| 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 | 5392 | 2009 |
| Open source clustering software MJL de Hoon, S Imoto, J Nolan, S Miyano Bioinformatics 20 (9), 1453-1454, 2004 | 3459 | 2004 |
| A promoter-level mammalian expression atlas. Nature 507 (7493), 462-470, 2014 | 2019* | 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 | 1052 | 2017 |
| 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 | 897 | 2015 |
| 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 | 628 | 2015 |
| 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 | 607 | 2012 |
| 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 | 605 | 2017 |
| 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, 2008 | 487 | 2008 |
| 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 | 415 | 2009 |
| 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 | 409 | 2010 |
| 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 | 360 | 2011 |
| 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 | 318 | 2014 |
| 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 | 294 | 2010 |
| 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 | 294 | 2010 |
| Hierarchical evolution of the bacterial sporulation network MJL de Hoon, P Eichenberger, D Vitkup Current biology 20 (17), R735-R745, 2010 | 288 | 2010 |
| 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 | 286 | 2003 |
| 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 | 250 | 2005 |
| Update of the FANTOM web resource: expansion to provide additional transcriptome atlases M Lizio, I Abugessaisa, S Noguchi, A Kondo, A Hasegawa, CC Hon, ... Nucleic acids research 47 (D1), D752-D758, 2019 | 226 | 2019 |
| Redefinition of the human mast cell transcriptome by deep-CAGE sequencing E Motakis, S Guhl, Y Ishizu, M Itoh, H Kawaji, M de Hoon, T Lassmann, ... Blood, The Journal of the American Society of Hematology 123 (17), e58-e67, 2014 | 223 | 2014 |
