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Frith, Martin C., Valen, Eivind, Krogh, Anders, Hayashizaki, Yoshihide, Carninci, Piero and Sandelin, Albin (2008) A code for transcription initiation in mammalian genomes. Genome Research, 18 1: 1-12. doi:10.1101/gr.6831208 50   72 Cited 76 times in Scopus76 3
Andersson, Robin, Gebhard, Claudia, Miguel-Escalada, Irene, Hoof, Ilka, Bornholdt, Jette, Boyd, Mette, Chen, Yun, Zhao, Xiaobei, Schmidl, Christian, Suzuki, Takahiro, Ntini, Evgenia, Arner, Erik, Valen, Eivind, Li, Kang, Schwarzfischer, Lucia, Glatz, Dagmar, Raithel, Johanna, Lilje, Berit, Rapin, Nicolas, Bagger, Frederik Otzen, Jørgensen, Mette, Andersen, Peter Refsing, Bertin, Nicolas, Rackham, Owen, Burroughs, A. Maxwell, Baillie, J. Kenneth, Ishizu, Yuri, Shimizu, Yuri, Furuhata, Erina, Maeda, Shiori, Negishi, Yutaka, Mungall, Christopher J., Meehan, Terrence F., Lassmann, Timo, Itoh, Masayoshi, Kawaji, Hideya, Kondo, Naoto, Kawai, Jun, Lennartsson, Andreas, Daub, Carsten O., Heutink, Peter, Hume, David A., Jensen, Torben Heick, Suzuki, Harukazu, Hayashizaki, Yoshihide, Müller, Ferenc, The FANTOM consortium, Forrest, Alistair R. R., Carninci, Piero, Rehli, Michael, Sandelin, Albin, Beckhouse, Anthony G., Blumenthal, Antje, Briggs, James, Faulkner, Geoffrey J., Frith, Martin C., Hitchens, Kelly J., Kenna, Tony J., Ovchinnikov, Dmitry A., Vijayan, Dipti, Wells, Christine A. and Wolvetang, Ernst (2014) An atlas of active enhancers across human cell types and tissues. Nature, 507 7493: 455-461. doi:10.1038/nature12787 60   58 Cited 48 times in Scopus48 232
RIKEN GER Group,, Wells, C. A., Frith, M., Ravasi, T., Pang, K. C., Hallinan, J. S., Mattick, J. S., Hume, D. A., Katayama, S., Tomaru, Y., Kasukawa, T., Waki, K., Nakanishi, M., Nakamura, M. and Nishida, H. (2005) Antisense transcription in the mammalian transcriptome. Science, 309 5740: 1564-1566. doi:10.1126/science.1112009 288   745 Cited 757 times in Scopus757 7
Tompa, Martin, Li, Nan, Bailey, Timothy L., Church, George M., De Moor, Bart, Eskin, Eleazar, Favorov, Alexander V., Frith, Martin C., Fu, Yutao, Kent, W.James, Makeev, Vsevolod J., Mironov, Andrei A., Noble, William Stafford, Pavesi, Giulio, Pesole, Graziano, Regnier, Mireille, Simonis, Nicolas, Sinha, Saurabh, Thijs, Gert, van Helden, Jacques, Vandenbogaert, Mathias, Weng, Zhiping, Workman, Christopher, Ye, Chun and Zhu, Zhou (2005) Assessing computational tools for the discovery of transcription factor binding sites. Nature Biotechnology, 23 1: 137-144. doi:10.1038/nbt1053 134   679 Cited 757 times in Scopus757 9
Furuno, Masaaki, Pang, Ken C., Ninomiya, Noriko, Fukuda, Shiro, Frith, Martin C., Bult, Carol, Kai, Chikatoshi, Kawai, Jun, Carninci, P., Hayashizaki, Yoshihide, Mattick, John S. and Suzuki, Harukazu (2006) Clusters of internally primed transcripts reveal novel long noncoding RNAs. Plos Genetics, 2 4: 537-553. doi:10.1371/journal.pgen.0020037 152 145 83 Cited 63 times in Scopus63 0
Frith, Martin C., Saunders, Neil F. W., Kobe, Bostjan and Bailey, Timothy L. (2008) Discovering sequence motifs with arbitrary insertions and deletions. PLoS Computational Biology, 4 5: e1000071.1-e1000071.12. doi:10.1371/journal.pcbi.1000071 58   66 Cited 72 times in Scopus72 9
Frith, MC, Ponjavic, J, Fredman, D, Kai, C, Kawai, J, Carninci, P, Hayshizaki, Y and Sandelin, A (2006) Evolutionary turnover of mammalian transcription start sites. Genome Research, 16 6: 713-722. doi:10.1101/gr.5031006 42   51 Cited 54 times in Scopus54 0
Ravasi, T., Suzuki, H., Pang, K. C., Katayama, S., Furuno, M., Okunishi, R., Fukuda, S., Ru, K., Frith, M., Gongora, M., Grimmond, S., Hume, D. A., Hayashizaki, Y. and Mattick, J. S. (2006) Experimental validation of the regulated expression of large numbers of non-coding RNAs from the mouse genome. Genome Research, 16 1: 11-19. doi:10.1101/gr.4200206 84   197 Cited 206 times in Scopus206 0
Frith, Martin C., The FANTOM Consortium, Wolvetang, Ernst, Wells, Christine, Beckhouse, Anthony, Fearnley, Liam, Hitchens, Kelly, Kenna, Tony, Le Cao, Kim-Anh, Mason, Elizabeth, Nielsen, Lars and Vijayan, Dipti (2014) Explaining the correlations among properties of mammalian promoters. Nucleic Acids Research, 42 8: 4823-4832. doi:10.1093/nar/gku115 38   1 Cited 0 times in Scopus0 1
Carninci, Piero, Sandelin, Albin, Lenhard, Boris, Frith, Martin C., Forrest, Alistair R. R., Ravasi, Timothy, Grimmond, Sean M., Wells, Christine A., Hume, David A. and Hayashizaki, Yoshihide (2006) Genome-wide analysis of mammalian promoter architecture and evolution. Nature Genetics, 38 6: 626-635. doi:10.1038/ng1789 110   563 Cited 579 times in Scopus579 10
Whitington, Tom, Frith, Martin C., Johnson, James and Bailey, Timothy L. (2011) Inferring transcription factor complexes from ChIP-seq data. Nucleic Acids Research, 39 15: e98-1-e98-11. doi:10.1093/nar/gkr341 62   31 Cited 29 times in Scopus29 1
Baxter, L. L., Hsu, B. J., Umayam, L., Wolfsberg, T. G., Larson, D. M., Frith, M. C., Kawai, J., Hayashizaki, Y., Carninci, P. and Pavan, W. J. (2007) Informatic and genomic analysis of melanocyte cDNA libraries as a resource for the study of melanocyte development and function. Pigment Cell Research, 20 3: 201-209. doi:10.1111/j.1600-0749.2007.00372.x 50   3 Cited 4 times in Scopus4 0
Frith, Martin C., Wilming, Laurens G., Forrest, Alistair, Kawaji, Hideya, Tan, Sin Lam, Wahlestedt, Claes, Bajic, Vladimir B., Kai, Chikatoshi, Kawai, Jun, Carninci, Piero, Hayashizaki, Yoshihide, Bailey, Timothy L. and Huminiecki, Lukasz (2006) Pseudo-messenger RNA: Phantoms of the transcriptome. PLOS Genetics, 2 4: 504-514. doi:10.1371/journal.pgen.0020023 45   37 Cited 26 times in Scopus26 13
Pang, K. C., Frith, M. C. and Mattick, J. S. (2006) Rapid evolution of noncoding RNAs: lack of conservation does not mean lack of function. Trends In Genetics, 22 1: 1-5. doi:10.1016/j.tig.2005.10.003 63   222 Cited 240 times in Scopus240 12
Ohmiya, Hiroko, Vitezic, Morana, Frith, Martin C., Itoh, Masayoshi, Carninci, Piero, Forrest, Alistair R. R., Hayashizaki, Yoshihide, Lassmann, Timo, FANTOM Consortium, Beckhouse, Anthony, Wells, Christine, Vijayan, Dipti, Mason, Elizabeth, Wolvetang, Ernst, Hitchens, Kelly, Le Cao, Kim-Anh, Nielsen, Lars, Fearnley, Liam and Kenna, Tony (2014) RECLU: a pipeline to discover reproducible transcriptional start sites and their alternative regulation using capped analysis of gene expression (CAGE). BMC Genomics, 15 . doi:10.1186/1471-2164-15-269 33   2 Cited 1 times in Scopus1 3
Frith, M. C., Carninci, P., Kai, C., Kawai, J., Bailey, T. L., Hayashizaki, Y. and Mattick, J. S. (2007) Splicing bypasses 3' end formation signals to allow complex gene architectures. Gene, 403 1-2: 188-193. doi:10.1016/j.gene.2007.08.012 55   5 Cited 5 times in Scopus5 0
Frith, Martin C., Forrest, Alistair R., Nourbakhsh, Ehsan, Pang, Ken C., Kai, Chikatoshi, Kawai, Jun, Carnici, Piero, Hayashizaki, Yoshihide, Bailey, Timothy L. and Grimmond, Sean M. (2006) The abundance of short proteins in the mammalian proteome. Plos Genetics, 2 4: 515-528. doi:10.1371/journal.pgen.0020052 44   61 Cited 59 times in Scopus59 3
Frith, MC, Pheasant, M and Mattick, JS (2005) The amazing complexity of the human transcriptome. European Journal of Human Genetics, 13 8: 894-897. doi:10.1038/sj.ejhg.5201459 59   74 Cited 79 times in Scopus79 0
The FANTOM Consortium, Gough, J., Frith, M. C., Ravasi, T., Wells, C., Forrest, A. R. R., Davis, M. J., Aturaliya, R. N., Bailey, T. L., Crowe, M. L., Faulkner, G., Pang, K. C., Teasdale, R. D., Grimmond, S. M., Mattick, J. S., Hume, D. A. and RIKEN Genome Exploration Research Group and Genome Science Group (Genome Network Core Team) (2005) The transcriptional landscape of the mammalian genome. Science, 309 5740: 1559-1563. doi:10.1126/science.1112014 161   1333 Cited 1315 times in Scopus1315 5
Maeda, Norihiro, Kasukawa,Takeya, Frith, Martin, Aturaliya, Rajith N., Forrest, Alistair R. R., Ravasi,Timothy, Teasdale, Rohan D., Wells, Christine A., Hume,David A. and Hayashizaki,Yoshihide (2006) Transcript annotation in FANTOM3: Mouse gene catalog based on physical cDNAs. PLoS Genetics, 2 4: 498-503. doi:10.1371/journal.pgen.0020062 74   81 Cited 59 times in Scopus59 0