus in clinical samples.
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  • Zika virus: Advances in disease modeling and detection

    May 26, 2016, 05:00 AM by
    IDT is supporting global research aimed at reducing the widespread effects of Zika. Learn about the virus, and read a summary of the latest developments.
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  • qPCR probes—achieve high Tm without sacrificing quenching

    Jan 10, 2012, 18:22 PM by
    Need a longer probe, or one with a higher Tm? Placed directly between DNA bases, the ZEN Internal Quencher eliminates the need for LNAs, MGB, or internal quenchers attached to thymidine bases. When combined with a 3’ quencher, you can design longer probes with sufficient melting temperature for qPCR while maintaining a consistently low background.
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  • Inhibiting miRNAs using antisense oligonucleotides

    Apr 11, 2012, 19:19 PM by
    Learn the basics about miRNA Inhibitors (also known as anti-miRNA oligos, or AMOs) for knockdown of miRNA expression in loss/gain of function studies.
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  • qPCR with intercalating dyes

    Apr 10, 2012, 19:27 PM by
    Need qPCR assays to use with intercalating dyes? You can obtain PrimeTime qPCR Primers to detect genes in human, mouse, and rat transcriptomes with intercalating dyes such as SYBR® Green and EvaGreen®. Because our primer only and probe-based assays use the same designs, when you decide to include probes in your assays, you can just request the probes that go along with these same primer sequences.
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  • RNAi and DsiRNA: Pathway, mechanism, and design

    Sep 12, 2011, 05:00 AM by
    Read this overview of the RNA interference (RNAi) pathway. Learn about its applications and design considerations for gene silencing experiments.
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  • Determining the physical characteristics of your oligos

    Jun 15, 2012, 20:03 PM by
    Use this free web tool to determine many of the physical characteristics of your oligonucleotides. By simply inputting your sequence, you can find out its length, GC content, melting temperature range, molecular weight, extinction coefficient, and optical density.
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  • Fast and accurate assembly of gene fragments

    Aug 16, 2012, 20:34 PM by
    Learn how you can quickly assembly genes using custom dsDNA fragments, now available up to 3 kb each. gBlocks Gene Fragments and Gibson Assembly Master Mix provide a fast and accurate protocol.
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  • Scale and yield—are they the same?

    Jan 18, 2013, 22:41 PM by
    When you order a certain amount of oligo, how much are you going to recieve? Review the distinction between the amount of starting material used for synthesis vs the amount of final product recovered.
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  • A new renaissance for antisense in the era of lncRNA

    Jul 17, 2015, 05:00 AM by
    Noncoding RNAs such as lncRNA, are much more prevalent in humans than protein-coding RNA. Antisense oligonucleotides (ASO), previously used for knockout experiments, are being employed to study the role of noncoding RNAs in gene regulation. ASOs provide several advantages over siRNAs (and DsiRNA) for this purpose.
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  • Better PCR probes: A second quencher lowers background, increasing signal detection

    Mar 29, 2013, 15:02 PM by
    Modification Highlight: Add the ZEN Quencher as a second, internal quencher in qPCR 5’-nuclease assay probes to obtain greater overall dye quenching, lowering background, and increasing signal detection. When incorporated into oligonucleotides, it also serves to strengthen duplex formation and block exonuclease digestion, while remaining nontoxic to cells. Thus the ZEN Quencher can be useful in steric blocking antisense oligonucleotide applications.
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  • Using antisense technologies to modulate noncoding RNA function

    Mar 29, 2013, 15:16 PM by
    RNase H–dependent antisense silencing using gapmer ASOs is a powerful tool for specific modulation of nuclear noncoding RNAs. Review these useful modifications and design considerations for effective antisense oligonucleotides.
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  • Considerations when adopting published sequences for your own qPCR assay

    Apr 24, 2017, 18:20 PM by
    Lab tip: Published papers that use qPCR applications are a resource of vetted assay sequences. These can be co-opted and converted to more sensitive, double-quenched probes for use in your own experiments. Before ordering, though, go through this checklist to ensure that these sequences will work well in your assays, and consider up-to-date PrimeTime Predesigned qPCR Assays with guaranteed efficiencies of >90%.
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  • SYBR to 5&prime; nuclease assays

    Mar 16, 2011, 05:00 AM by
    Product spotlight: Researchers often use intercalating dyes, like SYBR® Green I, for qPCR experiments for the advantage they bring in lowered price and reduced turnaround time. However, the disadvantages to using these reagents are significant. Read how easy it is to convert to 5’ nuclease assays and the advantages the addition of a hydrolysis probe will provide.
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  • qPCR assay plates for large and high throughput studies

    Mar 29, 2013, 17:08 PM by
    Customize qPCR assay plates for probe-based or primer alone assays. You can mix different dye-quencher combinations and request replicate plates. And no need to fill every well.
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  • Using site-directed mutagenesis to elucidate structure: function relationships

    Jun 17, 2011, 05:00 AM by
    Read how this research group uses site-directed mutagenesis to identify critical small RNA binding regions and transcription factor regulation in E. coli.
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  • Starting with RNA—one‑step or two‑step RT‑qPCR?

    Sep 12, 2011, 05:00 AM by
    Starting with RNA? When performing real-time qPCR, one has to decide whether to use a one-step protocol that combines the RT reaction and PCR in one tube, or a two-step protocol where the RT reaction is performed separately from the PCR. Here are some guidelines.
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  • A conversation about qPCR with Jo Vandesompele

    Jan 10, 2012, 06:00 AM by
    Research profile: An interview with Dr Jo Vandesompele, internationally recognized expert on quantitative PCR, discussing the common issues researchers face when using qPCR, and the future direction of qPCR technology.
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  • “Boomerang”—targeting cancer treatments to cancer cells

    Feb 8, 2016, 06:00 AM by
    Research profile: Read about how the 2015 Ben-Gurion iGEM team used a CRISPR-Cas9 transactivation system to develop a highly specific cancer targeting tool, with both diagnostic and therapeutic potential.
    Full story
  • Easily designed standard curves for qPCR

    Jul 5, 2013, 14:27 PM by
    Adopt this easy way to combine control templates/multiple targets onto a single construct, and get the advantages that they provide for PCR experiments.
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  • Digital PCR—simplifying quantitative PCR

    Jul 5, 2013, 16:55 PM by
    Review the theory behind why digital PCR makes gene expression quantitation easier & more accurate. Raindance Technologies describes how they use IDT ZEN & LNA probes to improve the signal-to-noise ratio and rare allele detection in their multiplex experiments.
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  • DNA methylation analysis—keeping it simple

    Jul 1, 2013, 17:42 PM by
    Research profile: Use of methylation-sensitive restriction enzymes and probe-based PCR to provide methylation percentage for specific amplicon regions (primarily promoters). Read how IDT ZEN Double-Quenched Probes, PrimeTime qPCR Assays, and gBlocks Gene Fragments augment this analysis.
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  • Optimizing multiplex qPCR for detecting infectious diseases and biothreat agents in the field

    Sep 25, 2013, 19:14 PM by
    Researchers at Tetracore specialize in developing large sets of robust probe-based qPCR assays for use in a multiplex format to detect infectious diseases and bio-terrorism threat agents. Here they discuss the need to: use probe dyes compatible on common PCR instruments, maintain low background with multiple probes, and reformulate assays to address viral mutation; and how ZEN™ Double-Quenched Probes have helped meet these criteria.
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  • Codon optimization tool makes synthetic gene design easy

    Oct 22, 2015, 05:00 AM by
    Use the free IDT Codon Optimization Tool to simplify designing synthetic genes and gBlocks Gene Fragments for expression in a variety of organisms. The tool allows for manual changes, and takes into account natural codon bias and synthesis complexity.
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  • CRISPR and Cas9 for flexible genome editing

    Dec 13, 2013, 06:00 AM by
    Clustered Regularly Interspaced Short Palindromic Repeats (CRISPRs) are sequences that serve as an adaptive defense ("immune") systems in bacteria and archaea. Learn how scientists have coopted this natural mechanism for targeted gene editing or removal. This article also describes some of the early applications for which this technology is being used.
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  • Functional nucleic acids as antibody alternatives for small molecule detection

    Feb 4, 2016, 06:00 AM by Nolan Speicher
    Research profile: Learn how 2015 iGEM Team Heidelberg students applied functional nucleic acids to design high-affinity, ligand-specific aptamers, in just hours, and without SELEX. Read how the team applied these molecules in western blots, to repair a mutated mRNA, and in a date rape drug test strip. Their DNA aptamer sequence designs were synthesized as single-stranded DNA oligonucleotides by IDT.
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  • Digital PCR (dPCR)—What is it and why use it?

    Oct 21, 2013, 05:00 AM by Nolan Speicher
    Read this general summary of dPCR, and how it can be used for qPCR applications, including multiplex qPCR.
    Full story
  • Do your qPCR assays come with sequence information? They should, and here is why.

    Aug 29, 2014, 05:00 AM by Nolan Speicher
    qPCR assays (primer & probe sets) from other suppliers are often provided without sequence information. IDT always gives you the sequences to the oligos you order. And that can be very important. Read why.
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  • Czech Republic iGEM team's diagnostic for circulating tumor cells

    Jan 27, 2016, 06:00 AM by Nolan Speicher
    Research profile: Read how students participating on the Czech Republic’s first iGEM team reprogrammed yeast cells to identify circulating tumor cells. Their project, the IOD Band, could become a general diagnostic test for early detection and mapping of tumor cell mobility. IDT gBlocks® Gene Fragments facilitated rapid, construct assembly of IOD Band receptor molecules.
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  • Is GAPDH a good reference sequence?

    Jul 5, 2013, 05:00 AM by Nolan Speicher
    What internal controls are you using? Housekeeping genes are frequently used as internal controls. However, they may not be the best choices due to lesser known functions and the presence of pseudogenes, some of which, as in the case of GAPDH—used here as an example—may be expressed.
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  • How to avoid false positives in PCR and what to do if you get them

    Jul 5, 2013, 05:00 AM by Nolan Speicher
    Do you know what causes false positives in the negative template control sample during PCR? Review the causes and get these suggestions for preventing them.
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  • Increasing ddPCR performance in low target HIV assays

    Jan 6, 2016, 06:00 AM by Nolan Speicher
    Learn how Dr Matthew Strain’s lab used ZEN Double-Quenched qPCR Probes in ddPCR to achieve higher sensitivity and lower background signal in experiments with low copy number samples, where individual droplets matter.
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  • Measuring promoter-driven transcriptional noise in <em>E. coli</em>

    Feb 10, 2016, 06:00 AM by Nolan Speicher
    Research profile: Read about how gBlocks Gene Fragments facilitated the College of William & Mary’s iGEM project on promoter stochasticity (“noise”), which won the Grand Prize at the 2015 iGEM Giant Jamboree.
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  • MGB Eclipse Probes for human <em>in vitro</em> diagnostics

    Jun 23, 2015, 05:00 AM by Nolan Speicher
    Product spotlight: Obtain MGB Eclipse Probes for human in vitro diagnostic end-use applications. Selecting MGB Eclipse Probes made by the IDT GMP manufacturing division provides you with complete process transparency and product traceability, in addition to consistent, reliable oligonucleotide quality.
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  • Observing subpopulations within cloned plasmids using NGS analysis

    Jun 1, 2016, 05:00 AM by Nolan Speicher
    IDT is transitioning sequence verification of our Genes products from Sanger sequencing methods to NGS. Read more to find out what the benefits are when using NGS for analysis of cloned genes.
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  • Towards next generation biosensors

    Nov 2, 2015, 06:00 AM by Nolan Speicher
    Research profile: Read how fluorescent protein-based Ca2+ indicators based on naturally occurring substrates are assembled using gBlocks Gene Fragments. These sensors are being developed to monitor in vivo neural activity.
    Full story
  • Assembling gene fragments using isothermal assembly

    Apr 11, 2012, 05:00 AM by Nolan Speicher
    Learn how to use the Gibson Isothermal Assembly method to quickly combine gene fragments, such as IDT gBlocks Gene Fragments, into large constructs.
    Full story
  • Benefits of codon optimization

    Apr 27, 2016, 05:00 AM by Nolan Speicher
    Planning to express a gene in an heterologous system? Learn how rebalancing codon usage is important for optimizing protein expression. While there are no known methods to predict protein expression, as numerous factors contribute to ultimate protein yield, codon optimization plays a critical role.
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  • Easy gene assembly—gBlocks Gene Fragments

    Apr 11, 2012, 05:00 AM by Nolan Speicher
    Could your research benefit from faster gene assembly? gBlocks® Gene Fragments are 125–3000 bp, custom double-stranded DNA fragments of your specified sequence. Use them for all your cloning applications.
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  • Consistent, high performance genome editing

    Nov 24, 2015, 19:26 PM by Ellen Prediger
    Product spotlight: Looking to improve the performance of your CRISPR-Cas9 genome editing application? The Alt-R™ CRISPR-Cas9 System offers potent on-target editing, easy implementation, and reduced cellular toxicity.
    Full story
  • Planning to work with aptamers?

    Mar 15, 2016, 05:00 AM by Nolan Speicher
    IDT does synthesizes aptamers and aptamer libraries, and there are hundreds of published research papers describing the successful use of such sequences. Learn about aptamers, SELEX, and how IDT can assist you with reagents for your aptamer applications.
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  • Sample preparation for successful qPCR

    Jan 10, 2012, 06:00 AM by Nolan Speicher
    Read about qPCR sample preparation and what experimental details you should consider for obtaining accurate and consistent results.
    Full story
  • Melt-curve analysis for improved intercalating dye qPCR

    Apr 19, 2015, 05:00 AM by Nolan Speicher
    The benefits and limitations of melt-curve analysis are presented in this IDT-hosted webinar. Learn how PrimeTime Predesigned qPCR Primer Assays are compatible with intercalating dyes, and how they can be transitioned to probe-based assays.
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  • Obtain high efficiency qPCR results using PrimeTime Gene Expression Master Mix

    Oct 29, 2015, 05:00 AM by Nolan Speicher
    Product Spotlight: If you are doing 5′ nuclease assays for qPCR or 2-step qPCR, use this versatile master mix in both singleplex or multiplex. It is compatible with a wide range of instruments, works under standard or fast cycling conditions, and can be used with or without a range of reference dyes.
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  • Oligo modifications that block nuclease degradation

    Jan 14, 2014, 06:00 AM by Nolan Speicher
    Modification Highlight: Are you working with your oligos in cells culture or in vivo? Find out which modifications can be added to an oligo to limit nuclease degradation.
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  • Targeted sequencing for acute myeloid leukemia

    Jan 14, 2016, 06:00 AM by Nolan Speicher
    Use this NGS target enrichment panel, composed of >11,500 xGen Lockdown Probes, to sequence more than 260 genes associated with the acute myeloid leukemia (AML) disease pathway.
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  • The gene construction revolution

    Jul 21, 2014, 05:00 AM by Nolan Speicher
    See how use of high-quality, custom dsDNA fragments as a starting material allows you to turn what might otherwise be multi-step cloning assemblies into simpler reactions.You can often just order the entire target sequence ready for cloning or other uses.
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  • Discriminating highly similar transcripts using rhPCR

    Jun 3, 2014, 05:00 AM by Nolan Speicher
    Research profile: Read about the uses of RNase H-dependent PCR, a technology developed by IDT to increase PCR specificity and eliminate unwanted interactions between primer sets (e.g., primer-dimers, etc.). An example is provided in which it is used to distinguishing highly similar alternatively spliced sequences. This technology can also be useful in genotyping applications, in highly multiplexed qPCR assays, library construction for Next Generation DNA Sequencing, and for rare allele detection, where the added specificity provided by the blocked-cleavable primers enables detection of a rare mutant allele in a background of large amounts of wild type DNA.
    Full story
  • Towards providing personalized medicine—considerations for reliable NGS data

    Oct 18, 2017, 22:14 PM by Nolan Speicher
    Research profile: Read how scientists at Geneseeq Technology, Inc. improved their target capture methods to increase accuracy in clinical diagnostics by using optimized blocking oligos and stringent hybridization conditions.
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  • Advantages of high quality, probe-based gene capture panels

    Mar 13, 2015, 05:00 AM by Nolan Speicher
    Target enrichment by hybrid capture lets you focus your genomic analysis on specific regions of interest, increasing depth of coverage of targeted sequences and improving the detection of rare genomic events. You can create custom human gene capture panels quickly and cost-effectively using IDT preconfigured pools of probes targeting the coding sequences (CDS) of human protein-coding genes, or with predesigned disease or exome panels.
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  • Generate consistent, reliable exome sequencing results

    Oct 18, 2017, 23:08 PM by Nolan Speicher
    Spanning 39 Mb of the human genome, the xGen Exome Research Panel was designed to provide uniform and specific coverage of the coding regions for 19,396 genes. You can easily and cost-effectively expand this panel to include specific non-coding target regions through addition of xGen Lockdown Probes.
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  • Could your PCR be affected by contamination?

    Aug 5, 2015, 05:00 AM by Nolan Speicher
    Learn how to prevent false amplification from DNA contamination, and how to address contamination when it does occur.
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  • Inverted bases

    Nov 30, 2015, 06:00 AM by Nolan Speicher
    Learn how inverted bases allow you to reverse the orientation of part of your oligo sequence or add a 5′-end restricted modification to the 3′ end of your sequence.
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  • A qPCR master mix stable enough for ambient shipping

    Jun 1, 2016, 05:00 AM by Nolan Speicher
    Product spotlight: Choose a qPCR master mix shipped at ambient temperature. Why? PrimeTime Gene Expression Master Mix consistently provides high qPCR efficiency, and ambient shipping directly benefits you by reducing shipping costs and time. Ambient shipping is also environmentally friendlier, as fewer resources are required to make and dispose of dry or gel ice packaging materials. Learn more about the strong thermal stability of this master mix.
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  • CRISPR genome editing: 5 considerations for target site selection

    Aug 18, 2016, 05:00 AM by Nolan Speicher
    Read how your genome editing experiments can be improved with these 5 quick tips for target selection
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  • Webinar: Alt-R CRISPR-Cas9 System ribonucleoprotein delivery optimization

    Jun 1, 2016, 05:00 AM by Nolan Speicher
    Genome editing using a Cas9:tracrRNA:crRNA ribonucleoprotein (RNP) provides excellent editing efficiency, while reducing off-target editing and cell death. Watch this recorded presentation to find out how to easily generate and deliver CRISPR RNAs and Cas9 nuclease in an RNP format, using the optimized Alt-R® CRISPR-Cas9 System.
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  • Genome editing tip: A CRISPR RNA annealing step can increase editing efficiency

    Sep 9, 2016, 05:00 AM by Nolan Speicher
    Looking for ways to increase the genome editing activity in your CRISPR experiments? This quick test suggests that spending a little extra time to anneal CRISPR RNAs will provide improvement.
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  • Improve probe-based qPCR experiments

    Oct 14, 2016, 05:00 AM by Nolan Speicher
    Webinar summary: Learn about the benefits of our PrimeTime® Gene Expression Master Mix for qPCR experiments. The presentation covers singleplex and multiplex experiments, online tools for planning qPCR experiments, and a discussion of the excellent thermal stability of the master mix.
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  • Tips for working with gBlocks Gene Fragments

    Apr 25, 2017, 05:00 AM by Nolan Speicher
    Working with IDT custom, synthetic dsDNA fragments? Get these tips from our scientists on the best ways to resuspend, quantify, and calculate copy number of gBlocks Gene Fragments.
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  • Using CRISPR genome editing for gene knockout and homology-directed repair

    Apr 13, 2017, 05:00 AM by Nolan Speicher
    Webinar review: Watch our webinar recording for expert guidance on a complete CRISPR genome editing workflow, including available tools and protocols. Also, see what we have learned about homology-directed repair and a new option for repair templates.
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  • Aptamer-based electrochemical biosensors using methylene blue as a redox reporter

    May 8, 2017, 05:00 AM by Nolan Speicher
    Modification highlight: Did you know that methylene blue, one of the stains commonly used in cytology, can also function as a reporter molecule in non-colorimetric assays? Learn about the novel use of methylene blue in aptamer-based, electrochemical biosensors for both diagnostics and basic research applications.
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  • Attach modifications after oligo synthesis using Azide (NHS Ester)

    May 15, 2017, 05:00 AM by Nolan Speicher
    Need to perform a click chemistry reaction? Start with an azide-modified oligo from IDT, to which you can add alkyne modifications, post-synthesis, in either copper-mediated or copper-free click reactions. Order Azide NHS (Ester) and other modifications from IDT. We will consider any requests.
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  • Improve the specificity of SNP genotyping

    Sep 1, 2017, 05:00 AM by Nolan Speicher
    Webinar summary: This novel, simple genotyping method uses blocked, cleavable primers and RNase H2 to prevent off-target and primer-dimer interactions. Learn how these single-tube reactions, easily run in high-throughput mode, can improve the accuracy and sensitivity of your genotyping experiments.
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  • A novel, high-fidelity Cas9 improves CRISPR editing accuracy without sacrificing performance

    Sep 29, 2017, 05:00 AM by Nolan Speicher
    Webinar summary: Interested in reducing Cas9 off-target editing events? A high-fidelity Cas9 can provide more accurate CRISPR genome editing.
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  • Using DsiRNA to map pain pathways in the CNS

    Sep 12, 2011, 05:00 AM by Nolan Speicher
    DsiRNAs (Dicer-substrate RNAs) are chemically synthesized 27mer duplex RNAs that have increased potency in RNA interference compared to traditional 21mer siRNAs. Read this example of a research group using the technology for in vivo delivery to the CNS.
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  • Pakistani iGEM team’s biosensor detects vehicle emission levels

    Mar 8, 2017, 06:00 AM by Nolan Speicher
    Research profile: Learn how the first ever Pakistani iGEM team developed a portable, inexpensive vehicle emissions test to address air pollution. They used gBlocks Gene Fragments for construction of genetic circuits to detect carbon monoxide and nitrogen oxides. The colorimetric biosensor won this young research team a bronze medal at the 2016 iGEM International Jamboree.
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  • iGEM, and the vision for the next generation of synthetic biology researchers

    Dec 6, 2016, 06:00 AM by Nolan Speicher
    Randy Rettberg, Co-founder and President of iGEM, discusses the 2016 iGEM competition in this video interview. Learn about his vision for the future for the students that participate in iGEM, as well as the future of synthetic biology.
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  • Analyzing microbiomes—their impact on our health and our environment

    Dec 19, 2016, 06:00 AM by Nolan Speicher
    Research profile: One of the leading experts in microbiome research and founding member of the Human Microbiome Project, Dr Rob Knight looks for connections between the microbiomes of people and places to human and environmental health. Learn how the Knight lab addresses the challenges of DNA isolation and 16S rRNA primer design and validation for the diverse microbiota that comprise these study samples.
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  • Towards real-time imaging in single, living cells

    Apr 11, 2012, 05:00 AM by Nolan Speicher
    Learn how this research team is developing oligonucleotide technologies for detection and quantification of specific RNA transcripts in live cells using molecular beacons and gBlocks Gene Fragments.
    Full story
  • Dengue, Zika transmission slowed by <em>Wolbachia</em> bacterium

    Jul 28, 2016, 05:00 AM by Nolan Speicher
    The Eliminate Dengue Program is a multinational research organization dedicated to reducing the spread of mosquito-transmitted diseases. Learn about how IDT is supporting their work, which has recently made breakthroughs for dengue and Zika virus mitigation.
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  • Genome editing in <em>C. elegans</em> using the Alt-R CRISPR System

    Sep 12, 2016, 05:00 AM by Nolan Speicher
    Scientists in the Dernburg lab have successfully executed CRISPR genome editing in C. elegans. Read this research profile to learn about their approach to editing, homology directed repair, and progeny screening. An abbreviated method and link to a full protocol are also provided.
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  • Protocols for CRISPR genome editing in your model system

    Oct 31, 2017, 20:51 PM by Ellen Prediger
    Looking for CRISPR genome editing protocols? Read about our growing library of protocols and user methods—we may have what you need to get started. And, if you have a novel protocol for using Alt-R CRISPR RNA and/or nucleases, find out how to share it with the research community.
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  • Genome editing: How stable is my CRISPR RNA:Cas9 RNP complex?

    Jul 25, 2016, 05:00 AM by Nolan Speicher
    You can safely complex CRISPR RNAs with Cas9 in advance of your experiments and store these RNPs for future use. Store CRISPR RNPs at 4°C for up to 2 weeks, or at –80°C long-term. RNP complexes stored in this way provide the same high level of genome editing as freshly complexed RNPs.
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  • Improved PCR genotyping—obtain greater precision with RNase H2 activation of assay primers

    Oct 17, 2017, 21:45 PM by Ellen Prediger
    Learn about the core mechanism behind the IDT rhAmp Genotyping System and how it improves on existing 5′-nuclease PCR assay technologies.
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  • A modification that facilitates oligonucleotide uptake into cells

    Mar 16, 2011, 22:09 PM by Ellen Prediger
    Product spotlight: Incorporate Cholesterol-TEG into your oligonucleotides to facilitate uptake into cells. This modification has been used as a transfection aid for antisense oligos and siRNAs, both in vitro and in vivo.
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  • Attach oligos to ligands or surfaces

    Jun 17, 2011, 14:15 PM by Ellen Prediger
    Product spotlight: Thiol-modified oligonucleotides are used in attachment chemistry reactions to bind an oligo to a target. Targets are commonly gold molecules, but can also include a variety of fluorescent and nonfluorescent moieties.
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  • Increase oligo stability with phosphorothioate modifications

    Sep 12, 2011, 15:16 PM by Ellen Prediger
    Product spotlight: Need oligos that are nuclease resistant? Phosphorothioate bonds substitute a sulfur atom for one of the non-bridging oxygen atoms in the phosphate backbone of an oligonucleotide. Resistant to both endo- and exonucleases, this linkage provides increased oligo stability.
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  • Photo-cleavable spacer

    Apr 26, 2012, 16:27 PM by Ellen Prediger
    Product spotlight: This modification can be cleaved by a specific wavelength of UV light, fragmenting an oligo or releasing a terminal modification, such as a fluorophore.
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  • The story of Taq polymerase and Thomas Brock’s thermophiles

    Jan 10, 2012, 17:42 PM by Ellen Prediger
    Do you know the origin of Taq polymerase? Find out in this quick review.
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  • DRONE delivers oligos for promoter oligonucleotide pull-down assay

    Jun 30, 2015, 05:00 AM by Nolan Speicher
    An IDT customer who is using IDT oligos for a transcription factor pull-down assay, and qPCR assays for expression analysis, wins an April Fools' Day drone prize.
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  • Adenylated oligonucleotides provide direct substrates for T4 RNA ligase

    Apr 11, 2012, 19:40 PM by Ellen Prediger
    Product spotlight: Use the adenylation modification for ligation, miRNA library construction, next generation sequencing, 5’ end labeling, and ribosome assembly experiments.
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  • 5-Hydroxymethyl-dC for epigenetic research

    Apr 11, 2012, 20:02 PM by Ellen Prediger
    Naturally occurring 5-hydroxymethylcytosine (5-hmC) has been hypothesized to be an intermediate in a demethylation pathway or an additional epigenetic factor. Learn more about this exciting new modification.
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  • Barcoding life

    Jun 15, 2012, 20:43 PM by Ellen Prediger
    Research profile: The International Barcode of Life Project involves the construction of a comprehensive database of DNA sequence tags for eukaryotic life that links genetic, morphological, and ecological data. High throughput batch processing of samples requires quality and consistency of all components. Learn how the researchers use cocktails of IDT primers that work efficiently across a variety of taxa to amplify target DNA fragments.
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  • N6-methyladenosine (m6A)—modulating RNA localization, structure, stability, splicing, and translation

    May 9, 2016, 05:00 AM by Nolan Speicher
    Modification Highlight: Read about the mechanism of methylation and functions of N6-methyladenosine (m6A) modifications in the cell. N6-methyladenosine is available as a popular non-catalog modification from IDT, providing a substrate for studying the role of this natural, reversible, post-translational modification.
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  • Use splice junctions to your advantage in qPCR

    Jun 28, 2016, 05:00 AM by Nolan Speicher
    Get recommendations for avoiding PCR amplification of genomic DNA, as well as for identifying and quantifying splice variants, in this article on designing qPCR assays that span splice junctions.
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  • Oligopaints—visualizing the three-dimensional organization of the genome

    Jul 5, 2013, 14:14 PM by Ellen Prediger
    Research profile: See how this research group used modified oligos as probes for chromosomal mapping of specific sequence elements. The location of these sequence elements correlates with the 3D organization of the genome.
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  • qPCR probes—get the right scale at the right price

    Oct 18, 2013, 15:06 PM by Ellen Prediger
    Only running 100–500 amplification reactions with FAM-labeled probes? Get a better price by using the PrimeTime Eco probes mid-range reaction scale for researchers. It's cheaper per reaction than larger reaction sizes and provides double-quenched FAM probes.
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  • Design functional oligos with poly G runs

    Aug 27, 2015, 15:55 PM by Ellen Prediger
    Product spotlight: Insert this modification in a run of G residues to increase oligo yield and purity, eliminate secondary structure, improve probe-based qPCR signal, and increase duplex stability and mismatch discrimination.
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  • N6-Methyl deoxyAdenosine (N6-Me-dA)

    Aug 10, 2015, 18:53 PM by Ellen Prediger
    Product spotlight: Do you know about this competitive antagonist specific to P2Y1 receptors? N6-Methyl deoxyAdenosine (N6-Me-dA) modifications are useful in pharmacologic and research applications examining the effects of selective inhibition of P2Y1 receptors, which appear to play a role in blood clotting.
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  • Plates of custom, DNA fragments for high-throughput applications

    Aug 10, 2015, 19:18 PM by Ellen Prediger
    Obtain gBlocks Gene Fragments—custom synthesized double-stranded DNA fragments—in 96-well plates to facilitate large orders and high throughput use.
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  • 3D polyhedral meshes—simplifying nanoscale DNA structure designs

    Mar 15, 2016, 05:00 AM by Nolan Speicher
    Research profile: Learn how the Högberg Lab designed a simplified DNA scaffolding method, including software that quickly determines the “oligonucleotide staples” required to fold a ssDNA sequence into any desired shape.
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  • Need a non-standard modification?

    Mar 5, 2015, 20:39 PM by Ellen Prediger
    Need a modification you don’t find on our website? IDT offers 89 modifications that are not listed in our online catalog. A few of the more popular ones are described along with information on how to order them. IDT will consider any modification you have in mind. Just make a request at
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  • Delivering comprehensive genomic profiling for clinical cancer care

    May 5, 2015, 21:51 PM by Ellen Prediger
    Research profile: Scientists at Foundation Medicine, Inc. are leading a transformation in cancer care by helping clinicians to select appropriate treatment options for each patient, informed by a thorough understanding of the molecular changes specific to their disease. Read about the use of xGen® Lockdown® Probes in their flagship FoundationOne® Test.
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  • Methane-oxidizing bacteria for a reduced carbon footprint

    Dec 17, 2015, 06:00 AM by Nolan Speicher
    In 2015, IDT awarded Dr Patricia Tavormina with the inaugural ISO 14001 Sustainability Award for her innovative research on methane-oxidizing bacteria. Learn about Dr Tavormina’s work, and how her findings could someday guide methane mitigation strategies for a more sustainable future.
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  • Developing a qPCR point-of-care diagnostic for Ebola

    Jul 14, 2015, 05:00 AM by Nolan Speicher
    Learn how Ubiquitome, Battelle, and IDT are developing a rapid qPCR Ebola virus test for easy use in the field. The PrimeTime qPCR assay is designed to be run on Ubiquitome’s hand-held, battery powered real-time PCR device, the Freedom4.
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  • Oligonucleotide quality requirements for mutagenesis protocols

    Jan 10, 2012, 20:25 PM by Ellen Prediger
    Can oligo purity affect the success of mutagenesis experiments? Read about the Importance of oligo purity and how IDT tests its oligos to ensure they meet high purity standards.
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  • G repeats—structural challenges for oligo design

    Jan 17, 2013, 20:40 PM by Ellen Prediger
    G-quadruplexes are formed from the stacking of two or more G-tetrads, which occur naturally in sequences with short G base repeats. Find out more about G-quadruplexes and how they can affect oligonucleotide synthesis and applications.
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  • In vivo delivery of aptamer–DsiRNA molecules targeting HIV-1

    Mar 29, 2013, 20:25 PM by Ellen Prediger
    Citation summary: Learn how these scientists improve on in vivo siRNA delivery using a modified aptamer-DsiRNA (Dicer-substrate RNA; IDT) molecule to inhibit HIV-1 replication.
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  • Target enrichment identifies mutations that confer fitness effects

    Jun 28, 2013, 20:47 PM by Ellen Prediger
    Research profile: Learn how target enrichment using xGen® Lockdown® Probes and NGS were used to track the frequency of mutations in evolving bacterial populations. The research team gauge mutational importance based on their fitness effect.
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  • Small RNA regulation of guanine quartet formation and antigenic variation

    Nov 7, 2017, 00:01 AM by Ellen Prediger
    Citation summary: Read how these researchers used gBlocks Gene Fragments to create a mutated version of a small RNA to show how it facilitates the formation of a guanine quartet.
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  • Innovative therapeutic antibodies—synthetic variable regions

    Jul 8, 2013, 23:26 PM by Ellen Prediger
    These researchers use gBlocks® Gene Fragments to synthesize antibody variable regions to create novel heavy/light chain combinations. Learn how they do it.
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  • 3D DNA canvas—synthetic DNA learns new tricks

    Oct 21, 2013, 09:10 AM by Ellen Prediger
    Research profile: These scientists assemble DNA bricks (32mers) to create complex, nanostructure shapes. Read how they use DNA bricks to design 3D structures.
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  • A high throughput, high resolution melting protocol for identifying single-nucleotide polymorphisms

    Oct 21, 2013, 18:42 PM by Ellen Prediger
    Citation summary: Review this protocol for rapid SNP evaluation by HTP melt-curve analysis. IDT gBlocks® Gene Fragments provide quick and easily constructed melt-curve controls.
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  • Double-quenched probes increase sensitivity of qPCR assay detecting viral load

    Jan 15, 2014, 20:07 PM by Ellen Prediger
    Citation summary: Use of a ZEN™ Double-Quenched Probe results in a marked decrease in background fluorescence compared to an identical TaqMan® probe containing only a single quencher. The data suggest that such double-quenched probes may be a better approach for other qPCR probe-based assays.
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  • Libraries of double-stranded DNA fragments

    Dec 9, 2013, 20:44 PM by Ellen Prediger
    Product spotlight: Obtain double-stranded DNA fragment libraries that contain up to 18 consecutive N or K bases for generating up to 418 sequence variations.
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  • Double-quenched probes increase qPCR sensitivity and precision

    Sep 16, 2013, 19:51 PM by Ellen Prediger
    Review data demonstrating that ZEN™ Double-Quenched Probes in qPCR assays provide increased signal detection and greater assay sensitivity than single-quenched probes, such as probes with BHQ Quenchers. ZEN and TAO Double-Quenched Probes also make it more feasible to use longer probes due to the resulting lower background fluorescence.
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  • A fast, sensitive, cost-effective alternative to radiolabeling and HPLC/MS for measuring dNTPs

    Oct 21, 2013, 20:08 PM by Ellen Prediger
    Citation summary: Learn how these researchers avoid using radiolabel to quantify cellular dNTPs. This rapid, sensitive fluorescence-based method uses synthetic templates (IDT oligonucleotides), a PrimeTime® Primer, and ZEN™ Double-Quenched Probes.
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  • Improving immuno-PCR by optimizing antibody-oligo conjugation

    Mar 11, 2015, 05:00 AM by Nolan Speicher
    Immuno-PCR, a modified antigen detection method, uses antibodies coupled to DNA, followed by real-time PCR. Using IDT amino-modified oligos, see how this method can increase the sensitivity of antibody-target detection by 100–10,000X over standard ELISA assays. An Innova Biosciences kit and service include IDT oligos to generate the antibody-oligonucleotide conjugates. Innova affirms that the high quality of IDT oligos provides optimal conjugation.
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  • Exon numbering—not as easy as 1, 2, 3...

    Oct 3, 2013, 20:30 PM by Ellen Prediger
    Exon numbering and location data can differ across various software tools, including with NCBI's gene database. For example, exons within alternatively spliced transcripts are sometimes individually numbered, with no consistent gene-based numbering system across these transcripts for identifying exons. Learn how IDT exon location information gives each exon a unique number and how that compares with the NCBI naming system.
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  • Nanoparticle delivery of TNF-α targeting DsiRNA as treatment for rheumatoid arthritis

    Oct 21, 2013, 21:01 PM by Ellen Prediger
    Citation summary: Read how researchers use DsiRNA-loaded PLGA nanoparticles to mediate dose-dependent silencing of TNF-α in vitro.
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  • Augmenting pathology data with molecular profiling for improved cancer treatment

    Nov 10, 2014, 22:42 PM by Ellen Prediger
    Research profile: Foundation Medicine uses a unique approach to targeted next-generation sequencing to generate molecular information that will better inform cancer categorization and treatment decisions. Review this summary and view the presentation given at the 2014 Association for Molecular Pathology Annual Meeting (AMP) by Dr Geoff Otto (Foundation Medicine).
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  • gBlocks® Gene Fragments Ordering Tool

    Feb 26, 2015, 15:06 PM by Ellen Prediger
    Easy tool for uploading or entering gBlocks® Gene Fragments sequence requests, that also judges complexity, and allows you to edit the sequences on the spot.
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  • Understanding how distal regulatory elements control gene expression

    Mar 11, 2015, 21:51 PM by Ellen Prediger
    Research profile: Based on Chromosomal Conformational Capture technology, the Hughes Lab developed the Capture-C method for isolating distal regulatory elements that interact with specific promoters in 3 dimensional space. Learn how they combined Capture-C with target capture using IDT xGen® Lockdown® Probes, and NGS, to interrogate the regulatory landscapes of hundreds of genes in a single experiment.
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  • DNA mutations and copy number alterations identified in FFPE tumor samples suggest potential therapeutic targets

    Mar 27, 2015, 15:18 PM by Ellen Prediger
    Citation summary: Next generation sequencing was used to identify DNA mutations and copy number alterations in FFPE phyllodes tumor samples. Results were validated with Sanger sequencing and IDT PrimeTime® qPCR Assays.
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  • qPCR Probes—selecting the best reporter dye and quencher

    Apr 7, 2015, 17:08 PM by Ellen Prediger
    Review these recommendations for choosing dyes and quenchers, taking into account instrument compatibility and multiplex probe applications.
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  • Strategies for optimizing high throughput qPCR for expression profiling

    Sep 29, 2015, 20:19 PM by Ellen Prediger
    Webinar summary: Learn how to address the challenges of high throughput RT-qPCR expression profiling from a prominent qPCR expert, Dr. Mikael Kubista (TATAA Biocenter, Sweden).
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  • Assessing formulas that calculate Tm—do nearest-neighbor parameters matter?

    Sep 29, 2015, 21:32 PM by Ellen Prediger
    Should programs that predict Tm include nearest neighbor parameters? Learn which factors are critical for Tm calculation accuracy, and which online software takes them into account.
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  • Epigenetic biomarkers for prostate cancer

    Jan 14, 2014, 22:59 PM by Ellen Prediger
    Research profile: See how these scientists use methylation and expression analysis methods to evaluate epigenetic markers for early, noninvasive detection of aggressive prostate cancer. IDT PrimeTime qPCR Assays, ZEN Double-Quenched Probes, and gBlocks Gene Fragments facilitate this research.
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  • Undergraduate iGEM competition moves synthetic biology forward

    Mar 29, 2013, 15:47 PM by Ellen Prediger
    Find out about the 4 highest placing teams in the 2012 International Genetically Engineered Machine competition (iGEM) with a more in depth summary of 2nd place winner, Slovenia. The Slovenia team project engineered an inducible cellular switch (Switch-it System) for delivery of therapeutic drugs directly to target tissues.
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  • Creating a synthetic immune system for optimized immune profiling

    Jan 10, 2014, 17:35 PM by Ellen Prediger
    Research profile: Learn how scientists at Adaptive Biosciences developed a high-throughput method for sequencing and quantification of rearranged antigen receptors on T- and B-cells. They used gBlocks Gene Fragments to create a “gold standard synthetic immune system” where the binding sites for every possible forward and reverse primer combination for a given receptor type were represented.
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  • iGEM students engineer biological tools for a better world

    Aug 7, 2014, 19:05 PM by Ellen Prediger
    Projects from 2 of the prize-winning 2013 iGEM teams show how non-standard natural and synthetic amino acids can be used in 1) peptide synthesis, and 2) tuberculosis monitoring and treatment. Learn how both projects made use of gBlocks® Gene Fragments to speed construct assembly.
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  • Decoding Cas9 orthologs using gBlocks Gene Fragments

    Jan 15, 2014, 20:55 PM by Ellen Prediger
    Citation summary: Researchers use gBlocks® Gene Fragments to create Cas9 orthologs as well as tracRNA expression cassettes for each ortholog tested. Read how.
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  • Isothermal assembly: Quick, easy gene construction

    Jan 10, 2012, 21:14 PM by Ellen Prediger
    See how, in a single reaction, isothermal assembly can combine several overlapping DNA fragments to produce a ligated plasmid ready for transformation.
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  • Caffeine addicted bacteria—an iGEM project

    Nov 9, 2017, 21:37 PM by Ellen Prediger
    Citation summary: These researchers use IDT gBlocks® Gene Fragments in Gibson Assembly® reactions to generate some of the plasmid constructs in this work. See how these custom, double-stranded DNA fragments can streamline your research.
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  • iGEM teams engineer success with gBlocks Gene Fragments

    Aug 26, 2015, 21:07 PM by Ellen Prediger
    The 2015 iGEM teams have made significant progress on their projects. Read our interview with some of the teams to find out how the competition is going, and how they are using gBlocks® Gene Fragments.
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  • Recommended dye combinations for multiplex qPCR

    Jan 14, 2014, 22:50 PM by Ellen Prediger
    Review these recommendations for selecting dyes for multiplex qPCR that minimize background and avoid overlap of fluorescent signals. Included is a table of compatible dyes for multiplexing on common qPCR instruments and a list of suggested quenchers.
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  • CRISPR-Cas9 mediated HDR: Tips for successful experimental design

    Nov 10, 2017, 21:51 PM by Ellen Prediger
    Discover how type of donor template, template design, and choice of PAM site can affect efficiency of Cas9-mediated homology-directed repair (HDR). Then read the linked application note for detailed, step-wise guidance to maximize HDR rates in your own genome editing experiments.
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  • She prefers red—guppy mate preference

    Apr 22, 2015, 21:06 PM by Ellen Prediger
    Scientists from Simon Fraser University (British Columbia, Canada) use guppies as a model to study the evolution of female mate preferences for male coloration. Read more about their field study using PrimeTime® qPCR Assays, ZEN™ Double-Quenched Probes, and gBlocks® Gene Fragments.
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  • PrimerQuest® Tool: From basic to highly customizable designs

    Mar 29, 2013, 16:02 PM by Ellen Prediger
    Read these tips on how to use the PrimerQuest Tool to customize primers and probe for a wide variety of qPCR applications. Examples show how to adjust reaction conditions, add a probe to a set of previously designed primers, define primer positions, and include or exclude sequences from the assay designs.
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  • Improving vaccine development

    Mar 29, 2013, 17:39 PM by Ellen Prediger
    Learn about a directed, molecular evolution process employed by the biopharmaceutical company, Altravax, that uses in vitro DNA recombination to generate large libraries of recombined, chimeric DNA sequences that express potential vaccine candidates. IDT gBlocks Gene Fragments have proved instrumental in this high throughput technology.
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  • When dT is required for modification attachment

    Oct 21, 2013, 20:20 PM by Ellen Prediger
    Product spotlight: Certain modifications require a dT base in the oligonucleotide sequence in order to be added. Learn which modifications these are, and how to add them to your oligo sequence.
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  • RxnReady Oligos—premixed oligos for PCR and more

    Jan 16, 2014, 21:31 PM by Ellen Prediger
    Would getting your oligos premixed help speed up your research? Have 2 standard desalted DNA oligonucleotides premixed in a single tube according to your specifications. This can be useful when performing PCR, fluorescent dye RT-PCR, or when generating sets of insertions or deletions through site-directed mutagenesis.
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  • Insertion site detection and targeted RNA capture using NGS

    Jan 9, 2014, 22:06 PM by Ellen Prediger
    Research profile: See how scientists at Cofactor Genomics use in-solution hybridization to focus on regions of interest for next generation sequencing. Use xGen Lockdown Probes to determine number of inserts per genome and their location.
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  • How biotin became a tool of molecular biologists

    Jun 17, 2011, 05:00 AM by Nolan Speicher
    Have you noticed how biotechnology often coopts nature’s most useful tools? The naturally occurring, extraordinarily strong bond that forms between avidins and biotin has provided a useful tool that has enabled numerous techniques that would otherwise be impossible. Learn about biotin's history as a research tool.
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  • Nanoparticle encapsulation method delivers DsiRNA to difficult-to-transfect cells

    Nov 14, 2014, 20:47 PM by Ellen Prediger
    Research profile: Precision NanoSystems Inc has developed unique reagents and equipment that enable the simple assembly of novel nanoparticles, resulting in greatly improved delivery of RNA payloads. Learn about use of products to deliver DsiRNAs, 27-mer siRNAs, into primary hippocampal neuron cells and neuronal cells in vivo.
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  • HRP for sensitive hybridization probes

    Sep 30, 2015, 21:14 PM by Ellen Prediger
    Product spotlight: You can have HRP directly conjugated to hybridization probes to increase signal amplification in CARD-FISH protocols. Also use this oligo modification in nonradioactive immunoassays, northern/Southern blot analysis, and other in situ hybridization applications.
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  • Valuable support for genomics research

    Apr 6, 2016, 21:31 PM by Ellen Prediger
    Take advantage of the full list of products, services, and support IDT provides for genomics research. Whether you are performing sequencing, gene expression, genome editing, or synthetic biology experiments, IDT has cost-effective, rapid, high quality, and high throughput solutions.
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  • A next generation understanding of immune response

    Sep 12, 2012, 05:00 AM by Nolan Speicher
    See how scientists use gBlocksGene Fragments and PCR-amplified DNA in assembly PCR of antibodies to study the immune system's response to patients receiving flu vaccinations.
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  • Small RNA therapies for cystic fibrosis

    Mar 29, 2013, 05:00 AM by Nolan Speicher
    The McCray Lab (Univ IA, USA) used DsiRNAs to develop a protocol for efficient small RNA delivery into airway epithelia. The resulting method was then used to study miRNA regulation of gene products involved in airway fluid and electrolyte transport, cellular mechanisms linked to cystic fibrosis.
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  • Building biological factories for renewable and sustainable products

    Jan 18, 2013, 06:00 AM by Nolan Speicher
    Research profile: Read how Amyris uses genetic engineering and screening technologies to design microorganisms that convert plant-sourced sugars into target molecules, including pharmaceuticals, biofuels, polymers, flavors, and fragrances.
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  • Generating quick constructs for intracellular vesicular transport studies

    Jan 18, 2013, 06:00 AM by Nolan Speicher
    Research profile: gBlocks Gene Fragments can provide rapid and cheap access to new types of functional and structural elements. See how these researchers use the custom dsDNA fragments for construction of novel biological modules and cascades to better understand the tethering complexes and transcription-regulating complexes critical to intracellular vesicular transport.
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  • Single nucleotide resolution of RNA structure—SHAPE reagents

    Sep 20, 2012, 05:00 AM by Nolan Speicher
    Research profile: SHAPE chemical reagents differentially modify accessible nucleotides in an RNA molecule. Read how Dr Weeks and his team used SHAPE to elucidate the 3D structure of even very large RNAs.
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  • DeoxyInosine: Don’t call me a universal base!

    Jun 15, 2012, 05:00 AM by Nolan Speicher
    According to Nobel Laureate Michael Smith, deoxyinosine is not a universal base. Read why.
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  • A biotin:streptavidin alternative for non-radioactive hybridization assays—Digoxigenin

    Jun 15, 2012, 05:00 AM by Nolan Speicher
    Modification Highlight: Learn about Digoxigenin—a modification suitable for use as an alternative to biotin/streptavidin for non-radioactive hybridization applications.
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  • Understanding mass spectrometry of oligonucleotides

    Jun 17, 2011, 16:07 PM by Ellen Prediger
    IDT pioneered the use of mass spectrometry (MS) analysis for assessing oligonucleotide identity and monitoring quality during oligo synthesis. Read this review on mass spectrometry that includes examples of MS data and advice on data interpretation. Our follow-up article, ESI mass spectrometry, provides an introduction to ESI technology and why it is now our preferred method of MS quality control.
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  • The importance of melting temperature in molecular biology applications

    Apr 11, 2012, 05:00 AM by Nolan Speicher
    Learn how to predict and select appropriate melting temperatures for oligo hybridization steps, including PCR.
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  • Why are oligos synthesized 3′−5′?

    Jan 10, 2012, 21:14 PM by Ellen Prediger
    The cell may synthesize DNA from 5′−3′, but synthetic oligos are made much more efficiently in the 3′−5′ direction. Learn why in a brief history on in vitro synthesis of oligos.
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  • iGEM—extending the reach of synthetic biology

    Apr 10, 2012, 05:00 AM by Nolan Speicher
    Four teams talk about their creative applications of synthetic biology methods for the International Genetically Engineered Machine (iGEM) competition.
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  • Fluorescein—painting rivers green!

    Jun 17, 2011, 19:46 PM by Ellen Prediger
    One of the most ubiquitous modifications attached to oligos is the bright green fluorophore known as Fluorescein, FITC, or FAM (Fluorescein amidite). Attaching the fluorophore to oligonucleotides is not its only use though. Read on.
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  • Electroporation: An alternative to microinjection for creating genetically modified rodents

    Dec 22, 2017, 21:20 PM by Ellen Prediger
    The TAKE electroporation method outperforms microinjection for delivery of CRISPR genome editing reagents into rodent embryos. Obtain both mouse and iPS protocols as a starting point for your genome engineering experiments.
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  • Deletions during cloning

    Sep 21, 2012, 14:18 PM by
    Cloning by PCR amplification can sometimes lead to unwanted deletions in a proportion of the resulting clones. Learn steps you can take to avoid such events and increase the odds of generating correct clones.
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  • Genome editing in cell culture: Isolating single clones for genotypic and phenotypic characterization

    Jan 31, 2018, 15:56 PM by
    Frustrated by the tedious, inefficient limited dilution process? Find out how an IDT-validated, single-clone isolation protocol can accelerate phenotypic characterization of your edited clones.
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  • 4 tips for accurate oligonucleotide quantification using Thermo Scientific™ NanoDrop™ instruments

    Jan 29, 2018, 16:40 PM by
    Did you know each oligonucleotide has its own specific conversion factor? Learn how to accurately determine the concentration of your oligonucleotides using Thermo Scientific NanoDrop instruments. Follow these recommendations from the scientists of IDT and Thermo Fisher Scientific.
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