Publications

Search Publications

Year	Title	Journal	Authors
2018	SLAM-ITseq: sequencing cell type-specific transcriptomes without cell sorting.	Development	Matsushima, W., Herzog, VA., Neumann, T., Gapp, K., Zuber, J., Ameres, SL., Miska, EA.
2018	Cell-type specific sequencing of microRNAs from complex animal tissues.	Nat Methods	Alberti, C., Manzenreither, RA., Sowemimo, I., Burkard, TR., Wang, J., Mahofsky, K., Ameres, SL., Cochella, L.
2018	Positioning Europe for the EPITRANSCRIPTOMICS challenge.	RNA Biol	Jantsch, M., Quattrone, A., O'Connell, M., Helm, M., Frye, M., Macias-Gonzales, M., Ohman, M., Ameres, S., Willems, L., Fuks, F., Oulas, A., Vanacova, S., Nielsen, H., Bousquet-Antonelli, C., Motorin, Y., Roignant, JY., Balatsos, N., Dinnyes, A., Baranov, P., Kelly, V., Lamm, A., Rechavi, G., Pelizzola, M., Liepins, J., Holodnuka Kholodnyuk, I., Zammit, V., Ayers, D., Drablos, F., Dahl, JA., Bujnicki, J., Jeronimo, C., Almeida, R., Neagu, M., Costache, M., Bankovic, J., Banovic, B., Kyselovic, J., Valor, LM., Selbert, S., Pir, P., Demircan, T., Cowling, V., Schäfer, M., Rossmanith, W., Lafontaine, D., David, A., Carre, C., Lyko, F., Schaffrath, R., Schwartz, S., Verdel, A., Klungland, A., Purta, E., Timotijevic, G., Cardona, F., Davalos, A., Ballana, E., O Carroll, D., Ule, J., Fray, R.
2018	Analysis of 3' End Modifications in microRNAs by High-Throughput Sequencing.	Methods Mol Biol	Reimão-Pinto, MM., Rodrigues-Viana, AM., Ameres, SL.
2018	SLAM-seq defines direct gene-regulatory functions of the BRD4-MYC axis.	Science	Muhar, M., Ebert, A., Neumann, T., Umkehrer, C., Jude, J., Wieshofer, C., Rescheneder, P., Lipp, JJ., Herzog, VA., Reichholf, B., Cisneros, DA., Hoffmann, T., Schlapansky, MF., Bhat, P., von Haeseler, A., Köcher, T., Obenauf, AC., Popow, J., Ameres, SL., Zuber, J.
2018	Small RNAs Are Trafficked from the Epididymis to Developing Mammalian Sperm.	Dev Cell	Sharma, U., Sun, F., Conine, CC., Reichholf, B., Kukreja, S., Herzog, VA., Ameres, SL., Rando, OJ.
2017	Thiol-linked alkylation of RNA to assess expression dynamics.	Nat Methods	Herzog, VA., Reichholf, B., Neumann, T., Rescheneder, P., Bhat, P., Burkard, TR., Wlotzka, W., von Haeseler, A., Zuber, J., Ameres, SL.
2016	Molecular basis for cytoplasmic RNA surveillance by uridylation-triggered decay in Drosophila.	EMBO J	Reimão-Pinto, MM., Manzenreither, RA., Burkard, TR., Sledz, P., Jinek, M., Mechtler, K., Ameres, SL.
2016	Genetic and mechanistic diversity of piRNA 3'-end formation.	Nature	Hayashi, R., Schnabl, J., Handler, D., Mohn, F., Ameres, SL., Brennecke, J.
2015	Approaching the Golden Fleece a Molecule at a Time: Biophysical Insights into Argonaute-Instructed Nucleic Acid Interactions.	Mol Cell	Herzog, VA., Ameres, SL.
2015	Uridylation of RNA Hairpins by Tailor Confines the Emergence of MicroRNAs in Drosophila.	Mol Cell	Reimão-Pinto, MM., Ignatova, V., Burkard, TR., Hung, JH., Manzenreither, RA., Sowemimo, I., Herzog, VA., Reichholf, B., Fariña-Lopez, S., Ameres, SL.
2015	Selective Suppression of the Splicing-Mediated MicroRNA Pathway by the Terminal Uridyltransferase Tailor.	Mol Cell	Bortolamiol-Becet, D., Hu, F., Jee, D., Wen, J., Okamura, K., Lin, CJ., Ameres, SL., Lai, EC.
2013	Diversifying microRNA sequence and function.	Nat Rev Mol Cell Biol	Ameres, SL., Zamore, PD.
2012	Long-term, efficient inhibition of microRNA function in mice using rAAV vectors.	Nat Methods	Xie, J., Ameres, SL., Friedline, R., Hung, JH., Zhang, Y., Xie, Q., Zhong, L., Su, Q., He, R., Li, M., Li, H., Mu, X., Zhang, H., Broderick, JA., Kim, JK., Weng, Z., Flotte, TR., Zamore, PD., Gao, G.
2011	MicroRNA-regulated, systemically delivered rAAV9: a step closer to CNS-restricted transgene expression.	Mol Ther	Xie, J., Xie, Q., Zhang, H., Ameres, SL., Hung, JH., Su, Q., He, R., Mu, X., Seher Ahmed, S., Park, S., Kato, H., Li, C., Mueller, C., Mello, CC., Weng, Z., Flotte, TR., Zamore, PD., Gao, G.
2011	Target RNA-directed tailing and trimming purifies the sorting of endo-siRNAs between the two Drosophila Argonaute proteins.	RNA	Ameres, SL., Hung, JH., Xu, J., Weng, Z., Zamore, PD.
2011	The 3'-to-5' exoribonuclease Nibbler shapes the 3' ends of microRNAs bound to Drosophila Argonaute1.	Curr Biol	Han, BW., Hung, JH., Weng, Z., Zamore, PD., Ameres, SL.
2010	Target RNA-directed trimming and tailing of small silencing RNAs.	Science	Ameres, SL., Horwich, MD., Hung, JH., Xu, J., Ghildiyal, M., Weng, Z., Zamore, PD.
2010	Riding in silence: a little snowboarding, a lot of small RNAs.	Silence	Ameres, SL., Fukunaga, R.
2008	The impact of target site accessibility on the design of effective siRNAs.	Nat Biotechnol	Tafer, H., Ameres, SL., Obernosterer, G., Gebeshuber, CA., Schroeder, R., Martinez, J., Hofacker, IL.