Reference-based mRNA Sequencing

Reference-based mRNA Sequencing

Service Overview

mRNA sequencing enables profiling of all mRNAs transcripted from cells under specific conditions. It is a powerful technology for revealing gene expression profile, gene structures and molecular mechanisms of certain biological processes. To date, mRNA sequencing has been widely employed in fundamental research, clinical diagnostics, drug development, etc.

Comprehensive mRNA Analysis


Acquisition of transcript structures and abundancy information simultaneously
Discovery of phenotype related gene structure variations
Functional analysis of differentially expressed genes

Professional Project Design; In-depth Interpretation of Data

The overall processes, from biological sampling to downstream bioinformatic analysis, strictly follow standard SOPs and can be monitored in real-time.
Experimental Design
RNA Extraction
Library Construction and Sequencing
Data Analysis
After-sale Technical Support

BMKCloud: Upgraded Customized Analysis

Visual bioinformtic analysis platform; Simple and direct user interface Customized analysis on simple “Clicks”
33

Basic tools

Retrieval of gene functions, gene name, sequences and ID; Functional and pathway analysis on key genes; WGCNA, etc.
22

Advanced tools

Customized differential expression analysis; Customized figure optimization; Co-expression analysis; gene structure analysis; etc.

8-hour Turnaround Time for Customized Analysis via Cloud; Traceable Project Progress; Best Sequencing Experience


Project progress is completely transparent and traceable on Cloud.
Highly efficient after-sale technical support available.
Your feedback on our on-line services are more than welcome.


Highly-experienced Technical Team; Wealthy Achievements


To date, Biomarker Technologies has accumulated massive experience in transcriptome sequencing. More than 70,000 samples were processed for transcriptome sequencing with Biomarker Technologies. We have helped our clients with over 470 paper in transcriptome, with cumulative impact factor of over 1470.
Biomarker Technologies owns more than 40 patents and over 150 software copyright, which equipped us to provide you the best services meeting your diverse research goals.
50+ skilled experts in analysis
Diverse successful cases
Highly-experienced technical team
3 distributed computer cluster servers
In-depth data interpretation
Optimized reports delivery
Professional after-sale support
Data Analysis

Results Demo

11

Data quality control

Rate of error basing calling is influenced by the instrument, reagents, samples, etc. It is commonly found in Illumina platform that the rate slowly climbs along the reading of sequence due to the consumption of reagents.
22

Mapping against reference genome

By mapping sample data to reference genome, the position of transcripts on genome or genes, as well as specific sequence features can be obtained.
33

Gene expression analysis

The box plots enable visualization of the gene expression dispersion within a single sample and the comparison of the overall expression level among all samples.
44

Differential expression analysis

Volcano plot is a plot of log2(Fold change) against log10 FDR, which clearly shows the differences in gene expression between two samples coupled with the corresponding significancy.
55

Gene fusion analysis

A fusion gene is defined as a hybridization of two or more genes with coding regions joined next to each other and sharing same set of regulators (e.g. promoters, enhancers, ribosome binding sites, terminators, etc.) These fusion genes may lead to abnormal protein products resulting in novel biological functions. They are recently regarded as important biomarkers for cancer diagnostics.
66

GO enrichment on DEGs

GO (Gene Ontology) database is a structured biological annotation system containing a standard vocabulary of gene and gene products functions. It contains multiple levels, where the lower the level is, the more specific the functions are.

FAQ

1How to choose a proper sequencing data volume for transcriptome sequencing?
In terms of species with reference genome, such as human, mice, etc., 6 Gb clean data is recommended to guarantee accuracy and reliability of downstream analysis. If further information on transcriptome is required, such as low-abundant transcripts, etc., larger data volume may be required. Therefore, the data volume can be flexible for different projects, depending on the specific research goal.
2How to deliver RNA samples?
Extracted RNA needs to be preserved in RNase-Free water and delivered with dry-ice. In terms of samples in tissue, tissue needs to be flash frozen in liquid nitrogen immediately after sampling or preserved in proper storage buffer at -80 degree. Contact us for more detailed sample delivery tips.
3How to process data interpretation?
Generally, the analysis of data can be divided into three aspects: gene identification, differentially expressed genes and SNPs. Genes can be studied for their ID, gene name, sequences, functional annotation, gene expression Venn between samples, WGCNA, etc. In differential expression analysis, common DEGs between different grouping can be identified by Venn. Genes with similar expression pattern among different treatments are likely to have similar functions. Therefore, hierarchy clustering is a useful method to extract genes with similar expression pattern for further functional analysis. SNP analysis contains PCA analysis, identification of differential SNPs between samples and SNP searching on targeted regions, etc. All the analysis mentioned above can be achieved on BMKCloud platform.