Comprehensive Epitranscriptomic Sequencing for Accurate RNA Methylation Detection
RNA modifications are crucial for gene regulation. Our advanced RNA methylation sequencing services, like MeRIP-Seq and ONT Direct RNA sequencing, help uncover key RNA modifications, driving insights into gene expression and cellular processes.
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What is the Epitranscriptome?
The epitranscriptome consists of a diverse array of chemical modifications on RNA molecules that modulate their functions and regulatory mechanisms without altering the nucleotide sequence. These modifications significantly influence key processes, including RNA stability, localization, translation, and degradation, thereby playing a crucial role in post-transcriptional gene regulation.
To date, over 100 distinct RNA modifications have been identified, highlighting the complexity of gene regulation across various biological contexts.
What is Epitranscriptomic Sequencing
Epitranscriptomic sequencing refers to a collection of cutting-edge technologies designed to map and analyze RNA modifications throughout the transcriptome. This methodology employs techniques such as methylated RNA immunoprecipitation sequencing (MeRIP-seq) alongside various next-generation sequencing (NGS) strategies to detect and quantify specific RNA modifications.
By elucidating the patterns of these modifications, epitranscriptomic sequencing enhances our comprehension of their roles in gene expression, cellular responses, and broader biological functions. This insight is crucial for navigating the complexities of post-transcriptional regulation and its implications for health and disease.
What are the Types of RNA Modifications
RNA modifications are diverse chemical alterations that significantly impact RNA function and regulation. These primarily include adenosine, cytidine, guanosine, and uridine modifications.
1. Adenosine Modifications:
- N6-methyladenosine (m6A)
- N6,2'-O-dimethyladenosine (m6Am)
- N1-methyladenosine (m1A)
2. Cytidine Modifications:
- 5-methylcytosine (m5C)
- N4-acetylcytosine (ac4C)
3. Guanosine Modifications:
- N7-methylguanosine (m7G)
4. Uridine Modifications:
- Pseudouridine (Ψ)
Overview of additional nucleotide modifications on mRNA. (Zaccara S, et al., 2019)
Epitranscriptomic Sequencing Services: Choosing the Right Method
At CD Genomics, our comprehensive RNA modification sequencing services are designed to cater to researchers delving into the complexities of the epitranscriptome. By choosing the appropriate sequencing method, you can uncover significant insights into RNA modification roles and mechanisms, advancing cutting-edge discoveries in your field.
Methylation Analysis Services
MeRIP-Seq m6Am Analysis Service m1A RNA Methylation Analysis RNA m7G Methylation Sequencing m5c RNA-seq 2'-O-methylated-seq Service
Direct and Unbiased RNA Sequencing
How Does Epitranscriptomic Sequencing Work
At CD Genomics, our efficient workflow utilizes cutting-edge techniques such as immunoprecipitation, bisulfite treatment, ONT direct sequencing, and high-throughput sequencing to explore a diverse array of RNA modifications, including methylation and acetylation. This integrated approach empowers researchers to meticulously decode the epitranscriptome, propelling profound advancements in the comprehension of cellular dynamics and gene expression.
RNA Methylation Detection with State-of-the-Art Instruments
At CD Genomics, our platform integrates advanced sequencing technologies, including Illumina's HiSeq, NovaSeq, and MiSeq systems, PacBio RS II and Sequel, the Nanopore PromethION, and 10X Genomics. These cutting-edge instruments collectively empower our RNA modification detection services, ensuring high-quality and comprehensive analysis.
Image Source: Nanopore Technologies
link : https://nanoporetech.com/products/sequence/minion
Image Source: 10x Genomics
link : https://www.10xgenomics.com/instruments/chromium-x
Image Source: Illumina
link : https://sapac.illumina.com/systems/sequencing-platforms/iseq.html
Image Source: Pacific Biosciences
link : https://www.pacb.com/products-protocols/meet-the-new-sequel-iie-system/
Understanding RNA Modifications: Your User-Friendly Analysis Report
Dive into the fascinating world of RNA modifications with our easy-to-understand analysis report, designed to provide you with essential insights into their significance in gene regulation and cellular functions.
- Quality Control and Filtering
- Reference Genome Alignment
- Peak Annotation
- Detection and Annotation of Peak Motifs
- Gene Expression Analysis
- Analysis of Differential Gene Expression
- GO Functional Enrichment Analysis of Differentially Expressed Genes
- KEGG Pathway Enrichment Analysis of Differentially Expressed Genes
- Correlation Analysis Between Peak Enrichment and Transcript Expression
- Analysis of Transcript Methylation Levels
- Methylation Level Correlation
- Statistical Analysis of Differential Methylation Loci
- Clustering of Differential Methylation Loci
Specific report details vary by service. Please contact us for more information tailored to your project.
Starting a Project with CD Genomics
Sample Requirements
- Cell, tissue or RNA after IP. other types of samples please ask for details.
- Cell: 5×108
- Sample transport: samples were placed in 1.5mL centrifuge f tubes, sealed with sealing film and transported on dry ice.
- Sample preservation: cell samples or fresh tissue blocks were stored at -80°C after freezing in liquid nitrogen.
- Sample storage: RNA can be dissolved in ethanol or RNA-free ultra-pure water and stored at -80°C. RNA should avoid repeated freezing and thawing.
Deliverables
- Related experimental results raw data
- Experimental report
- Data analysis
- Image and result analysis
- Bioinformatics analysis results
Why Choose Our Epitranscriptomic Sequencing Services
At CD Genomics, we leverage advanced technologies and streamlined workflows, allowing you to concentrate on your research while we expertly navigate the intricacies of epitranscriptomic analysis.
Utilizing cutting-edge methods such as MeRIP-Seq and ONT Direct RNA-seq, our services ensure exceptional sensitivity and specificity in detecting a wide array of RNA modifications, including m6A, m5C, and ac4C. This level of precision guarantees the reliability of your findings.
Our high-throughput capabilities facilitate the simultaneous processing of multiple samples, enhancing research efficiency. Combined with competitive pricing, our services deliver outstanding value without compromising quality.
We provide an all-in-one service that covers everything from sample preparation to data analysis. By simply supplying your RNA samples, you allow us to handle the entire process, including library construction, sequencing, and in-depth bioinformatics analysis.
With extensive experience and a strong commitment to quality, we ensure precise and reproducible results. Our dedicated support and rigorous quality control further enhance your research experience.
What Our Clients Say about Epitranscriptomic Sequencing
"Collaborating with CD Genomics has been transformative for our research team. Their comprehensive understanding of RNA modifications provided insights that drove our projects forward, particularly in understanding the overarching impact on cellular processes. The combined power of their diverse technologies allowed us to achieve a clarity in our results that has set a new precedent in our laboratory."
"CD Genomics stood out by helping us articulate our research strategy when examining pseudouridine modifications through their PA-Ψ-seq service. Their in-depth consultation and method selection guided us in making informed decisions directly aligned with our scientific goals. This collaborative effort significantly enhanced the reliability and impact of our findings, far beyond mere technical support."
"The customized service from CD Genomics truly stood out. Their Single-Cell ATAC-Seq technology allowed us to analyze chromatin accessibility at an unprecedented resolution. This has opened up new avenues in our study of gene regulation, and their team was incredibly supportive throughout the process."
"CD Genomics offered us more than just a service—they became a strategic partner in our pursuit of scientific discovery. Their guidance in selecting appropriate methodologies and integration of cutting-edge sequencing technologies through consultations has enhanced the overall capability of our research efforts. This partnership has proven crucial in advancing our studies with precision and depth."
"The collaboration with CD Genomics has amplified our scientific output significantly. Their expertise in direct RNA sequencing provided us with raw, invaluable data that helped demystify complex gene regulatory pathways. It's their commitment to ensuring the quality and relevance of our research outcomes that truly differentiates them from other providers."
Exploring the Potential of Epitranscriptomic Sequencing: Key Applications
Epitranscriptomic sequencing is transforming our understanding of RNA modifications, leading to significant advancements in various fields:
RNA modifications like m6A methylation are vital in regulating key genes involved in tumorigenesis. For instance, m6A's role in melanoma highlights its potential as a diagnostic and therapeutic target.
Epitranscriptomic variations reveal evolutionary adaptations and phenotypic diversity among populations, aiding in conservation and genetic health assessments.
RNA modifications impact drug responses, enabling the identification of biomarkers for treatment efficacy and resistance, thus enhancing personalized medicine.
In agriculture, epitranscriptomic sequencing uncovers modifications that improve crop resilience to environmental stress, crucial for food security.
Publications
See how our RNA and DNA methylation sequencing services have empowered researchers to publish high-impact studies:
- FIONA1-mediated methylation of the 3'UTR of FLC affects FLC transcript levels and flowering in Arabidopsis. PLoS Genetics. 2022. https://doi.org/10.1371/journal.pgen.1010386
- High-Fat Diets Fed during Pregnancy Cause Changes to Pancreatic Tissue DNA Methylation and Protein Expression in the Offspring: A Multi-Omics Approach." International Journal of Molecular Sciences. 2024. https://doi.org/10.3390/ijms25137317
- Identifying regulators of parental imprinting by CRISPR/Cas9 screening in haploid human embryonic stem cells. Nature Communications. 2021. https://doi.org/10.1038/s41467-021-26949-7
- Methylation in the CHH context allows to predict recombination in rice. International Journal of Molecular Sciences, 2022. https://doi.org/10.3390/ijms232012505
Epitranscriptomic Sequencing Services FAQ
If you have further questions, please reach out to our support team, who are here to help you make the most of your genomic research with CD Genomics.
