Publications
- Rapaport F, Khanin R, Liang Y, Pirun M,
Krek A, Zumbo P, Mason CE, Socci ND, Betel D.
omprehensive evaluation of differential gene expression analysis methods for RNA-seq data,
Genome Biology, 2013;14(9):R95, Highly Accessed
- Hafner M, Lianoglou S, Tuschl T, Betel D.
Genome-wide identification of miRNA targets by PAR-CLIP.,
METHODS, 2012 Aug. 19
- Lipchina I, Studer L, Betel D.
The expanding role of miR-302-367 in pluripotency and reprogramming,
Cell Cycle, 2012 Apr 15;11(8):1517-23
- Sun K, Westholm JO, Tsurudome K, Hagen JW, Lu Y, Kohwi M, Betel D, Gao FB, Haghighi AP, Doe CQ, Lai EC.,
Neurophysiological defects and neuronal gene deregulation in Drosophila mir-124 mutants,
PLoS Genet., 2012 Feb;8(2):e1002515
- Lipchina I, Elkabetz Y, Hafner M, Sheridan R, Mihailovic A,Tuschl T, Sander C, Studer L, Betel D,
Genome-wide identification of microRNA targets in human ES
cells reveals a role for miR-302 in modulating BMP response,
Genes & Dev., 2011; 25:2173-2186
- Yang JS, Phillips MD, Betel D, Mu P, Ventura A, Siepel AC, Chen KC, Lai EC,
Widespread regulatory activity of vertebrate microRNA*
species, RNA, 2011 Feb;17(2):312-26
- Betel D, Koppal A, Agius P, Sander C, Leslie CS,
Comprehensive modeling of microRNA targets predicts
functional non-conserved and non-canonical sites,
Genome Biology, 2010;11(8):R90, Highly
Accessed
- Mu P, Han Y-C, Betel D, Yao E, Squatrito M, Ogrodowski P,
Stanchina Ed, D’Andrea A, Sander C, Ventura A, Genetic
dissection of the miR-17~92 cluster of microRNAs in
Myc-induced B cell lymphomas, Genes & Dev., 2009
Dec. 15,23:2806-11
- Rajasethupathy P, Fiumara F, Sheridan R, Betel D, Puthanveettil SV, Russo JJ,
Sander C, Tuschl T, Kandel E., Characterization of small RNAs in aplysia reveals a role for miR-124 in
constraining synaptic plasticity through CREB
Neuron. 2009 Sep 24;63(6):803-17.
- Khan AA, Betel D, Miller ML, Sander C, Leslie CS, Marks DS,
Transfection of small RNAs globally perturbs regulation by endogenous
microRNAs Nature Biotechnology. 2009
Jun;27(6):549-55
- Betel D, Wilson M, Gabow A, Marks DS, Sander C., The microRNA.org
resource: targets and expression Nucleic Acids Res. 2008 Jan;36(Database
issue):D149-53.
- Betel D, Sheridan R, Marks DS, Sander C., Computational analysis of
mouse piRNA sequence and biogenesis, PLoS Comput Biol. 2007 Nov;
3(11):e222.
- Betel D, Breitkreuz KE, Isserlin R, Dewar-Darch D, Tyers M, Hogue CW.
Structure-templated predictions of novel protein interactions from sequence
information, PLoS Comput Biol. 2007 Sep
21;3(9):1783-9.
- Alfarano C, Andrade CE, Anthony K, Bahroos N, Bajec M, Bantoft K, Betel D, ...
, Pawson T, Ouellette BF, Hogue CW., The Biomolecular Interaction Network
Database and related tools 2005 update, Nucleic Acids Res. 2005 Jan
1;33(Database issue):D418-24.
- Betel D, Isserlin R, Hogue CWV, Analysis of domain correlations in Yeast
protein complexes, Bioinformatics 2004 Aug 4;20 Suppl1:i55-i62.
(Proceedings of the 12th Int. Conference On Intelligent Systems for
Molecular Biology (ISMB) and 3rd European Conference on Computational
Biology, 2004.)
- Bader GD, Betel D, Hogue CWV, BIND - The Biomolecular Interaction
Database, Nucleic Acids Res. 2003 Jan 1;31(1): 248-250.
- Michalickova K, Bader GD, Dumontier M, Lieu H, Betel D, Isserlin R, Hogue
CWV, SeqHound: biological sequence and structure database as a platform for bioinformatics research, BMC Bioinformatics2002 Oct 25;3(1):32.
- Betel D, Hogue CWV, Kangaroo - A pattern-matching program for biological
sequences, BMC Bioinformatics 2002 Jul 31;3(1):20.
- Park J*, Betel D*, Gryfe R, Michalickova K, Di Nicola N, Gallinger S, Hogue
CWV, Redston M, Mutation profiling of mismatch repair-deficient colorectal
cancers using an in silico genome scan to identify coding microsatellites,
Cancer Res. 2002 Mar 1;62(5):1284-8.
- Zhang W, Betel D, Schachter H, Cloning and expression of a novel UDP-
GlcNAc:alpha-D-mannoside beta1,2-N-acetylglucosaminyltransferase
homologous to UDP-GlcNAc:alpha-3-D-mannoside beta1,2-N-
acetylglucosaminyltransferase I, Biochem J. 2002 Jan
1;361(Pt 1):153-62.
Book Chapter
- Betel D, Khanin R,
Systems Biology of microRNAs, Handbook of
Statistical Systems Biology, Eds. Stumpf M., Balding DJ.,
Girolami M., John Wiley & Sons, Dec. 2011, ISBN: 978-0-470-71086-9