Print |

You have not viewed any products recently.

 

Small RNA Transcriptome

Simultaneously Profile Multiple Small RNA Classes Accurately

 

 

The Challenges and Solutions of Small RNA Profiling

The Biases of Using TPM in Small RNA Sequencing Data Analysis

Simultaneously Profile Multiple Small RNA Classes Accurately

Direct End-labeling to Avoid the Biases From Sequencing Library Prep

 

Mature small RNAs like miRNAs and tsRNAs have non-random, precisely cleaved termini and defined RNA sizes during biogenesis. Arraystar Small RNA Microarray probes are designed to maximize the sensitivity and specificity for both sequence and size discrimination for even closely related target RNAs.


For mature small RNA probes (Fig.1), the 5’-CAP hairpin structure and the fixed G position for C-Cy3 label provide much enhanced discriminating power for the mature small RNA size and terminal end. The short Specific Probe region matches to the optimal probe/target Tm for the hybridization condition. Along with the proclivity of small RNA precursors to form much more stable intra-molecular secondary structure and the relatively lower precursor RNA levels, the mature small RNA probes have excellent distinct specificity to differentiate mature vs precursor small RNA signals.

Smart_probe_design_for_small_RNA
Figure 1. Mature small RNA probe. From 5’->3’,  (A) The 5'-Cap segment forms a hairpin stem structure to destabilize longer size sequences such as precursors, isoforms from annealing. (B) The fixed G at the first base position in the probe hybridization region base pairs with the C-Cy3 label at the 3’-end of the target RNA, forming more stable GC-clamp. (C) The short ~20-nt Specific Probe region is normalized for optimal Tm to distinguish similar RNAs with only 1~2 base differences. (D) 3’-Linker provides the space to prevent steric hindrance from the slide surface.


For precursor/longer small RNA probes (Fig.2), the probes are designed to specifically hybridize the unique sequences of the pre-miRNAs, tRNAs, and snoRNAs.

Small_RNA_precursor_probe_design

Figure 2. Small RNA precursor probe. The ~20-nt short probe binding region is Tm optimized with the unique sequences of the precursor pre-miRNA, tRNA and snoRNA.

 

For the collections of miRNAs, pre-miRNAs, tsRNAs, tRNAs, and snoRNAs on the microarray, the probe sets accurately detect and quantify these small RNAs even with only one or two base differences.

 

Related Service

Small RNA Array Service

 

 

Back to news

Publications >>

mRNA&LncRNA Epitranscriptomic Array
METTL3/IGF2BP3 axis inhibits tumor immune surveillance by upregulating N6-methyladenosine modification of PD-L1 mRNA in breast cancer. Wan W, et al. Molecular Cancer, 2022​

Full text>>

circRNA Epitranscriptomic Array
METTL14-mediated m6A modification of circORC5 suppresses gastric cancer progression by regulating miR-30c-2-3p/AKT1S1 axis. Fan H N, et al. Molecular Cancer, 2022​

Full text>>

 

Promotion >>

10% OFF CircRNA Profiling 
Valid 11/01/2022 - 1/31/2023

Accurate CircRNA Profiling with Rich Analysis
Cited by +500 publications 


Request Quote>>

 

Brochures >> 

Arraystar Small RNA Array
miRNA, pre-miRNA, tRNA, tsRNA, snoRNA

The new way of sensitive, accurate, simultaneous profiling of major small RNA classes

Small_RNA_Brochure

Download.pdf

 

Webinars >>

​​The Latest Highlights on CircRNA in Cancer

youtube_circ_cover

Watch video


New Discoveries in m6A Epitranscriptomics

youtube_m6A_cover

Watch video


How to Study LncRNA Expression and Modifications?

Lnc_exp_and_mod

Watch video


Raising the Bar of Multi-transcrptomic Profiling of Small RNAs

Small_RNA_Array_Webinar

Watch video