Michiel de Hoon
Michiel de Hoon
Team Leader, RIKEN Center for Integrative Medical Sciences
No verified email
Title
Cited by
Cited by
Year
Open source clustering software
MJL de Hoon, S Imoto, J Nolan, S Miyano
Bioinformatics 20 (9), 1453-1454, 2004
28902004
Biopython: freely available Python tools for computational molecular biology and bioinformatics
PJA Cock, T Antao, JT Chang, BA Chapman, CJ Cox, A Dalke, I Friedberg, ...
Bioinformatics 25 (11), 1422-1423, 2009
26042009
A promoter-level mammalian expression atlas.
Nature 507 (7493), 462-470, 2014
1339*2014
An atlas of human long non-coding RNAs with accurate 5′ ends
CC Hon, JA Ramilowski, J Harshbarger, N Bertin, OJL Rackham, J Gough, ...
Nature 543 (7644), 199-204, 2017
5712017
Gateways to the FANTOM5 promoter level mammalian expression atlas
M Lizio, J Harshbarger, H Shimoji, J Severin, T Kasukawa, S Sahin, ...
Genome biology 16 (1), 1-14, 2015
4632015
Transcribed enhancers lead waves of coordinated transcription in transitioning mammalian cells
E Arner, CO Daub, K Vitting-Seerup, R Andersson, B Lilje, F Drabløs, ...
Science 347 (6225), 1010-1014, 2015
4172015
Site-specific DICER and DROSHA RNA products control the DNA-damage response
S Francia, F Michelini, A Saxena, D Tang, M de Hoon, V Anelli, M Mione, ...
Nature 488 (7410), 231-235, 2012
4082012
DBTBS: a database of transcriptional regulation in Bacillus subtilis containing upstream intergenic conservation information
N Sierro, Y Makita, M de Hoon, K Nakai
Nucleic acids research 36 (suppl_1), D93-D96, 2007
4032007
The transcriptional network that controls growth arrest and differentiation in a human myeloid leukemia cell line
H Suzuki, ARR Forrest, E van Nimwegen, CO Daub, PJ Balwierz, ...
Nature genetics 41 (5), 553-562, 2009
3492009
A comprehensive survey of 3′ animal miRNA modification events and a possible role for 3′ adenylation in modulating miRNA targeting effectiveness
AM Burroughs, Y Ando, MJL de Hoon, Y Tomaru, T Nishibu, R Ukekawa, ...
Genome research 20 (10), 1398-1410, 2010
3342010
Inferring gene regulatory networks from time-ordered gene expression data of Bacillus subtilis using differential equations.
MJL De Hoon, S Imoto, K Kobayashi, N Ogasawara, S Miyano
Pacific Symposium on Biocomputing 8, 17-28, 2003
2712003
Deep-sequencing of human Argonaute-associated small RNAs provides insight into miRNA sorting and reveals Argonaute association with RNA fragments of diverse origin
AM Burroughs, Y Ando, ML de Hoon, Y Tomaru, H Suzuki, Y Hayashizaki, ...
RNA biology 8 (1), 158-177, 2011
2702011
Induction of microRNAs, mir-155, mir-222, mir-424 and mir-503, promotes monocytic differentiation through combinatorial regulation
ARR Forrest, M Kanamori-Katayama, Y Tomaru, T Lassmann, N Ninomiya, ...
Leukemia 24 (2), 460-466, 2010
2532010
Induction of microRNAs, mir-155, mir-222, mir-424 and mir-503, promotes monocytic differentiation through combinatorial regulation
ARR Forrest, M Kanamori-Katayama, Y Tomaru, T Lassmann, N Ninomiya, ...
Leukemia 24 (2), 460-466, 2010
2532010
An integrated expression atlas of miRNAs and their promoters in human and mouse
D de Rie, I Abugessaisa, T Alam, E Arner, P Arner, H Ashoor, G Åström, ...
Nature Biotechnology 35 (9), 872-878, 2017
2362017
Deep transcriptome profiling of mammalian stem cells supports a regulatory role for retrotransposons in pluripotency maintenance
A Fort, K Hashimoto, D Yamada, M Salimullah, CA Keya, A Saxena, ...
Nature genetics 46 (6), 558-566, 2014
2272014
Hierarchical evolution of the bacterial sporulation network
MJL de Hoon, P Eichenberger, D Vitkup
Current biology 20 (17), R735-R745, 2010
2022010
Prediction of transcriptional terminators in Bacillus subtilis and related species
MJL de Hoon, Y Makita, K Nakai, S Miyano
PLoS computational biology 1 (3), e25, 2005
2012005
Why Yule-Walker should not be used for autoregressive modelling
MJL De Hoon, T Van der Hagen, H Schoonewelle, H Van Dam
Annals of Nuclear Energy 23 (15), 1219-1228, 1996
1301996
Cross-mapping and the identification of editing sites in mature microRNAs in high-throughput sequencing libraries
MJL de Hoon, RJ Taft, T Hashimoto, M Kanamori-Katayama, H Kawaji, ...
Genome research 20 (2), 257-264, 2010
1272010
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Articles 1–20