BIOINFORMATICSSiRNA Builder
Background
At our company, we specialize in siRNA therapy, leveraging the power of short RNA sequences to modify RNA expression and splicing, ultimately leading to the reduction, restoration, or modification of protein expression. With over 20 years of experience in the field, we have honed our expertise in designing potent siRNAs.
We understand the importance of efficient and accurate siRNA design for the success of your project. That’s why we offer a faster and scalable siRNA design service tailored to your specific needs. Our design process incorporates well-established rules and guidelines, ensuring optimal targeting and efficacy of the siRNAs.
Whether you are conducting research, developing therapeutics, or exploring new avenues in molecular biology, our team is equipped to provide you with expert siRNA design solutions. We stay up-to-date with the latest advancements and technologies in siRNA research to deliver cutting-edge designs that align with your project goals.
Partner with us for your siRNA design needs, and benefit from our extensive experience, dedication to quality, and commitment to advancing scientific discoveries. Contact us today to discuss your project requirements and leverage our expertise in designing potent siRNAs.
Our steps for screening siRNAs
At our company, we follow a systematic approach for screening siRNAs to ensure the identification of potent candidates for your specific project. Our screening process involves the following steps:
- Target Selection: We work closely with you to identify the target RNA or gene of interest for your project. This could be a specific mRNA or noncoding RNA that you aim to modulate using siRNA technology.
- Design Strategy: Based on the target sequence, we employ well-established design rules and algorithms to generate a pool of siRNA candidates. Our design strategy takes into account various factors such as sequence specificity, off-target effects, and minimizing undesirable immune responses.
- In Silico Analysis: We conduct comprehensive in silico analysis of the siRNA candidates using bioinformatics tools and databases. This analysis includes checking for potential off-target effects, secondary structure predictions, and ensuring optimal siRNA thermodynamics.
- Reporting and Recommendations: We provide you with a comprehensive report detailing the screening results, including the siRNA sequences, experimental findings, and recommendations for further optimization or downstream applications.
Our screening process is designed to deliver reliable and potent siRNA candidates tailored to your specific project requirements. By leveraging our expertise and following a systematic approach, we aim to provide you with the most effective siRNA options for your research, therapeutic development, or any other application in the field of RNA modulation.
Various reports
Our SiRNA Builder report for potential siRNA candidates will consist of the following key elements:
Off Target Report
The report supports automated in silico assessment of off-target effects by comparing the siRNA sequences to the reference transcriptome. Scoring of off-target hits is based on their sequence similarity.
SNP Report
The report supports filtering out siRNAs that targeting regions with known SNP that have minor allele frequency (MAF) bigger than 0.1% of the general population.
Orthologs Report
The report will allow us to filter out sirnas that do not have full match in positions 2-18 to Target mRNAs of human and to mRNAs of potential animal model(mouse, rat, rhesus monkey and more).
miRNA Report
Filtering out sirnas that sharing same seed of known human miRNAs in order to avoid miRNAs off target.
Patent Report
Filtering out sequences with match to Patent db of all short RNA sequences (19bp - 21bp) from all the patents.
Basic Report
The report builds all possible siRNAs with nucleotide replacements - G & C in first position in sense, A & T in last position in sense.
Algo Score Report
Prediction scoring system for siRNA efficacy that was trained on thousands of real siRNA results and was successfully validated in the past with hundreds of potent molecules. The scoring system based on several dozens of parameters such as dGs, Positions of certain letters and motifs.