Based on next generation sequencing, whole transcriptome sequencing provides a wide variety of applications from mRNA profiling to analyze of the entire transcriptome including both mRNA and non-coding RNA (miRNAs, lncRNAs, circRNAs). Our whole transcriptome sequencing enables a description of a competitive endogenous RNA (ceRNA) network for exploring the complicated post-transcriptional regulation mechanism.

Overview

RNA is a single-strand molecule formed during DNA transcription that is complementary to one strand of DNA. The mRNA determines the amino acid sequence of the protein and complete the process of genetic information transmission from RNA to proteins. Although non-coding RNAs such as miRNAs, lncRNAs, and circRNAs cannot be translated into proteins, they are functional RNA molecules through regulating gene expression at the post-transcriptional or transcriptional level. Profiling of coding mRNAs and non-coding RNAs is important for revealing molecular mechanisms of post-transcriptional regulation.

Whole transcriptome sequencing enables the complete profiling of both mRNA and non-coding RNAs (including microRNAs, lncRNA, and circRNAs) in a biological sample under specific conditions by combining RNA-seq with rRNA depletion and small RNA-Seq. It provide both qualitative and quantitative information on the whole transcriptome. In addition to the exploration of the competitive ceRNA network, whole transcriptome sequencing also has a wide variety of applications in clinical research and clinical diagnostics, ranging from standard gene expression analysis to advanced analysis such as pathway and alternative splicing analysis, revelation of cell type and heterogeneity, classification of tissue types and diseases, and prediction of biomarkers.

Project Workflow

Sample Requirements

• RNA sample (concentration ≥ 200 ng/uL, quantity ≥ 2 ug)
• 1.8 ≤ OD_260/280 ≤ 2.2, RIN ≥ 7.0, 28S:18S ≥ 1.0.
• Please make sure that the RNA is not degraded.

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.

Shipping Method: When shipping RNA samples, the RNA sample is stored in a 1.5 mL Eppendorf tube, sealed with sealing film. Shipments are generally recommended to contain 5-10 pounds of dry ice per 24 hours.

Deliverable: FastQ, BAM, coverage summary, QC report, custom bioinformatics analysis report.

References:

1. Jiang Z, Zhou X, Li R, et al. Whole transcriptome analysis with sequencing: methods, challenges and potential solutions. Cell Mol Life Sci. 2015,72(18): 3425–3439.
2. Ye L, Zhou X, Huang F, et al. The genetic landscape of benign thyroid nodules revealed by whole exome and transcriptome sequencing. Nat Commun. 2017, 8: 15533.