A strategy for identifying noncoding RNAs using whole-genome tiling arrays.
Whole-genome tiling arrays are powerful tools for detecting and characterizing novel RNA transcripts. Here, we describe a complete method combining elements of molecular and computational biology to identify small noncoding RNA (sRNA) transcripts. We focus on the key features of this approach, which include size-fractionation of input RNA, direct detection of array hybridization with antibodies that recognize RNA:DNA hybrids, and correlation-based computational methods for automated sRNA identification and boundary determination.
Department of Genetics, Stanford University, Stanford, CA, USA. sglandt@gmail.com
Stephen G
SG
Landt
Eduardo
E
Abeliuk
D023281:Genomics / Q000379:methods*; D020411:Oligonucleotide Array Sequence Analysis / Q000379:methods*; D012333:RNA, Messenger / Q000032:analysis / Q000235:genetics / Q000302:isolation & purification; D022661:RNA, Untranslated / Q000032:analysis* / Q000235:genetics* / Q000302:isolation & purification
D012333:RNA, Messenger; D022661:RNA, Untranslated