Selective 2′-hydroxyl acylation analyzed by primer extension (SHAPE): quantitative RNA structure analysis at single nucleotide resolution

By K. Wilkinson, Edward J. Merino, Kevin M. Weeks. Nature Protocols, 2006

814 citations recorded by the source corpus.

How researchers see this paper

The researchers whose trusted networks rank it highest, strongest advocate first. Every researcher gets a different order.

Accurate SHAPE-directed RNA secondary structure modeling, including pseudoknots (2013, methodology): “Most RNAs were transcribed in vitro and contained short hairpin-containing structure cassettes at their 5′ and 3′ ends (20).”
Automated 3D structure composition for large RNAs (2012, methodology): “The control reaction ( (cid:2) ) was subtracted from NMIA reaction (+) and SHAPE reactivities were processed as described (9).”
RNA motif discovery by SHAPE and mutational profiling (SHAPE-MaP) (2014, neutral): “Templates were amplified by PCR and transcribed into RNA using T7 RNA polymerase 43 .”
Accurate SHAPE-directed RNA structure determination (2009, methodology): “Local nucleotide flexibility can be measured at the vast majority of positions in any RNA by use of SHAPE (selective 2 -hydroxyl acylation analyzed by primer extension) chemistry (22, 23).”
RNA secondary structure modeling at consistent high accuracy using differential SHAPE (2014, methodology): “Due to the higher information content of the NMIA – 1M6 analysis, we recommend using three reagents γ have chosen to use the original log-function for incorporating 1M7 data into SHAPE-directed structure modeling”