Eukaryotic RNA Sequencing

Overview

Microbial Transcriptomics is one of the research methods to reveal the mechanism of the growth and development regulation, stress tolerance, disease resistance, and host-pathogen interaction of microorganisms. The development of next-generation sequencing technology (NGS) has revolutionized the field of microbial transcriptomics with the ability to generate large amounts of data by sequencing. Here we provide a robust eukaryotic RNA sequencing (RNA-seq) using NGS and/or long-read sequencing for medical research and agricultural applications.

Our Advantages:

Advanced sequencing platforms: Illumina, PacBio SMRT, and Oxford nanopore platforms.
Generate high quality data and perform outstanding bioinformatics analysis.
High coverage, fast turnaround times.
Accurate digital signal, professional detection flux, wide detection range.
Excellent consultation across the whole process of your project.

Tell Us About Your Project

We are dedicated to providing outstanding customer service and being reachable at all times.

Request a Quote

Introduction to Our Eukaryotic RNA Sequencing

Eukaryotic RNA sequencing, based on high-throughput sequencing, refers to the study of all transcripts of specific tissues or cells of eukaryotic organisms. It serves as a powerful tool in understanding the complexity of the eukaryotic transcriptome. Depending on the availability of reference transcriptomes/genomes, eukaryotic RNA-seq can be divided into reference-based transcriptome assembly and de novo transcriptome assembly. Here, we have established standardized eukaryotic RNA-seq platforms based on NGS, PacBio SMRT, and Oxford nanopore instruments to identify common and novel transcripts in microbial eukaryotes such as fungi and yeast, without bias. PacBio SMRT sequencing and Oxford nanopore sequencing can provide full-length transcript sequences, and also detect more transcript overlaps, polycistronic RNAs, splice and transcript variants.

Eukaryotic RNA-seq detects both unknown and rare transcripts, provides quantitative analysis of transcripts, reveals differences in gene expression levels of different samples, and performs structural analysis for discovering variable splicing sites, gene fusions, SNPs and InDel sites. Eukaryotic RNA sequencing is important for revealing the regulation of gene expression in eukaryotic cells, exploring host-pathogen interaction, and monitor disease progression.

Eukaryotic RNA Sequencing Workflow

Bioinformatics Analysis

Our bioinformatics analyses include read QC, transcript assembly, statistics analysis, functional profiling, differential gene expression analysis and other analysis, which are flexible to your needs. Please feel free to contact us to discuss your project.

Bioinformatics Pipelines	Details
Read QC	Filtering, trimming, optional error correction if possible
Transcript Assembly	Mapping to known genomes or transcriptomes; de novo assembly and annotation to protein database; outcome evaluation; transcript and isoform quantification
Statistics Analysis	Length distribution of transcripts and unigens; GC contents
Functional Profiling	NR, Swissport, KOG, KEGG, Pfam; analysis of KEGG metabolic pathways
Differential Gene Expression	Expression abundance analysis of genes and transcripts; gene differential expression analysis (clustering diagram, scatter diagram, volcanic diagram)
Other Analyses	Detection of SNV/SNP/InDel, SSRs, variable splicing, gene fusion; prediction of new transcript; negotiate and determine the content of customized information analysis based on customer needs

Sample requirements

1. cDNA/RNA, no degradation or contamination.
2. Cells, tissues, whole blood, serum, plasma, total RNA, etc.
3. Quantity ≥ 2 μg preferred, 1 μg minimum; concentration ≥ 50 ng/uL.
4. Sampling kits: we provide a range of microbial sampling kits for clients, including MicroCollect™ oral sample microbial collection products and MicroCollect™ stool sample collection products.
5. Deliverables: raw sequencing data, assembled and annotated sequences, quality-control dashboard, and the customized bioinformatics report.

References

Hrdlickova R, Toloue M, Tian B. RNA-Seq methods for transcriptome analysis. Wiley Interdiscip Rev RNA. 2017 Jan;8(1).
Ozsolak F, Milos PM. RNA sequencing: advances, challenges and opportunities. Nat Rev Genet, 2011, 12(2): 87-98.
Wang Z, Gerstein M, Snyder M. RNA-Seq: a revolutionary tool for transcriptomics. Nat Rev Genet, 2009, 10(1): 57-63.

* For Research Use Only. Not for use in diagnostic procedures or other clinical purposes.