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Gagen, M. J. and Mattick, J. S. (2005) Accelerating, hyperaccelerating, and decelerating networks. Physical Review E, 72 1: . doi:10.1103/PhysRevE.72.016123 250 3 19 Cited 19 times in Scopus19 0
Mattick, JS and Gagen, MJ (2005) Accelerating networks. Science, 307 5711: 856-858. doi:10.1126/science.1103737 131   55 Cited 60 times in Scopus60 0
Mattick, John S., Taft, Ryan J. and Faulkner, Geoffrey J. (2010) A global view of genomic information - moving beyond the gene and the master regulator. Trends in Genetics, 26 1: 21-28. doi:10.1016/j.tig.2009.11.002 69   75 Cited 98 times in Scopus98 1
Mattick, J. S., Gagen, M. J. and Stanley, S. (2003). A method for identifying effector molecules for gene network integration. WO 03/025229 A1. 43  
Huang, Bixing, Whitchurch, Cynthia B., Croft, Larry, Beatson, Scott A. and Mattick, John S. (2000) A minimal tiling path cosmid library for functional analysis of the Pseudomonas aeruginosa PAO1 genome. Microbial and Comparative Genomics, 5 4: 189-203. doi:10.1089/omi.1.2000.5.189 68   Cited 15 times in Scopus15 0
Mattick, John S. (2007) A new paradigm for developmental biology. The Journal of Experimental Biology, 210 9: 1526-1547. doi:10.1242/jeb.005017 72   134 Cited 140 times in Scopus140 0
Croft, L., Beatson, S. A., Whitchurch, C. B., Huang, B., Blakeley, R. L. and Mattick, J. S. (2000) An interactive web-based Pseudomonas aeruginosa genome database: discovery of new genes, pathways and structures. Microbiology, 146 2351-2364. 62   46
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 297   776 Cited 788 times in Scopus788 7
Semmler, A. B. T., Whitchurch, C. B. and Mattick, J. S. (1999) A re-examination of twitching motility in Pseudomonas aeruginosa. Microbiology, 145 2863-2873. 110   129
Guffanti, Alessandro, Iacono, Michele, Pelucchi, Paride, Kim, Namshin, Solda, Giulia, Croft, Larry J., Taft, Ryan J., Rizzi, Ermanno, Askarian-Amiri, Marjan, Bonnal, Raoul J., Callari, Maurizio, Mignone, Flavio, Pesole, Graziano, Bertalot, Giovanni, Bernardi, Luigi Rossi, Albertini, Alberto, Lee, Christopher, Mattick, John S., Zucchi, Ileana and De Bellis, Gianluca (2009) A transcriptional sketch of a primary human breast cancer by 454 deep sequencing. BMC Genomics, 10 163.1-163.17. doi:10.1186/1471-2164-10-163 114   77 Cited 85 times in Scopus85 0
Lai, John, Lehman, Melanie L., Dinger, Marcel E., Hendy, Stephen C., Mercer, Tim R., Seim, Inge, Lawrence, Mitchell G., Mattick, John S., Clements, Judith A. and Nelson, Colleen C. (2010) A variant of the KLK4 gene is expressed as a cis sense-antisense chimeric transcript in prostate cancer cells. RNA, 16 6: 1156-1166. doi:10.1261/rna.2019810 63   11 Cited 8 times in Scopus8 0
Mattick, J. S. (2011). Challenging the dogma: the central role of RNA in human development and cognition. In: Special Issue: 36th FEBS Congress, Biochemistry for Tomorrow's Medicine. 36th FEBS Congress, Biochemistry for Tomorrows Medicine, Torino, Italy, (2-2). 25-30 June 2011. doi:10.1111/j.1742-4658.2011.08142.x 100   0 0
Mattick, John S. (2003) Challenging the dogma: the hidden layer of non-protein-coding RNAs in complex organisms. Bioessays, 25 10: 930-939. doi:10.1002/bies.10332 182   294 Cited 322 times in Scopus322 3
Whitchurch, Cynthia B., Leech, Andrew J., Young, Michael D., Kennedy, Derek, Sargent,Jennifer L., Bertrand, Jacob J., Semmler, Annalese B.T., Mellick, Albert S., Martin, Paul R., Alm, Richard A., Hobbs, Matthew, Beatson, Scott A., Huang, Bixing, Nguyen, Lam, Commolli, James C., Engel, Joanne N., Darzins, Aldis and Mattick, John S. (2004) Characterization of a complex chemosensory signal transduction system which controls twitching motility in Pseudomonas aeruginosa. Molecular Microbiology, 52 3: 873-893. doi:10.1111/j.1365-2958.2004.04026.x 79   68 Cited 71 times in Scopus71 0
Kennedy, D., French, J., Guitard, E., Ru, K. L., Tocque, B. and Mattick, J. (2002) Characterization of G3BPs: Tissue specific expression, chromosomal localisation and rasGAP(120) binding studies. Journal of Cellular Biochemistry, 84 1: 173-187. doi:10.1002/jcb.1277 60   2 Cited 28 times in Scopus28 0
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 155 163 85 Cited 63 times in Scopus63 0
Kanai-Azuma, Masami, Mattick, John S., Kaibuchi, Kozo and Wood, Stephen A. (2000) Co-localization of FAM and AF-6, the mammalian homologues of Drosophila faf and canoe, in mouse eye development. Mechanisms of Development, 91 1-2: 383-386. doi:10.1016/S0925-4773(99)00294-4 62   19 Cited 21 times in Scopus21 0
Amaral, Paulo P., Neyt, Christine, Wilkins, Simon J., Askarian-Amiri, Marjan E., Sunkin, Susan M., Perkins, Andrew C. and Mattick, John S. (2009) Complex architecture and regulated expression of the Sox2ot locus during vertebrate development. RNA, 15 11: 2013-2027. doi:10.1261/rna.1705309 63   45 Cited 46 times in Scopus46 3
de Hoon, Michiel J. L., Taft, Ryan J., Hashimoto, Takehiro, Kanamori-Katayama, Mutsumi, Kawaji, Hideya, Kawano, Mitsuoki, Kishima, Mami, Lassmann, Timo, Faulkner, Geoffrey J., Mattick, John S., Daub, Carsten O., Carninci, Piero, Kawai, Jun, Suzuki, Harukazu and Hayashizaki, Yoshihide (2010) Cross-mapping and the identification of editing sites in mature microRNAs in high-throughput sequencing libraries. Genome Research, 20 2: 257-264. doi:10.1101/gr.095273.109 70   54 Cited 62 times in Scopus62 0
Mattick, John S. (2009). Deconstructing the dogma: A new view of the evolution and genetic programming of complex organisms. In: Günther Witzany and Douglas Braaten, Natural Genetic Engineering and Natural Genome Editing. GenConText 2008: Symposium on Natural Genetic Engineering and Natural Genome Editing, Salzburg, Austria, (29-46). 3-6 July 2008. doi:10.1111/j.1749-6632.2009.04991.x 131   34 Cited 40 times in Scopus40 2
Keith, J. M., Adams, P., Stephen, S. and Mattick, J. S. (2008) Delineating slowly and rapidly evolving fractions of the Drosophila genome. Journal of Computational Biology, 15 4: 407-430. doi:10.1089/cmb.2007.0173 29   11 Cited 11 times in Scopus11 0
Beatson, Scott A., Whitchurch, Cynthia B., Sargent, Jennifer L., Levesque, Roger C. and Mattick, John S. (2002) Differential regulation of twitching motility and elastase production by Vfr in Pseudomonas aeruginosa. Journal of Bacteriology, 184 13: 3605-3613. doi:10.1128/JB.184.13.3605-3613.2002 63   92 Cited 96 times in Scopus96 0
Dinger, Marcel E., Pang, Ken C., Mercer, Tim R. and Mattick, John S. (2008) Differentiating protein-coding and noncoding RNA: Challenges and ambiguities. PLoS Computational Biology, 4 11: e1000176.1-e1000176.5. doi:10.1371/journal.pcbi.1000176 52   134 Cited 136 times in Scopus136 3
Mattick, John S. (2004) Digital RNA regulation of complex organisms. Gene Therapy and Regulation, 2 4: 313-319. doi:10.1163/1568558043967517 61   Cited 0 times in Scopus0 0
Frith, M. C., Bailey, T. L., Kasukawa, T., Mignone, F., Kummerfeld, S. K., Medera, M., Sunkara, S., Furuno, M., Bult, C. J., Quackenbush, J., Kai, C., Kawai, J., Carninci, P., Hayashizaki, Y, Pesole, G. and Mattick, J. S. (2006) Discrimination of Non-Protein-Coding Transcripts from Protein-Coding mRNA. RNA Biology, 3 1: 40-48. 76   Cited 38 times in Scopus38
Mercer, Tim R., Edwards, Stacey L., Clark, Michael B., Neph, Shane J., Wang, Hao, Stergachis, Andrew B., John, Sam, Sandstrom, Richard, Li, Guoliang, Sandhu, Kuljeet S., Ruan, Yijun, Nielsen, Lars K., Mattick, John S. and Stamatoyannopoulos, John A. (2013) DNase I-hypersensitive exons colocalize with promoters and distal regulatory elements. Nature Genetics, 45 8: 852-859. doi:10.1038/ng.2677 33   26 Cited 21 times in Scopus21 89
Fernandez-Valverde, Selene L., Taft, Ryan J. and Mattick, John S. (2010) Dynamic isomiR regulation in Drosophila development. RNA, 16 10: 1881-1888. doi:10.1261/rna.2379610 56   96 Cited 88 times in Scopus88 3
Leech, Andrew J. and Mattick, John S. (2006) Effect of site-specific mutations in different phosphotransfer domains of the chemosensory protein ChpA on Pseudomonas aeruginosa motility. Journal of Bacteriology, 188 24: 8479-8486. doi:10.1128/JB.00157-06 56   11 Cited 10 times in Scopus10 0
Hallinan, J. S., Bradley, D R, Mattick, J S and Wiles, J H (2006). Effects of an RNA control layer on the state space of boolean models of genetic regulatory networks. In: 2006 IEEE Congress on Evolutionary Computation. 2006 IEEE Congress on Evolutionary Computation, Vancouver, Canada, (2551-2555). 16-21 July, 2006. 60 3 Cited 0 times in Scopus0
Mattick, John S. (2008) Ein neues Verständnis des humanen Genoms = A new understanding of the human genome. Lab&More, 2 6-8. 73  
Glazov, A., Pheasant, M., Nahkuri, S. and Mattick, J. S. (2006) Evidence for control of splicing by alternative RNA secondary structures in Dipteran homothorax pre-mRNA. RNA Biology, 3 1: 36-39. 67   Cited 11 times in Scopus11
Taft, R. J., Kaplan, C. D., Simons, C and Mattick, J. S. (2009) Evolution, biogenesis and function of promoter-associated RNAs. Cell Cycle, 8 15: 2332-2338. doi:10.4161/cc.8.15.9154 51   44 Cited 51 times in Scopus51 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 87   207 Cited 217 times in Scopus217 0
Smart, Chanel E., Askarian Amiri, Marjan E., Wronski, Ania, Dinger, Marcel E., Crawford, Joanna, Ovchinnikov, Dmitry A., Vargas, Ana Cristina, Reid, Lynne, Simpson, Peter T., Song, Sarah, Wiesner, Christiane, French, Juliet D., Dave, Richa K., da Silva, Leonard, Purdon, Amy, Andrew, Megan, Mattick, John S., Lakhani, Sunil R., Brown, Melissa A. and Kellie, Stuart (2012) Expression and function of the protein tyrosine phosphatase receptor J (PTPRJ) in normal mammary epithelial cells and breast tumors. PLoS One, 7 7: e40742.1-e40742.13. doi:10.1371/journal.pone.0040742 149   3 Cited 3 times in Scopus3 0
Mercer, Tim R., Wilhelm, Dagmar, Dinger, Marcel E., Solda, Giulia, Korbie, Darren J., Glazov, Evgeny A., Truong, Vy, Schwenke, Maren, Simons, Cas, Matthaei, Klaus I., Saint, Robert, Koopman, Peter and Mattick, John S. (2011) Expression of distinct RNAs from 3′ untranslated regions. Nucleic Acids Research, 39 6: 2393-2403. doi:10.1093/nar/gkq1158 115 23 57 Cited 68 times in Scopus68 1
Pantaleon, M., Kanai-Azum, M., Mattick, J. S., Kaibuchi, K., Kaye, P. L. and Wood, S. (1999). Expression of FAM, a ubiquitin specific protease in mouse embryos. In: 30th Anual Conference of Australian Society for Reproductive Biology. 30th Anual Conference of Australian Society for Reproductive Biology, Hilton-On-The-Park, Melbourne, (x-x). 26 -29 September, 1999. 40  
Faunes, Fernando, Sanchez, Natalia, Moreno, Mauricio, Olivares, Gonzalo H., Lee-Liu, Dasfne, Almonacid, Leonardo, Slater, Alex W., Norambuena, Tomas, Taft, Ryan J., Mattick, John S., Melo, Francisco and Larrain, Juan (2011) Expression of transposable elements in neural tissues during Xenopus development. PLoS One, 6 7: e22569.1-e22569.11. doi:10.1371/journal.pone.0022569 49   8 Cited 10 times in Scopus10 0
Whitchurch, C. B., Tolker-Nielsen, T., Ragas, P. C. and Mattick, J. S. (2002) Extracellular DNA required for bacterial biofilm formation. Science, 295 5559: 1487-1487. doi:10.1126/science.295.5559.1487 156   690 Cited 720 times in Scopus720 2
Nolan, Laura M., Beatson, Scott A., Croft, Larry, Jones, Peter M., George, Anthony M., Mattick, John S., Turnbull, Lynne and Whitchurch, Cynthia B. (2012) Extragenic suppressor mutations that restore twitching motility to fimL mutants of Pseudomonas aeruginosa are associated with elevated intracellular cyclic AMP levels. MicrobiologyOpen, 1 4: 490-501. doi:10.1002/mbo3.49 44   Cited 2 times in Scopus2 0
Gagen, M. J. and Mattick, J. S. (2004) Failed "nonaccelerating" models of prokaryote gene regulatory networks. Quantitative Biology, 1-13. 46  
Pantaleon, M., Kanai-Azum, M., Mattick, J. S., Kaibuchi, K., Kaye, P. L. and Wood, S. (2000). FAM, a ubiquitin specific protease, is essential for early mouse development. In: BSAS Internation Symposium. Early Regulation of Mammalian Development, Ardoe House, Aberdeen, Scotland, (21-21). 18 - 20 September, 2000. 53  
Pantaleon, M., Kanai-Azuma, M., Mattick, J. S., Kaibuchi, K., Kaye, P. L. and Wood, S. A. (2001) FAM deubiquitylating enzyme is essential for preimplantation mouse embryo development. Mechanisms of Development, 109 2: 151-160. doi:10.1016/S0925-4773(01)00551-2 59   40 Cited 41 times in Scopus41 0
Huang, Bixing, Whitchurch, Cynthia B. and Mattick, John S. (2003) FimX, a multidomain protein connecting environmental signals to twitching motility in Pseudomonas aeruginosa. Journal of Bacteriology, 185 24: 7068-7076. doi:10.1128/JB.185.24.7068-7076.2003 119   89 Cited 93 times in Scopus93 0
Clark, Michael B., Johnston, Rebecca L., Inostroza-Ponta, Mario, Fox, Archa H., Fortini, Ellen, Moscato, Pablo, Dinger, Marcel E. and Mattick, John S. (2012) Genome-wide analysis of long noncoding RNA stability. Genome Research, 22 5: 885-898. doi:10.1101/gr.131037.111 76   79 Cited 88 times in Scopus88 14
Pang, K. C., Dinger, M. E., Mercer, T. R., Malquori, L, Grimmond, S. M., Chen, W. S. and Mattick, J. S. (2009) Genome-wide identification of long noncoding RNAs in CD8(+) T cells. Journal of Immunology, 182 12: 7738-7748. doi:10.4049/jimmunol.0900603 64   68 Cited 75 times in Scopus75 0
Mattick, John (2000) Genomics down under. EMBO reports, 1 3: 204-207. doi:10.1093/embo-reports/kvd060 35   0 0
Bracken, Cameron P., Szubert, Jan M., Mercer, Tim R., Dinger, Marcel E., Thomson, Daniel W., Mattick, John S., Michael, Michael Z. and Goodall, Gregory J. (2011) Global analysis of the mammalian RNA degradome reveals widespread miRNA-dependent and miRNA-independent endonucleolytic cleavage. Nucleic Acids Research, 39 13: 5658-5668. doi:10.1093/nar/gkr110 75 40 31 Cited 32 times in Scopus32 3
Stanley, Stefan M., Bailey, Timothy L. and Mattick, John S. (2006) GONOME: measuring correlations between GO terms and genomic positions. BMC Bioinformatics, 7 94: 1-11. doi:10.1186/1471-2105-7-94 64   12 Cited 13 times in Scopus13 10
Mattick, J. S (2009) Has evolution learnt how to learn?. EMBO Reports, 10 7: 665-665. doi:10.1038/embor.2009.135 49   8 Cited 11 times in Scopus11 0
Tajul Arifin, K., Teasdale, R. D., Ravasi, T., Hume, D. A., RIKEN GER Group,, GSL Members, and Mattick, J. S. (2003) Identification and analysis of chromodomain-containing proteins encoded in the mouse transcriptome. Genome Reaserch, 13 6B: 1416-1429. doi:10.1101/gr.1015703 97   25 Cited 26 times in Scopus26 0

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