Hybridization is a common step of many, if not most, molecular biology protocols. For example: northern and Southern analysis, PCR/qPCR, cloning, in situ hybridization, array analysis, gene knockdown, and next generation sequencing (NGS).
The criteria for hybridization are based on nucleic acid strand melting. Therefore, an understanding of melting temperature (Tm) provides information on when and how the DNA or RNA strands are going to hybridize and defines the rules for hybridization. It is very important to understand this process so that you can better design and optimize the oligos for your experiments.
This is why Integrated DNA Technologies have put together this nice article so that you can understand Tm better and hopefully design better oligonucleotide based experiments.
This is probably a good time to mention IDT’s useful OligoAnalyzer online tool.
A short article from Integrated DNA Technologies (IDT), about their exome targeted sequencing panel.
In my mind there is no better manufacturer of DNA oligos than IDT. Synthesizing many thousands of capture oligos (and biotinylating them) seems like an insane task, but IDT have done it. And what is the result? Now you can obtain deep and uniform coverage of the coding regions for 19,396 genes, minimizing the need for further analysis. Spanning 39 Mb of the human genome, the xGen® Exome Research Panel I is compatible with common sequencing platforms.
I love IDT’s gBlocks and I think it’s fair to say that many of IDT’s customers like them – at least based on my experience here in Denmark. The best compliment they’ve been paid is imitation from at least one, rather large company in the same field.
Apart from being a true innovation in the synthetic biology field (and yes, I do realize that the word “innovative” is massively over-used in life science marketing), gBlocks greatly reduced (more or less halved) the cost of ordering genes, but in addition IDT still keep improving this product line. Hence the subject of this posting.
So basically, IDT have kept the cost of gBlocks the same, but increased the amount of product you receive. Details below.
Although qPCR seems to have been around for ever, I realize that not everyone is as familiar with it as I am. It’s often easy for me to assume, when talking to my customers, that they are familiar with the terms most commonly associated with using qPCR. While I’m no expert in the use of qPCR, I’ve been involved with it in some way (i.e., on the product sales and marketing side) for close to 15 years. So, it’s easy to forget that, for some people who are just getting started in research, this stuff is mostly new to them.
Here, I’m bringing your attention to a recent DECODED article from Integrated DNA Technologies (IDT) called
I particularly recommend newbies to check out the links at the end of the article to the MIQE Guidelines and IDT’s very own qPCR Application Guide.
Oh, I’ve been sitting on this article for weeks, but I’m pretty sure that most of you haven’t read it yet. It’s a short article about IDT – “Why Modern Molecular Biology Needs Oligos.” Now, I think that it’s not just modern molecular biology that has needed oligos, but the point is that molecular biology labs need the best possible oligos. Given IDT’s decades-old commitment to quality and innovation – at the right price – they are demonstrably the place to get them.
Once again, IDT is offering great help to iGEM teams by partnering with iGEM to help participating teams achieve their project goals.
IDT is offering 20 kb of DNA as gBlocks® Gene Fragments free of charge to each iGEM 2015 team. This offer will be effective April 1, 2015 for 2015 teams whose registrations have been accepted by iGEM (restrictions may apply in some countries). Please register here. After registration you will receive an email with instructions on how to order within 5 business days.
Learn how CRISPR Genome Editing can be used to easily modify genomic sequences, as well as implementing CRISPR/Cas9 genome editing in cell culture.
Register for IDT’s webinar “iGEM Success Using High Quality Gene Fragments” on April 29, 2015. We will present examples of past iGEM projects to illustrate how gBlocks Gene Fragments can help your team. Choose from 2 presentation times: 9:00am CDT or 1:00pm CDT. More information can be found at our registration page.
Learn more about IDT’s gBlocks® Gene Fragments
Detect Genetic Variations with the Surveyor® Mutation Detection Kit
Surveyor® Mutation Detection Kits provide a simple and robust method to detect mutations and polymorphisms in DNA. For many labs it is the method of choice for analysis of genome editing experiments (CRISPR/Cas9, TALEN, ZNFs, etc.).
- Detect base-substitution and insertion/deletion mismatches
- Identify mutations in DNA fragments up to 3.5 kb in a single reaction
- Quickly determine the number of mutations from the number of cleavage products
- Detect rare variant alleles (as few as 1 in 32) in pooled samples
- Use with various analysis platforms
Integrated DNA Technologies (IDT) have helpfully collected a bunch of gBlocks citations and – even more helpfully – categorized them according to application. So, if you are interested in CRISPR/Cas9, biofuels, mutagenesis, NGS, you can quickly find relevant publications where gBlocks have been used.
Here is IDT‘s most recent webinar on CRISPR and some ideas on getting started on it (hint: you will need long, high-fidelity, synthesized oligonucleotides. Now, which company is the best source of those? Hmm..).
Enjoy the video!
Happy New Year to you and yours! I’m currently in an excited mood because there are a number of changes in the pipeline for You Do Bio that I believe will be interesting to many of the researchers I work with in Denmark and the rest of Scandinavia. Let’s keep it hush-hush for now…however, to start 2015, I wanted to bring your attention to this interesting webinar from Integrated DNA Technologies:
Rewriting the Genome Using CRISPR and Synthetic Biology
Wednesday, January 21, 2015
Session 1: 9:00–10:00 am CST
Session 2: 1:00–2:00 pm CST
The webinar will be presented by Dr Adam Clore, Manager of Synthetic Biology Design and Support at IDT.
Dr Clore will describe the CRISPR mechanism and some of the most prominent uses for CRISPR, along with methods where IDT technologies can assist scientists in designing, testing, and executing a variety of CRISPR-mediated experiments.
Is your lab using oligonucleotides or PCR for gene construction and cloning? Perhaps you would describe yourself as a synthetic biologist? If so, you should consider gBlocks® Gene Fragments.
gBlocks Gene Fragments are double-stranded, sequence-verified genomic blocks, 125 to 2000 bp in length, and are easy to order. gBlocks provide a straightforward, affordable solution for a range of research applications, including CRISPR/Cas 9 targeting and genome editing.
Hans Packer, scientific writer at IDT, has put together a very nice article on how the development of long custom, double-stranded DNA products are driving a revolution in gene construction.
This particular subject (NGS metrics) has always been a head-scratcher for me, even though I shamefacedly admit that I am supposed to know this stuff, having been involved in targeted sequencing enrichment for over 6 years. So, I’m pleased that Ibrahim Jivanjee from Integrated DNA Technologies has put together a nice article to explain the most important terms used in the targeted sequencing field. I already feel better knowing I can go back to this article when I start to forget…
Learn and enjoy!
Did you know that there was such a thing as DNA Day? I didn’t, but now I do! To celebrate, IDT are making a very generous offer of 50% discount on selected qPCR products until April 30th 2014. Since these products are the end result of IDT’s unparalleled synthesis platform and bioinformatics, this is a really good offer.
As you’d expect from the world’s leading manufacturer of oligonucleotides, IDT have accumulated a lot of knowledge about qPCR. You might think it is easy to just put that knowledge out there, but I know it takes a lot of effort to write articles that are genuinely useful (rather than self-serving), correct them and then spend the money to put them into print. Of course, the same information can also be made available online for free! So, I direct you to the link below (or click on the picture above) to be taken to IDT’s webpage where a Special qPCR Issue of their magazine DECODED awaits.
And of course, you should make sure to contact You Do Bio to find out how to save money and have an opportunity to try out how good IDT’s PrimeTime qPCR assays really are. I have many customers who have made the switch and are very glad they did so!
Below is a nice video from Integrated DNA Technologies (IDT, www.idtdna.com), showing how their great gBlocks product has mulitple uses beyond gene construction.
This is really great news and will mean a bit more convenience for the many Danish institutions that have chosen to use IDT as the place to purchase their DNA oligonucleotides, qPCR assays, synthetic genes etc. From this date all your transactions with IDT, from quote requests to order invoicing will be made in Danish krone.
Please contact me if you have any questions about this.
IDT’s awesome gBlocks® are now improved – yet again! In summary, the most recent changes to gBlocks are:
Researchers can use gBlocks Gene Fragments to accelerate their research and enable applications such as recombinant antibody development, CRISPR-based genome editing, protein engineering, and so much more.
Check out this video from Adam Clore, explaining the updates to gBlocks
In this joint webinar oligonucleotide synthesis specialists Integrated DNA Technologies (IDT) join with bioconjugation experts Innova Biosciences to explain the importance of using top quality reagents when preparing oligonucleotide-antibody conjugates. Antibody-oligonucleotide conjugates are the next generation of tools in biomarker detection, overcoming sensitivity and linear range issues often encountered with standard antibody labels.
Webinar topics include:
• the various steps involved in synthesizing oligonucleotides to the high specifications required for conjugation (IDT)
• how to link those oligonucleotides to antibodies to provide novel reagents at the cutting edge of immunoassay technology (Innova)
• key applications of oligonucleotide-antibody conjugates (Innova)
For the synthetic biologist, IDT’s gBlocks offer a great low-cost way to construct genes. You can tell they are good, because some imitators have appeared on the market.
Apart from being “just great,” recent manufacturing improvements have made gBlocks® Gene Fragments even better! What does that mean? The following:
- Cheaper—Helping you get more from your research budget by continuing to reduce the price per base
- Faster—Now shipped in only 2–4 business days
- Better—IDT can accept and manufacture more sequences than ever before
Here is a video from Adam Clore, Manager of the Synthetic Biology Design and Support group at IDT, explaining some of the recent changes.
For the uninitiated:
What are gBlocks® Gene Fragments?
gBlocks Gene Fragments are double-stranded, sequence-verified genomic blocks, 125 to 750 bp in length, that can be shipped in 2–4 working days for affordable and easy gene construction or modification, applications such as antibody research and CRISPR-mediated genome editing, use as qPCR standards, and more. With gBlocks Gene Fragments, IDT has developed a new tool that accelerates your research and makes synthetic biology easier and more accessible than ever for any lab.
Sequence information is always secure and confidential at IDT. Non-disclosure agreements are available upon request
This is great news for Synthetic Biologists and anyone who is looking for a great, inexpensive alternative to cloning. You have got to hand it to IDT for raising their game here and getting this excellnet product to market.
Anyway, here is the news: gBlocks® Gene Fragments are now available in lengths up to 750 bp, enabling assembly of an ~1.4 kb construct using only 2 gBlocks Gene Fragments.
- Need to introduce several modifications into your gene?
- Having trouble finding the right clone in your library?
- Need to humanize or codon optimize your gene?
- Cannot access the source material to clone your gene by PCR?
gBlocks® Gene Fragments provide the ease and flexibility needed for gene construction at a much lower price than for cloned synthetic genes.
- Sequence-verified, double-stranded DNA fragments
- Size: 125–750 bp
- Shipped in 4–7 working days