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DNA encoded library (DEL) components

 

Accelerating drug discovery with better oligos

DNA encoded libraries (DEL) are a rapidly growing drug discovery platform. Synthesising a DNA encoded library requires the assembly of unique molecules linked to unique identifying DNA sequences that serve as barcodes. Subsequently, hits (candidate compounds) are identified by sequencing the DNA barcode. The use of high quality oligos is essential to the success of DEL synthesis.

High quality oligos for high quality libraries

We offer standard and custom DEL oligo components (headpieces, tags and primers) and are a trusted partner with many organizations that are synthesising DEL by split and pool, encoded self-assembly, DNA templated chemistry, and other synthesis techniques.

By understanding your needs and working collaboratively, our aim is to advance DEL technology together.

Better results

Confidence that DEL synthesis will work the first time
  • Over 35 years of experience in nucleic acid synthesis
  • 100% QC – each oligo is QC’d by LC/MS to verify quality and identity
  • Manufactured in an ISO 9001 certified facility

Reproducibility

Consistent performance in library synthesis
  • Large scale synthesis capacity allows for single batch manufacturing, removing the need to pool multiple batches
  • Proprietary in-house engineered synthesizers
  • Automated liquid handling
  • Complete control of raw material supply chain and quality

Flexibility

Get the oligos you want in the format you want
  • Multiple standard and custom synthesis scales
  • Multiple delivery formats
  • Custom modifications
  • Custom conjugation chemistries

New: DNA encoded library (DEL) starter kit

Developing your DEL platform for the first time? Our DEL starter kit makes it easy by providing all the components needed to get your pilot DEL assembly started.

The DEL starter kit contains:

  • 10 µmol AOP linker-modified headpiece
  • 10 µmol DEL primer
  • 192 tag duplexes enabling high library complexity (100 nmol each)
  • 60,000 units (30 U/µL) of high-quality T4 DNA Ligase for efficient tag ligation.

The headpiece is a standard kit component, while the sequences of the DEL primer and DNA tags are provided by the customer. See the Technical Specs tab for more details about the kit components.

Please your order for the kit via the 'Order now' tab.

How to order (DEL) components

We offer standard and custom DEL oligo components and are a trusted partner with many organisations that are synthesizing DEL by split and pool, encoded self-assembly, DNA templated chemistry, and other synthesis techniques.

Please use the following forms to order headpiece, primers, tags and custom components. See the Technical Specs tab for product details. For order and product enquiries, please contact us at info@biosearchtech.com.

Order the new DEL starter kit here:

The DEL starter kit can be ordered by email at info@biosearchtech.com. Complete the following order forms for primers and tags and submit the forms to as per the instructions in the order form. Please state in the email your intention to purchase the DEL Starter Kit (Cat no: DEL-KIT-10).

 

Need support?

Reach out if you'd like assistance placing your order.

 

Headpiece (HP)

Available as standard and custom sequences:

  • Standard headpiece: 5'-Phos-XXXXXX[Spacer 9][Amino C7][Spacer 9]XXXXXXXX-3' 
  • AOP headpiece: 5'-Phos-XXXXXX[Spacer 9][PEG4-Amino C7][Spacer 9]XXXXXXXX-3' (See our order form for standard sequence and order information. More information about the headpiece sequence can be found at Clarke et al., Nature Chemical Biology, 2009)
  • Custom headpiece: 5'-Phos-XXXXXX[Modification][Amino C7][Modification]XXXXXXXX-3' 
  • Available in standard (14bp) or custom length
  • Custom linker modifications and primer ligated HP available
     
Label

5' phosphate
Amine-modified
Linker modification available
Amount delivered µmol to mmol
Purification AX HPLC, desalted by SEC or TFF
Format Lyophilised
QC LC/MS to verify quality and identity (>90%)
Order Standard and custom headpiece order form
standard headpiece

Standard headpiece

AOP headpiece image

AOP headpiece

Custom components

You can specify exactly what you need:

Enquire
 

Primer

Duplex with custom sequence and length (generally 9-20 bp), 5’ phosphate.

Label

Available with:

5' phosphate
5' and 3' phosphate
Unmodified
Amount delivered 50 nmol to mmol amounts
Purification Desalted or HPLC available
Format Dried, single stranded or duplexed
QC LC/MS to verify quality and identity
Order Please use the custom oligo order form and specify delivered amount under "Synthesis Scale" e.g. 1000 μmol del.

Closing primer

Duplex with custom sequence and length. Upper strand is usually 10 bp and labeled with 5' phosphate. Lower strand is generally 36 bp or custom length with 5’ phosphate. It includes a degenerate region (using nucleotide code N) that varies in length and position within sequence.

Label 5' phosphate
Amount delivered 50 nmol to mmol amounts
Purification Desalted or HPLC available
Format Dried, single stranded or duplexed
QC LC/MS to verify quality and identity
Order Please use the custom oligo order form and specify delivered amount under "Synthesis Scale" e.g. 1000 μmol del.


Tags

Double stranded DNA, usually between 9 and 13 bases (or custom), 5’ phos, delivered in 2D barcoded tubes as 1 mM solution in water.

Label 5' phosphate
Amount delivered 100-1,000 nmol delivered (larger scales available as custom)
Purification Desalted
Format Duplex, 1 mM solution in water in 2D barcode tubes, 96 tubes per rack
QC LC/MS to verify quality and identity
Order

 

DNA encoded library (DEL) starter kit (Cat. no.: DEL-KIT-10)

AOP headpiece (HP) 10 µmol of standard length (14bp) HP with a PEG-4 amine modified AOP linker.
5’-Phos XXXXXX[Spacer 9][PEG4-Amino C7][Spacer 9]XXXXXXXX-3′  
More information about the headpiece sequence can be found at (Clarke et al., Nature Chemical Biology, 2009)
DEL primer 10 µmol of 5' phosphorylated primer pair (provided as a duplex) for initial HP ligation.
Primers can be 11-20 nucleotides long.
Sequences are provided by the customer.
DNA tags Up to 384 unique tag sequences, provided as 192 tag duplexes. 100 nmol of each tag.
Tag sequences can be 9 to 13 nucleotides long.
Sequences are provided by the customer.
NxGen™ T4 DNA Ligase 4 X 0.5 mL of high-concentration (30 U/µL) T4 DNA Ligase.
2 X 10 mL of 10X Ligase buffer.

Please download this brochure for more information,  DNA encoded library (DEL) brochure PDF.

 

Need support?

Reach out if you'd like assistance placing your order.

 

Spotlight primary and review articles

Reference

Recent Advances on the Selection Methods of DNA-Encoded Libraries
Dr. Yiran Huang, Prof. Xiaoyu Li. ChemBioChem. 2021.

Reference

The maturation of DNA encoded libraries:opportunities for new users
Daniel Conole, James H Hunter, Michael J Waring. Future Med Chem. 2020.

Reference

Chapter Four - An overview of DNA-encoded libraries: A versatile tool for drug discovery
Daniel Madsen et al. Progr Med Chem. Volume 59, 2020, Pages 181-249.

Reference

Employing Photocatalysis for the Design and Preparation of DNA-Encoded Libraries: A Case Study
Dominik K Kolmel et al. Chem Rec. 2021

Reference

Design, synthesis and selection of DNA-encoded small-molecule libraries
Matthew A Clark et al. Nat Chem Biol. 2009.

Reference

A Handbook for DNA-Encoded Chemistry: Theory and Applications for Exploring Chemical Space and Drug Discovery. Ed.: Goodnow RA, Jr. (2014) John Wiley & Sons, Inc. ISBN: 978-1-118-83267-7

Reference

How DNA-encoded libraries are revolutionizing drug discovery
Bethany Halford. Chem Eng News. 2017.

Reference

A carbohydrate-derived trifunctional scaffold for DNA-encoded libraries
Amalia M. Estévez et al. Tetrahedron: Asymmetry. 2017.

Reference

Recent advances on the encoding and selection methods of DNA-encoded chemical library
Bingbing Shi et al. Bioorg Med Chem Lett. 2017.

Reference

Twenty-five Years of DNA-Encoded Chemical Libraries
Dario Neri. ChemBioChem. 2017.

Reference

DNA-encoded chemistry: enabling the deeper sampling of chemical space
Robert A. Goodnow Jr et al. Nat Rev Drug Disc. 2017.

Reference

Achievements, Challenges, and Opportunities in DNA-Encoded Library Research: An Academic Point of View
Lik Hang Yuen et al. ChemBioChem. 2017.

Reference

Design and Synthesis of Biaryl DNA-Encoded Libraries
Yun Ding et al. ACS Comb Sci . 2016.

Reference

DNA tags help the hunt for drugs
Asher Mullard. Nature. 2016.

Reference

Discovery of Highly Potent and Selective Small Molecule ADAMTS?5 Inhibitors That Inhibit Human Cartilage Degradation via Encoded Library Technology (ELT)
Hongfeng Deng et al. J Med Chem. 2012.

The hitchhiker’s guide to the chemical-biological galaxy
Giulia Opassi et al. Drug Discov Today. 2018.

Gs protein peptidomimetics as allosteric modulators of the b2-adrenergic receptor
Lotte-Emilie Boyhus et al. RSC Advances. 2018.

Design and Application of a DNA-Encoded Macrocyclic Peptide Library
Zhengrong Zhu et al. ACS Chem Biol. 2018.

Robustness of In Vitro Selection Assays of DNA-Encoded Peptidomimetic Ligands to CBX7 and CBX8
Kyle E. Denton et al. SLAS Discov. 2018.

Agonists and Antagonists of Protease-Activated Receptor 2 Discovered within a DNA-Encoded Chemical Library Using Mutational Stabilization of the Target
Dean G. Brown et al. SLAS Discov. 2018.

Selecting a DNA-Encoded Chemical Library against Non-immobilized Proteins Using a “Ligate−Cross-Link−Purify” Strategy
Bingbing Shi et al. Bioconj Chem. 2017.

Prioritizing multiple therapeutic targets in parallel using automated DNA-encoded library screening
Carl A. Machutta et al. Nat Commun. 2017.

Quantitative PCR is a Valuable Tool to Monitor the Performance of DNA-Encoded Chemical Library Selections
Yizhou Li et al. ChemBioChem. 2017.

Structure Based Design of Non-Natural Peptidic Macrocyclic Mcl-1 Inhibitors
Jeffrey W. Johannes et al. ASC Med Chem Lett. 2017.

Ruthenium Promoted On-DNA Ring-Closing Metathesis and Cross-Metathesis
Xiaojie Lu et al. Bioconj Chem. 2017.

DNA-Compatible Nitro Reduction and Synthesis of Benzimidazoles
Huang-Chi Du et al. Bioconj Chem. 2017.

Discovering Drugs with DNA-Encoded Library Technology: From Concept to Clinic with an Inhibitor of Soluble Epoxide Hydrolase
Svetlana L. Belyanskaya et al. ChemBioChem. 2017.

Zirconium(IV)-Catalyzed Ring Opening of on-DNA Epoxides in Water
Lijun Fan et al. ChemBioChem. 2017.

Hit-Validation Methodologies for Ligands Isolated from DNA-Encoded Chemical Libraries
Gunther Zimmermann et al. ChemBioChem. 2017.

Application of Biocatalysis to on-DNA Carbohydrate Library Synthesis
Baptiste Thomas et al. ChemBioChem. 2017.

Discovery of a Potent BTK Inhibitor with a Novel Binding Mode by Using Parallel Selections with a DNA-Encoded Chemical Library
John W. Cuozzo et al. ChemBioChem. 2017.

Acid- and Au(I)-mediated synthesis of hexathymidine-DNA-heterocycle chimeras, an efficient entry to DNA-encoded libraries inspired by drug structures
Mateja Klika Škopic et al. ChemSci. 2017.

Allosteric "beta-blocker" isolated from a DNA-encoded small molecule library
Ahn S et al. PNAS. 2017.

Chemical Space of DNA-Encoded Libraries
Raphael M. Franzini et al. J Med Chem. 2016.

DNA-encoded chemical libraries: foundations and applications in lead discovery
Gunther Zimmermann and Dario Neri. Drug Discov Today. 2016.

DNA-encoded drug libraries come of age
Asher Mullard. Nat Biotechnol. 2016.

Chemical Biology Probes from Advanced DNA-encoded Libraries
Hazem Salamon et al. ACS Chem Biol. 2016.

Predicting Electrophoretic Mobility of Protein-Ligand Complexes for Ligands from DNA-Encoded Libraries of Small Molecules
Jiayin Bao et al. Analyt Chem. 2016.

DNA-Encoded Library Screening Identifies Benzo[b][1,4]oxazepin-4-ones as Highly Potent and Monoselective Receptor Interacting Protein 1 Kinase Inhibitors
Philip A. Harris et al. J Med Chem. 2016.

The Identification and Pharmacological Characterization of 6.(tert-Butylsulfonyl).N.(5-fluoro.1H.indazol-3-yl)quinolin-4-amine (GSK583), a Highly Potent and Selective Inhibitor of RIP2 Kinase
Pamela A. Haile et al. J Med Chem. 2016.

Discovery and Characterization of a Class of Pyrazole Inhibitors of Bacterial Undecaprenyl Pyrophosphate Synthase
Nestor Concha et al. J Med Chem. 2016.

Discovery of cofactor-specific, bactericidal Mycobacterium tuberculosis InhA inhibitors using DNA-encoded library technology
Holly H. Soutter et al. PNAS. 2016.

DNA-Encoded Dynamic Combinatorial Chemical Libraries
Francesco V. Reddavide et al. Angew Chem Int Ed . 2015.

Systematic Evaluation and Optimization of Modification Reactions of Oligonucleotides with Amines and Carboxylic Acids for the Synthesis of DNA-Encoded Chemical Libraries
Raphael M. Franzini et al. Bioconj Chem. 2015.

Design, preparation, and selection of DNA-encoded dynamic libraries
Gang Li et al. Chem Sci. 2015.

PNA-encoded chemical libraries
Claudio Zambaldo et al. Curr OpinChem Biol. 2015.

Novel encoding methods for DNA-templated chemical libraries
Gang Li et al. Curr OpinChem Biol. 2015.

Novel selection methods for DNA-encoded chemical libraries
Alix I Chan et al. Curr OpinChem Biol. 2015.

Fidelity by design: Yoctoreactor and binder trap enrichment for small-molecule DNA-encoded libraries and drug discovery
Peter Blakskjaer et al. Curr OpinChem Biol. 2015.

Encoded libraries of chemically modified peptides
Christian Heinis et al. Curr OpinChem Biol. 2015.

Cell-Based Selection Expands the Utility of DNA-Encoded Small-Molecule Library Technology to Cell Surface Drug Targets: Identification of Novel Antagonists of the NK3 Tachykinin Receptor
Zining Wu et al. ACS Comb Sci . 2015.

Discovery of a Potent Class of PI3Ka Inhibitors with Unique Binding Mode via Encoded Library Technology (ELT)
Hongfang Yang et al. ACS Med Chem Lett. 2015.

Discovery of Potent and Selective Inhibitors for ADAMTS-4 through DNA-Encoded Library Technology (ELT)
Yun Ding et al. ACS Med Chem Lett. 2015.

Discovery, SAR, and X-ray Binding Mode Study of BCATm Inhibitors from a Novel DNA-Encoded Library
Hongfeng Deng et al. ACS Med Chem Lett. 2015.

Identification of structure-activity relationships from screening a structurally compact DNA-encoded chemical library
Raphael M. Franzini et al. Angew Chem Int Ed . 2015.

DNA-Encoded Chemical Libraries: Advancing beyond Conventional Small-Molecule Libraries
Raphael M. Franzini et al. Acct Chem Res. 2014.

Selection of DNA-encoded small molecule libraries against unmodified and non-immobilized protein targets
Peng Zhao et al. Angew Chem Int Ed . 2014.

Discovery of 1-(1,3,5-triazin-2-yl)piperidine-4-carboxamides as inhibitors of soluble epoxide hydrolase
Reema K. Thalji et al. Bioorg Med Chem Lett. 2013.

Inhibition of DNA Glycosylases via Small Molecule Purine Analogs
Aaron C. Jacobs et al. PLoS ONE. 2013.

5-Aryl-4-carboxamide-1,3-oxazoles: potent and selective GSK-3 inhibitors.
Gabriella Gentile et al. Bioorg Med Chem Lett. 2012.

Discovery of small-molecule interleukin-2 inhibitors from a DNA-encoded chemical library
Markus Leimbacher et al. Chemistry Eur J. 2012.

A synthetic icosahedral DNA-based host–cargo complex for functional in vivo imaging
Dhiraj Bhatia et al. Nat Commun. 2011.

20 years of DNA-encoded chemical libraries
Luca Mannocci et al. Chem Commun. 2011.

Small-molecule discovery from DNA-encoded chemical libraries
Ralph E. Kleiner et al. Chem Soc Rev. 2011.

Microarray Generation of Thousand-Member Oligonucleotide Libraries
Nina Svensen et al. PLoS ONE. 2011.

In Vitro Selection of a DNA-Templated Small-Molecule Library Reveals a Class of Macrocyclic Kinase Inhibitors
Ralph E. Kleiner et al. JACS. 2010.

Drug Discovery with DNA-Encoded Chemical Libraries
Fabian Buller et al. Bioconj Chem. 2010.

DNA-Encoded Chemical Libraries: A Tool for Drug Discovery and for Chemical Biology
Jçrg Scheuermann et al. ChemBioChem. 2010.

Selecting chemicals: the emerging utility of DNA-encoded libraries
Matthew A Clark. Curr OpinChem Biol. 2010.

Isolation of potent and specific trypsin inhibitors from a DNA-encoded chemical library
Luca Mannocci et al. Bioconj Chem. 2010.

Isolation of a small-molecule inhibitor of the antiapoptotic protein Bcl-xL from a DNA-encoded chemical library
Samu Melkko et al. ChemMedChem. 2010.

Affinity-based screening techniques: their impact and benefit to increase the number of high quality leads
Christian Bergsdorf et al. Exp Opin Drug Disc. 2010.

Translation of DNA into a Library of 13 000 Synthetic Small-Molecule Macrocycles Suitable for in Vitro Selection
Brian N. Tse et al. JACS. 2008.

High-throughput sequencing allows the identification of binding molecules isolated from DNA-encoded chemical libraries
Luca Mannocci et al. PNAS. 2008.

Lead discovery by DNA-encoded chemical libraries
Samu Melkko et al. Drug Discov Today. 2007.

Detecting RNA and DNA with Templated Chemical Reactions
Adam P. Silverman et al. Chem Rev. 2006.

Medicinal chemistry: new technologies and developments
John K. Borchardt et al. Drug Discov Today. 2004.

DNA-Templated Organic Synthesis and Selection of a Library of Macrocycles
Zev J. Gartner et al. Science. 2004.