LncRNA Sequencing

Service Overview

Long non-coding RNAs (lncRNA) are a type of transcripts with length longer than 200 nt, which are unable to code proteins. Accumulative evidence suggests that most of lncRNAs are very likely to be functional. High-throughput sequencing technologies and bioinformatic analyzing tools empower us to reveal lncRNA sequences and positioning information more efficiently and lead us to discover lncRNAs with crucial regulatory functions. Moreover, breaking the limitations of microarray-based lncRNA studies, lncRNA sequencing enables novel lncRNA prediction.

Service Workflow

Experimental Design
RNA Extraction
Library Construction and Sequencing
Data Analysis
After-sale Technical Support
Library: LncRNA sequencing library (strand-specific library)
RNA sample requirements:
Sample type: Total RNA
For human and mouse samples: Conc. of RNA ≥ 50 nb/μl (Qubit) ,Total amont of DNA ≥ 3μg (Qubit)
Quality: OD260/280≥1.8, OD260/230≥0.5, RIN≥7.0, 28S/18S≥1.0

Results Demo







LncRNA prediction
LncRNA prediction consists basic screening (basing on length, exons, expression level) and coding potential screening. Coding potential screening is processed in four commonly employed methods: CPC analysis, CNCI analysis, CPAT analysis and pfam protein domain analysis. Venn diagram on non-coding transcripts sets shows overlaps of the four sets giving visual information in lncRNA selection.









LncRNA classification
Predicted lncRNA are classified into four categories: lincRNA, anti-sense_lncRNA, intronic_lncRNA; sense_lncRNA.







Hierarchical clustering of differentially expressed lncRNA
LncRNAs with same or similar expression patterns across different experimental conditions are clustered together by Hierarchical clustering analysis. The lncRNAs in the same clusters are more likely to be functionally relevant to each other, i.e. involved in same or similar pathways.









Districbution of lncRNA on chromosome
Position of lncRNAs on genome, especially relative positions to genes is closely related to the regulatory functions. It has been proved in literature that some lncRNA could act as promoters and regulate neighboring genes. Therefore, we provide analysis on the distribution of differentially expressed lncRNA and mRNA on chromosome.

Publications with Us


FAQ

1What are the main functions of lncRNA?
LncRNA main functions include: interfering expression of down-stream genes; affecting mRNA splicing to generate different alternative spliced mRNA; regulate protein coding DNAs with complementary sequences, generating endogenous siRNA by Dicer enzyme, precursor of small RNA molecules, such as miRNA, piRNA, etc
2How to process lncRNA prediction?
LncRNA prediction includes basic screening and coding potential screening. (1)Basic screening criteria: Length≥200 nt, Number of exons≥2, FPKM≥0.1 (2)Coding potential screening : The coding potential is predicted in four methods, including CPC analysis, CNCI analysis, CPAT analysis and pfam protein domain analysis. Transcripts without coding potential are saved. LncRNAs are defined as intersections of the four sets.