miRBase: microRNA sequences, targets and gene nomenclature S Griffiths-Jones, RJ Grocock, S Van Dongen, A Bateman, AJ Enright Nucleic acids research 34 (suppl_1), D140-D144, 2006 | 5784 | 2006 |
miRBase: tools for microRNA genomics S Griffiths-Jones, HK Saini, S Van Dongen, AJ Enright Nucleic acids research 36 (suppl_1), D154-D158, 2007 | 5432 | 2007 |
An efficient algorithm for large-scale detection of protein families AJ Enright, S Van Dongen, CA Ouzounis Nucleic acids research 30 (7), 1575-1584, 2002 | 4055 | 2002 |
Graph clustering by flow simulation S Van Dongen PhD thesis, University of Utrecht, 2000 | 2579 | 2000 |
Requirement of bic/microRNA-155 for normal immune function A Rodriguez, E Vigorito, S Clare, MV Warren, P Couttet, DR Soond, ... Science 316 (5824), 608-611, 2007 | 2371 | 2007 |
Zebrafish MiR-430 promotes deadenylation and clearance of maternal mRNAs AJ Giraldez, Y Mishima, J Rihel, RJ Grocock, S Van Dongen, K Inoue, ... Science 312 (5770), 75, 2006 | 1937 | 2006 |
Graph clustering via a discrete uncoupling process S Van Dongen SIAM Journal on Matrix Analysis and Applications 30 (1), 121-141, 2008 | 651 | 2008 |
A new cluster algorithm for graphs S Van Dongen, ... Centrum voor Wiskunde en Informatica, 1998 | 640* | 1998 |
Single-cell multi-omics analysis of the immune response in COVID-19 E Stephenson, G Reynolds, RA Botting, FJ Calero-Nieto, MD Morgan, ... Nature medicine 27 (5), 904-916, 2021 | 515 | 2021 |
Network visualization and analysis of gene expression data using BioLayout Express3D A Theocharidis, S Van Dongen, AJ Enright, TC Freeman Nature protocols 4 (10), 1535-1550, 2009 | 498 | 2009 |
Kraken: a set of tools for quality control and analysis of high-throughput sequence data MPA Davis, S van Dongen, C Abreu-Goodger, N Bartonicek, AJ Enright Methods 63 (1), 41-49, 2013 | 433 | 2013 |
Using MCL to extract clusters from networks S Van Dongen, C Abreu-Goodger Bacterial molecular networks: Methods and protocols, 281-295, 2012 | 414 | 2012 |
RNA editing of human microRNAs MJ Blow, RJ Grocock, S van Dongen, AJ Enright, E Dicks, PA Futreal, ... Genome biology 7, 1-8, 2006 | 406 | 2006 |
An ENU-induced mutation of miR-96 associated with progressive hearing loss in mice MA Lewis, E Quint, AM Glazier, H Fuchs, MH De Angelis, C Langford, ... Nature genetics 41 (5), 614-618, 2009 | 374 | 2009 |
Detecting microRNA binding and siRNA off-target effects from expression data S Van Dongen, C Abreu-Goodger, AJ Enright Nature methods 5 (12), 1023-1025, 2008 | 328 | 2008 |
Performance criteria for graph clustering and Markov cluster experiments S Van Dongen Report-Information systems, 1-36, 2000 | 326* | 2000 |
Cells of the human intestinal tract mapped across space and time R Elmentaite, N Kumasaka, K Roberts, A Fleming, E Dann, HW King, ... Nature 597 (7875), 250-255, 2021 | 325 | 2021 |
Mapping the temporal and spatial dynamics of the human endometrium in vivo and in vitro L Garcia-Alonso, LF Handfield, K Roberts, K Nikolakopoulou, ... Nature genetics 53 (12), 1698-1711, 2021 | 306 | 2021 |
Construction, visualisation, and clustering of transcription networks from microarray expression data TC Freeman, L Goldovsky, M Brosch, S Van Dongen, P Mazière, ... PLoS computational biology 3 (10), e206, 2007 | 298 | 2007 |
Malignant germ cell tumors display common microRNA profiles resulting in global changes in expression of messenger RNA targets RD Palmer, MJ Murray, HK Saini, S van Dongen, C Abreu-Goodger, ... Cancer research 70 (7), 2911-2923, 2010 | 286 | 2010 |