Detecting microRNA binding and siRNA off-target effects from expression data

por van Dongen, Stijn, Abreu-Goodger, Cei, Enright, Anton J
Publicado 2008

Flexible comparison of batch correction methods for single-cell RNA-seq using BatchBench

por Chazarra-Gil, Ruben, van Dongen, Stijn, Kiselev, Vladimir Yu, Hemberg, Martin
Publicado 2021

miRBase: tools for microRNA genomics

por Griffiths-Jones, Sam, Saini, Harpreet Kaur, van Dongen, Stijn, Enright, Anton J.
Publicado 2008

Large-scale analysis of microRNA expression, epi-transcriptomic features and biogenesis

por Vitsios, Dimitrios M., Davis, Matthew P., van Dongen, Stijn, Enright, Anton J.
Publicado 2017

miRBase: microRNA sequences, targets and gene nomenclature

por Griffiths-Jones, Sam, Grocock, Russell J., van Dongen, Stijn, Bateman, Alex, Enright, Anton J.
Publicado 2006

Comparison of visualization tools for single-cell RNAseq data

por Cakir, Batuhan, Prete, Martin, Huang, Ni, van Dongen, Stijn, Pir, Pinar, Kiselev, Vladimir Yu
Publicado 2020

Kraken: A set of tools for quality control and analysis of high-throughput sequence data()

por Davis, Matthew P.A., van Dongen, Stijn, Abreu-Goodger, Cei, Bartonicek, Nenad, Enright, Anton J.
Publicado 2013

Mirnovo: genome-free prediction of microRNAs from small RNA sequencing data and single-cells using decision forests

por Vitsios, Dimitrios M., Kentepozidou, Elissavet, Quintais, Leonor, Benito-Gutiérrez, Elia, van Dongen, Stijn, Davis, Matthew P., Enright, Anton J.
Publicado 2017

RNA editing of human microRNAs

por Blow, Matthew J, Grocock, Russell J, van Dongen, Stijn, Enright, Anton J, Dicks, Ed, Futreal, P Andrew, Wooster, Richard, Stratton, Michael R
Publicado 2006

Construction, Visualisation, and Clustering of Transcription Networks from Microarray Expression Data

por Freeman, Tom C, Goldovsky, Leon, Brosch, Markus, van Dongen, Stijn, Mazière, Pierre, Grocock, Russell J, Freilich, Shiri, Thornton, Janet, Enright, Anton J
Publicado 2007

Exploring regulatory networks of miR-96 in the developing inner ear

por Lewis, Morag A., Buniello, Annalisa, Hilton, Jennifer M., Zhu, Fei, Zhang, William I., Evans, Stephanie, van Dongen, Stijn, Enright, Anton J., Steel, Karen P.
Publicado 2016

MiR-277/4989 regulate transcriptional landscape during juvenile to adult transition in the parasitic helminth Schistosoma mansoni

por Protasio, Anna V., van Dongen, Stijn, Collins, Julie, Quintais, Leonor, Ribeiro, Diogo M., Sessler, Florian, Hunt, Martin, Rinaldi, Gabriel, Collins, James J., Enright, Anton J., Berriman, Matthew
Publicado 2017

Correction: MiR-277/4989 regulate transcriptional landscape during juvenile to adult transition in the parasitic helminth Schistosoma mansoni

por Protasio, Anna V., van Dongen, Stijn, Collins, Julie, Quintais, Leonor, Ribeiro, Diogo M., Sessler, Florian, Hunt, Martin, Rinaldi, Gabriel, Collins, James J., Enright, Anton J., Berriman, Matthew
Publicado 2022

Long- and Short-Term Selective Forces on Malaria Parasite Genomes

por Nygaard, Sanne, Braunstein, Alexander, Malsen, Gareth, Van Dongen, Stijn, Gardner, Paul P., Krogh, Anders, Otto, Thomas D., Pain, Arnab, Berriman, Matthew, McAuliffe, Jon, Dermitzakis, Emmanouil T., Jeffares, Daniel C.
Publicado 2010

Large-Scale Identification of MicroRNA Targets in Murine Dgcr8-Deficient Embryonic Stem Cell Lines

por Davis, Matthew P. A., Abreu-Goodger, Cei, van Dongen, Stijn, Lu, Dong, Tate, Peri H., Bartonicek, Nenad, Kutter, Claudia, Liu, Pentao, Skarnes, William C., Enright, Anton J., Dunham, Ian
Publicado 2012

The two most common histological subtypes of malignant germ cell tumour are distinguished by global microRNA profiles, associated with differential transcription factor expression

por Murray, Matthew J, Saini, Harpreet K, van Dongen, Stijn, Palmer, Roger D, Muralidhar, Balaji, Pett, Mark R, Piipari, Matias, Thornton, Claire M, Nicholson, James C, Enright, Anton J, Coleman, Nicholas
Publicado 2010

Transposon‐driven transcription is a conserved feature of vertebrate spermatogenesis and transcript evolution

por Davis, Matthew P, Carrieri, Claudia, Saini, Harpreet K, van Dongen, Stijn, Leonardi, Tommaso, Bussotti, Giovanni, Monahan, Jack M, Auchynnikava, Tania, Bitetti, Angelo, Rappsilber, Juri, Allshire, Robin C, Shkumatava, Alena, O'Carroll, Dónal, Enright, Anton J
Publicado 2017

Visualization and analysis of RNA-Seq assembly graphs

por Nazarie, Fahmi W, Shih, Barbara, Angus, Tim, Barnett, Mark W, Chen, Sz-Hau, Summers, Kim M, Klein, Karsten, Faulkner, Geoffrey J, Saini, Harpreet K, Watson, Mick, van Dongen, Stijn, Enright, Anton J, Freeman, Tom C
Publicado 2019

Many si/shRNAs can kill cancer cells by targeting multiple survival genes through an off-target mechanism

por Putzbach, William, Gao, Quan Q, Patel, Monal, van Dongen, Stijn, Haluck-Kangas, Ashley, Sarshad, Aishe A, Bartom, Elizabeth T, Kim, Kwang-Youn A, Scholtens, Denise M, Hafner, Markus, Zhao, Jonathan C, Murmann, Andrea E, Peter, Marcus E
Publicado 2017

An ENU-induced mutation of miR-96 associated with progressive hearing loss in mice

por Lewis, Morag A, Quint, Elizabeth, Glazier, Anne M, Fuchs, Helmut, De Angelis, Martin Hrabé, Langford, Cordelia, van Dongen, Stijn, Abreu-Goodger, Cei, Piipari, Matias, Redshaw, Nick, Dalmay, Tamas, Pelayo, Miguel Angel Moreno, Enright, Anton J, Steel, Karen P
Publicado 2009