Oligonucleotide synthesis - Wikipedia

This detritylation step also cuts off a chemical group whichcan be collected and measured as a means of monitoring the efficiency ofthe synthesis operation.

Solid-phase oligonucleotide synthesis - ATDBio

synthesis Exiqon uses the phosphoramidite synthetic method for oligonucleotide synthesis

Solid-phase oligonucleotide synthesis

Glen Research has been active in supplying fluorescent dyes for labelling oligonucleotides for close to 30 years. Indeed, fluorescent dyes are probably the most commonly used tags for modifying oligonucleotides since they offer such sensitive detection in a wide variety of techniques varying from sequencing to genetic analysis. We offer a broad range of fluorophores covering most of the fluorescence spectrum. However we have never had a good substitute for Texas Red® or Alexa Fluor® 594, both of which are not amenable to the conditions of oligonucleotide synthesis and deprotection. Â

Oligonucleotide synthesis - dnareplicationsystem - …

Fully protected CPG-immobilized monomer, dimer and trimer oligonucleotides were used to study depurination during the chemical synthesis of oligonucleotides. Disappearance of the oligonucleotide during acid exposure time relative to an internal thymidine standard not subject to depurination was monitored by reverse phase HPLC analysis. Depurination half-times obtained for dichloroacetic acid (DCA) and trichloroacetic acid (TCA) in methylene chloride were found to be 3% DCA >> 15% DCA > 3% TCA. In order to understand the implications of depurination during DNA synthesis, the detritylation kinetics of model compounds DMT-dG-pT dimer and DMT-[17mer] mixed-base sequence were also measured. These results improve our ability to properly balance the contradictory goals of obtaining maximum detritylation with minimum depurination in oligonucleotide synthesis.

et al, An automated multiplex oligonucleotide synthesizer: Developmentof high-throughput, low-cost DNA synthesis, (1995)

Oligonucleotide Synthesis | Chemical Compounds | …

Response of HEK-Blue™ hTLR9 cells to Class A CpG ODNs.
HEK-Blue™ hTLR9 cells, which express human TLR9 and an NF-κB-inducible SEAP reporter gene, were incubated in HEK-Blue Detection medium and stimulated with increasing concentrations of A-class CpG ODNs, ODN 1585, ODN 2216 or ODN 2236, and their corresponding GC control ODNs.
After 24h incubation, the levels of NF-ΚB-induced SEAP were determined by reading the OD at 655 nm.

Oligonucleotide Synthesizer - Technology Development …

Response of HEK-Blue mTLR9 cells to Class A CpG ODNs.
HEK-Blue™ mTLR9 cells, which express mouse TLR9 and an NF-κB-inducible SEAP reporter gene, were incubated in HEK-Blue Detection medium and stimulated with increasing concentrations of A-class CpG ODNs, ODN 1585, ODN 2216 or ODN 2236, and their corresponding GC control ODNs.
After 24h incubation, the levels of NF-kB-induced SEAP were determined by reading the OD at 655 nm.

RNA Oligonucleotides, RNA Oligo Synthesis

- CpG-C ODNs combine features of both classes A and B. They contain a complete PS backbone and a CpG-containing palindromic motif. C-Class CpG ODNs induce strong IFN-α production from pDC as well as B cell stimulation.

Improving Universal Support II for Oligonucleotide Synthesis

Class A (type D) CpG ODNs (CpG-A ODNs) contain a central palindromic phosphodiester (PO) CpG sequence and a PS-modified 3’ poly-G tail.
The poly G tails form intermolecular tetrads that result in high molecular weight ordered structures. These structures confer enhanced stability and increased endosomal uptake contributing to the production of large amounts of IFN-α and the maturation of pDCs.
CpG-A ODNs are also strong activators of NK cells through indirect cytokine signaling.

CpG ODNs mimic microbial unmethylated CpG motifs that activate TLR9

The use of a sulfurizing reagent during the regular synthesis cycle using phosphoramidite chemistry has revolutionized the production of phosphorothioate oligonucleotide analogues. Undoubtedly, this ease of preparation of phosphorothioates has made this oligonucleotide modification by far the most common in research. Glen Research was one of the first sources of the sulfurizing reagent, 3H-1,2-benzodithiol-3-one 1,1-dioxide, popularly known as Beaucage Reagent (1).1 This sulfurizing reagent has found common use in the face of a plethora of rival reagents over the years because of its high efficiency, fast reaction time, and widespread availability. The one mild flaw we have found with Beaucage Reagent is that, although it is quite stable in acetonitrile solution in a silanized amber bottle, it is has relatively poor stability in solution once installed on the DNA synthesizer. Consequently, we have not been able to supply a sulfurizing solution, preferring to supply the powdered reagent along with an appropriate silanized bottle. The customer then weighs an appropriate amount of reagent into the silanized bottle and adds acetonitrile at a concentration of 1g/100mL. Over the years, we have considered other sulfurizing reagents but we were not able to find another reagent that exhibits the same fast sulfurization kinetics along with improved stability on the synthesizer. RNA Sulfurization