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Sequence Design Platform for Nucleic Acid Drugs

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CD Formulation has been specializing in nucleic acid drug formulation development for many years. The goal of our nucleic acid drug sequence design platform is to provide you with high-quality nucleic acid drug development services, from sequence design and analysis to molecular modeling.

Benefits of Nucleic Acid Drug Sequence Design Platform

Nucleic acid drug development often requires extensive sequence design and optimization work, which poses a serious challenge to research and development (R&D) efficiency. To address this challenge, we have created a specialized nucleic acid sequence design platform that leverages advanced computational biology and artificial intelligence technologies to significantly enhance the efficiency and success rate of nucleic acid drug development.

Fig.1 Advantages of sequence design for nucleic acid drugs. (CD Formulation)

Capabilities of Nucleic Acid Drug Sequence Design Platform

CD Formulation's nucleic acid drug design platform has a comprehensive layout in the fields of nucleic acid synthetic biology research and development, nucleic acid drug sequence design, synthesis, and modification, drug delivery, etc., to open up the entire industry chain of nucleic acid innovative drug development. Our goal is to establish a comprehensive research and development system for innovative nucleic acid drugs that is fully featured, complementary, seamless, and aligned with international standards. Our platform offers the following capabilities.

Items	Descriptions
Sequence Design	Development of nucleic acid sequences (ASOs, etc.) with specific targets and good stability.
Sequence Analysis	Assessing and predicting nucleic acid sequences, e.g. secondary structure, for function and performance.
Molecular Modeling & Simulation	Analyze nucleic acid molecules' 3-dimensional structure and dynamic properties, and predict their interactions with targets.
Database & Knowledge Management	Manage, store, and retrieve nucleic acid sequence and structure data.

Workflow of Nucleic Acid Drug Sequence Design

Fig. 2 Workflow of drug sequence design. Fig.2 Flowchart of nucleic acid drug sequence design. (CD Formulation)

Step 1 - Identify the Target Gene/Sequence

First, identify the specific gene or sequence to be targeted and obtain the target gene sequence from the gene database.

Step 2 - Sequence Analysis

Functional annotation involves using bioinformatics tools to identify the functional region of the gene and predict its structure.

Step 3 - Design Oligonucleotide Sequence

Design appropriate oligonucleotide sequences according to specific applications (e.g. ASO, siRNA, miRNA, etc.) and predict the secondary structure using software tools to ensure that the designed sequence will not form unfavorable secondary structures.

Step 4 - Specificity and Validity Assessment

Verify the specificity and efficacy of the sequence in cells or tissues, predict the binding efficiency of the sequence to the target using molecular dynamics simulation tools.

Step 5 - Toxicity Assessment

Biocompatibility testing and immunogenicity testing are conducted for toxicity assessment.

Step 6 - Modification and Optimization

Select modifications and optimization strategies to enhance sequence stability and resistance to degradation according to the specific application.

Step 7 - Production and Quality Control

Generation of designed nucleic acid sequences through chemical synthesis methods, as well as ensuring product quality through techniques like high-performance liquid chromatography (HPLC).

Highlights of Our Nucleic Acid Drug Sequence Design Platform

Our platform is characterized by high accuracy due to our advanced algorithms that enhance the precision of nucleic acid sequence design.
Our platform has the flexibility to design multiple types of nucleic acids, including mRNA, siRNA, antisense oligonucleotides, etc.
Our platform is cost-effective and can reduce experimental costs through computational simulations.
Based on our integration of multiple tools and databases, we can provide a one-stop solution.

Custom Nucleic Acid Drug Development Services

CD Formulation's nucleic acid design platform employs advanced algorithms and bioinformatics tools to accurately identify and optimize nucleic acid sequences tailored to specific therapeutic requirements.

Custom Small Nucleic Acid Synthesis

Our nucleic acid design platform employs advanced synthesis techniques to customize small nucleic acids, such as siRNAs and miRNAs, based on specific sequence information provided by customers.

Custom mRNA Synthesis

Our platform employs bioinformatics tools to conduct comprehensive analyses of mRNA sequences, optimize coding sequence stability and expression efficiency, and design highly effective mRNA therapeutics.

Nucleic Acid Modification Services

Our platform offers a diverse array of modification options to improve the biocompatibility and targeting of mRNAs for various applications, including vaccine development and gene therapy.

Publication Data

Technology: Construction of nucleic acids by polymorphic sequence design technology

Journal: Journal of the American Chemical Society

IF: 13.858

Published: 2017

Results:

The authors describe a framework for designing multinucleic acid chain sequences that are intended to hybridize in solution via a prescribed reaction pathway. Sequence design is formulated as a multi-state optimization problem using a set of target test tubes to represent the reactant, intermediate, and product states of the system and to simulate crosstalk between the components. Each target test tube contains a set of desired "on-target" complexes, each with a target secondary structure and a target concentration, and a set of unwanted "off-target" complexes, each of which vanishes at the target concentration. Optimization of the equilibrium combinatorial properties of the target test tubes implements both a positive design mode, explicitly designing the essential steps on the pathway, and a negative design mode, explicitly designing the steps to prevent off-pathway crosstalk. Sequence design proceeds according to a variety of user-specified sequence constraints, including compositional constraints, complementary constraints, pattern prevention constraints, and biological constraints. Constrained polymorphic sequence design facilitates nucleic acid reaction pathway engineering for various applications in molecular programming and synthetic biology.

Fig. 3 Engineering nucleic acid reaction pathways by constraining multistate sequence design. Fig. 3 Constrained multistate sequence design for nucleic acid reaction pathway engineering. (Wolfe B R, et al., 2017)

CD Formulation specializes in developing drug formulations and offers customers a technology platform for nucleic acid drug discovery. Based on our professional skills and extensive development experience, we are committed to enhancing our technical capabilities to establish a one-stop platform for drug development and research services. Contact us and let us customize a solution for your project.

References

Wolfe B R, Porubsky N J, Zadeh J N, et al. Constrained multistate sequence design for nucleic acid reaction pathway engineering. J. Am. Chem. Soc. 2017, 139(8): 3134-3144.

How It Works

STEP 1

Submit a service request describing your specific research or development need.

STEP 2

We'll email you to provide your quote and confirm order details if applicable.

STEP 3

Execute the project with real-time communication, and deliver the final report promptly.

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