Stijn van Dongen
Stijn van Dongen
Senior Software Developer, Wellcome Sanger Institute, Cambridge UK
Verified email at sanger.ac.uk
Title
Cited by
Cited by
Year
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
50252006
miRBase: tools for microRNA genomics
S Griffiths-Jones, HK Saini, S Van Dongen, AJ Enright
Nucleic acids research 36 (suppl_1), D154-D158, 2007
48972007
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
34862002
Graph clustering by flow simulation
SM Van Dongen
2307*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
21472007
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
17292006
A new cluster algorithm for graphs
S Van Dongen, ...
Centrum voor Wiskunde en Informatica, 1998
531*1998
Graph clustering via a discrete uncoupling process
S Van Dongen
SIAM Journal on Matrix Analysis and Applications 30 (1), 121-141, 2008
4782008
Network visualization and analysis of gene expression data using BioLayout Express 3D
A Theocharidis, S Van Dongen, AJ Enright, TC Freeman
Nature protocols 4 (10), 1535-1550, 2009
4182009
RNA editing of human microRNAs
MJ Blow, RJ Grocock, S van Dongen, AJ Enright, E Dicks, PA Futreal, ...
Genome biology 7 (4), 1-8, 2006
3782006
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
3262009
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
3092013
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
2872008
Using MCL to extract clusters from networks
S Van Dongen, C Abreu-Goodger
Bacterial Molecular Networks, 281-295, 2012
2842012
Performance criteria for graph clustering and Markov cluster experiments
S Van Dongen
NATIONAL RESEARCH INSTITUTE FOR MATHEMATICS AND COMPUTER SCIENCE IN THE, 2000
283*2000
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
2802007
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
2272010
Targeted deletion of microRNA-22 promotes stress-induced cardiac dilation and contractile dysfunction
P Gurha, C Abreu-Goodger, T Wang, MO Ramirez, AL Drumond, ...
Circulation 125 (22), 2751-2761, 2012
1672012
Metric distances derived from cosine similarity and Pearson and Spearman correlations
S Van Dongen, AJ Enright
arXiv preprint arXiv:1208.3145, 2012
942012
scRNA-seq assessment of the human lung, spleen, and esophagus tissue stability after cold preservation
E Madissoon, A Wilbrey-Clark, RJ Miragaia, K Saeb-Parsy, ...
Genome biology 21 (1), 1-16, 2020
822020
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