Rats are a model organism of human disease and physiology in important ways. To empower LncRNA expression profiling in rats, Arraystar Rat LncRNA Expression Array V2.0 has updated the repertoire of LncRNAs represented on the previous array version. The two major changes include:
1.Updated and stringent LncRNA collection. The public databases we used as the sources of our LncRNAs have been updated since the release of our V1.0 LncRNA Expression Arrays in early 2011. These databases include NCBI Refseq, Ensembl 5.0.79, and lncRNAdb. In addition, T-UCRs recently identified by several laboratories but not in the public databases are included. Most importantly, we developed a stringent computational approach to identify LncRNAs from these updated databases and publications, resulting in a more reliable LncRNA collection.
2.Concise and scientific LncRNA classification. LncRNAs have been re-classified into five subgroups (Intergenic, Bidirectional, Intronic, Antisense and Sense-overlapping) in the Arraystar Rat LncRNA Expression Array V2.0, based on their genomic arrangements relative to nearby protein-coding genes. The new classifications are more concise and scientifically accurate than those described in V1.0 to help researchers identify any putative functional relationships between LncRNAs and proximal protein-coding genes.
Composition of the Arraystar Rat LncRNA Expression Array V2.0
|Total Number of Distinct Probes
|Probe Selection Region
||Specific exon or splice junction probes along the entire length of the transcript
||By using a smart labeling system, we generate antisense RNAs that are Cy3- or Cy5-labeled along the entire length of the transcript without 3' bias, for both intact and degraded RNA samples in limited quantities.
|Protein Coding Transcripts (mRNAs)
|LncRNAs with Open Reading Frames
||LncRNA collections are based on: Updated Databases: NCBI Refseq, Ensembl 5.0.79, lncRNAdb; Literature[4-8]: T-UCRs, Evolutionary constrained LncRNAs
||mRNA collection is based on:
NCBI Refseq, Ensembl 5.0.79
||4 x 44K
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