Transcripts with in silico predicted RNA structure are enriched everywhere in the mouse brain
1 Center for non-coding RNA in Technology and Health, University of Copenhagen, Denmark
2 , IBHV, University of Copenhagen, Denmark
3 Allen Institute for Brain Science, , USA
4 Computer Science and Engineering and Genome Sciences, Univ. of Washington, USA
5 Fred Hutchinson Cancer Research Center, , USA
BMC Genomics 2012, 13:214 doi:10.1186/1471-2164-13-214Published: 31 May 2012
Addtional file 1 :
Annotation of predicted structured probes. CSV-file listing the features of all structured probes from Table 1 and their CMfinder predicted RNA secondary structures.
Format: CSV Size: 16.3MB Download file
Addtional file 2 :
Tables and figures. This file contains lists of correlated expressed structured riboprobes, and additional tables and figures.
Format: PDF Size: 919KB Download file
This file can be viewed with: Adobe Acrobat Reader
Addtional file 3 :
GO analysis of structured UTR probes. 4115 structured UTR probes with known gene symbols are examined for GO term enrichment.
Format: TAB Size: 1MB Download file
Addtional file 4 :
GO analysis of non-structured UTR probes. 3407 non-structured UTR probes with known gene symbols are examined for GO term enrichment.
Format: TAB Size: 408KB Download file
Addtional file 5 :
Predicted significant RNA-RNA interactions. CSV-file listing 585 significant (p-value<1e-05) interactions between structured putative ncRNAs and UTRs. The interaction sites are predicted by RNAplfold and RNAplex to be larger than 9 nt and with a MFE smaller than -40 kcal/mol.
Format: CSV Size: 32KB Download file