Our lab established a PAR-CLIP protocol for living C.elegans animals, called iPAR-CLIP. This allows to study RNA-binding protein interactions in vivo. Here, we list our published work, using this method. All sequencing data of published experiments are available through GEO.
,, ,, , ,
Unambiguous identification of miRNA:target site interactions by different types of ligation reactions.
Grosswendt S, Filipchyk A, Manzano M, Klironomos F, Schilling M, Herzog M, Gottwein E, Rajewsky N.
Mol Cell. 2014 Jun 19;54(6):1042-54. doi: 10.1016/j.molcel.2014.03.049. Epub 2014 May 22.
A variety of dicer substrates in human and C. elegans.
Rybak-Wolf A, Jens M, Murakawa Y, Herzog M, Landthaler M, Rajewsky N
Cell. 2014 Nov 20;159(5):1153-67. doi: 10.1016/j.cell.2014.10.040.
A note on RNA thio labeling
The above papers utilized 4-thiouridine for RNA-labeling and crosslinking. We have also attempted to use 4-thiouracil as an alternative to 4-thiouridine for iPAR-CLIP in C.elegans. The raw data can be made available upon request by E-mail to Nikolaus Rajewsky.