SLAM-ITseq: sequencing cell type-specific transcriptomes without cell sorting.
Matsushima Wayo, Herzog Veronika A, Neumann Tobias, Gapp Katharina, Zuber Johannes, Ameres Stefan L, Miska Eric A
Principles of Systems Biology, No. 29.
Positioning Europe for the EPITRANSCRIPTOMICS challenge.
Jantsch Michael F, Quattrone Alessandro, O'Connell Mary, Helm Mark, Frye Michaela, Macias-Gonzales Manuel, Ohman Marie, Ameres Stefan, Willems Luc, Fuks Francois, Oulas Anastasis, Vanacova Stepanka, Nielsen Henrik, Bousquet-Antonelli Cecile, Motorin Yuri, Roignant Jean-Yves, Balatsos Nikolaos, Dinnyes Andras, Baranov Pavel, Kelly Vincent, Lamm Ayelet, Rechavi Gideon, Pelizzola Mattia, Liepins Janis, Holodnuka Kholodnyuk Irina, Zammit Vanessa, Ayers Duncan, Drablos Finn, Dahl John Arne, Bujnicki Janusz, Jeronimo Carmen, Almeida Raquel, Neagu Monica, Costache Marieta, Bankovic Jasna, Banovic Bojana, Kyselovic Jan, Valor Luis Miguel, Selbert Stefan, Pir Pinar, Demircan Turan, Cowling Victoria, Schäfer Matthias, Rossmanith Walter, Lafontaine Denis, David Alexandre, Carre Clement, Lyko Frank, Schaffrath Raffael, Schwartz Schraga, Verdel Andre, Klungland Arne, Purta Elzbieta, Timotijevic Gordana, Cardona Fernando, Davalos Alberto, Ballana Ester, O Carroll Donal, Ule Jernej, Fray Rupert
SLAM-seq defines direct gene-regulatory functions of the BRD4-MYC axis.
Muhar Matthias, Ebert Anja, Neumann Tobias, Umkehrer Christian, Jude Julian, Wieshofer Corinna, Rescheneder Philipp, Lipp Jesse J, Herzog Veronika A, Reichholf Brian, Cisneros David A, Hoffmann Thomas, Schlapansky Moritz F, Bhat Pooja, von Haeseler Arndt, Köcher Thomas, Obenauf Anna C, Popow Johannes, Ameres Stefan L, Zuber Johannes
Cell-type specific sequencing of microRNAs from complex animal tissues.
Alberti Chiara, Manzenreither Raphael A, Sowemimo Ivica, Burkard Thomas R, Wang Jingkui, Mahofsky Katharina, Ameres Stefan L, Cochella Luisa
Thiol-linked alkylation of RNA to assess expression dynamics.
Herzog Veronika A, Reichholf Brian, Neumann Tobias, Rescheneder Philipp, Bhat Pooja, Burkard Thomas R, Wlotzka Wiebke, von Haeseler Arndt, Zuber Johannes, Ameres Stefan L
Genetic and mechanistic diversity of piRNA 3'-end formation.
Hayashi Rippei, Schnabl Jakob, Handler Dominik, Mohn Fabio, Ameres Stefan L, Brennecke Julius
Molecular basis for cytoplasmic RNA surveillance by uridylation-triggered decay in Drosophila.
Reimão-Pinto Madalena M, Manzenreither Raphael A, Burkard Thomas R, Sledz Pawel, Jinek Martin, Mechtler Karl, Ameres Stefan L
Uridylation of RNA Hairpins by Tailor Confines the Emergence of MicroRNAs in Drosophila.
Reimão-Pinto Madalena M, Ignatova Valentina, Burkard Thomas R, Hung Jui-Hung, Manzenreither Raphael A, Sowemimo Ivica, Herzog Veronika A, Reichholf Brian, Fariña-Lopez Sara, Ameres Stefan L
Selective Suppression of the Splicing-Mediated MicroRNA Pathway by the Terminal Uridyltransferase Tailor.
Bortolamiol-Becet Diane, Hu Fuqu, Jee David, Wen Jiayu, Okamura Katsutomo, Lin Ching-Jung, Ameres Stefan L, Lai Eric C
Approaching the Golden Fleece a Molecule at a Time: Biophysical Insights into Argonaute-Instructed Nucleic Acid Interactions.
Herzog Veronika A, Ameres Stefan L
Diversifying microRNA sequence and function.
Ameres Stefan L, Zamore Phillip D
Long-term, efficient inhibition of microRNA function in mice using rAAV vectors.
Xie Jun, Ameres Stefan L, Friedline Randall, Hung Jui-Hung, Zhang Yu, Xie Qing, Zhong Li, Su Qin, He Ran, Li Mengxin, Li Huapeng, Mu Xin, Zhang Hongwei, Broderick Jennifer A, Kim Jason K, Weng Zhiping, Flotte Terence R, Zamore Phillip D, Gao Guangping
The 3'-to-5' exoribonuclease Nibbler shapes the 3' ends of microRNAs bound to Drosophila Argonaute1.
Han Bo W, Hung Jui-Hung, Weng Zhiping, Zamore Phillip D, Ameres Stefan L
MicroRNA-regulated, systemically delivered rAAV9: a step closer to CNS-restricted transgene expression.
Xie Jun, Xie Qing, Zhang Hongwei, Ameres Stefan L, Hung Jui-Hung, Su Qin, He Ran, Mu Xin, Seher Ahmed Seemin, Park Soyeon, Kato Hiroki, Li Chengjian, Mueller Christian, Mello Craig C, Weng Zhiping, Flotte Terence R, Zamore Phillip D, Gao Guangping
Target RNA-directed tailing and trimming purifies the sorting of endo-siRNAs between the two Drosophila Argonaute proteins.
Ameres Stefan L, Hung Jui-Hung, Xu Jia, Weng Zhiping, Zamore Phillip D
Target RNA-directed trimming and tailing of small silencing RNAs.
Ameres Stefan L, Horwich Michael D, Hung Jui-Hung, Xu Jia, Ghildiyal Megha, Weng Zhiping, Zamore Phillip D
Riding in silence: a little snowboarding, a lot of small RNAs.
Ameres Stefan L, Fukunaga Ryuya
The impact of target site accessibility on the design of effective siRNAs.
Tafer Hakim, Ameres Stefan L, Obernosterer Gregor, Gebeshuber Christoph A, Schroeder Renée, Martinez Javier, Hofacker Ivo L
RNA chaperone activity of L1 ribosomal proteins: phylogenetic conservation and splicing inhibition.
Ameres Stefan L, Shcherbakov Dmitry, Nikonova Ekaterina, Piendl Wolfgang, Schroeder Renée, Semrad Katharina