By Professor John Stanley Mattick

Journal articles

Pheasant M; Mattick JS, 2007, 'Raising the estimate of functional human sequences', Genome Research, 17, pp. 1245 - 1253, http://dx.doi.org/10.1101/gr.6406307

Mattick JS, 2007, 'The human genome as an RNA machine', Scientist, 21, pp. 61 - 63

Mehler MF; Mattick JS, 2007, 'Noncoding RNAs and RNA editing in brain development, functional diversification, and neurological disease', Physiological Reviews, 87, pp. 799 - 823, http://dx.doi.org/10.1152/physrev.00036.2006

Birney E; Stamatoyannopoulos JA; Dutta A; Guigó R; Gingeras TR; Margulies EH; Weng Z; Snyder M; Dermitzakis ET; Thurman RE; Kuehn MS; Taylor CM; Neph S; Koch CM; Asthana S; Malhotra A; Adzhubei I; Greenbaum JA; Andrews RM; Flicek P; Boyle PJ; Cao H; Carter NP; Clelland GK; Davis S; Day N; Dhami P; Dillon SC; Dorschner MO; Fiegler H; Giresi PG; Goldy J; Hawrylycz M; Haydock A; Humbert R; James KD; Johnson BE; Johnson EM; Frum TT; Rosenzweig ER; Karnani N; Lee K; Lefebvre GC; Navas PA; Neri F; Parker SCJ; Sabo PJ; Sandstrom R; Shafer A; Vetrie D; Weaver M; Wilcox S; Yu M; Collins FS; Dekker J; Lieb JD; Tullius TD; Crawford GE; Sunyaev S; Noble WS; Dunham I; Denoeud F; Reymond A; Kapranov P; Rozowsky J; Zheng D; Castelo R; Frankish A; Harrow J; Ghosh S; Sandelin A; Hofacker IL; Baertsch R; Keefe D; Dike S; Cheng J; Hirsch HA; Sekinger EA; Lagarde J; Abril JF; Shahab A; Flamm C; Fried C; Hackermüller J; Hertel J; Lindemeyer M; Missal K; Tanzer A; Washietl S; Korbel J; Emanuelsson O; Pedersen JS; Holroyd N; Taylor R; Swarbreck D; Matthews N; Dickson MC; Thomas DJ; Weirauch MT; Gilbert J, 2007, 'Identification and analysis of functional elements in 1% of the human genome by the ENCODE pilot project', Nature, 447, pp. 799 - 816, http://dx.doi.org/10.1038/nature05874

Mattick JS, 2007, 'A new paradigm for developmental biology', Journal of Experimental Biology, 210, pp. 1526 - 1547, http://dx.doi.org/10.1242/jeb.005017

Taft RJ; Pheasant M; Mattick JS, 2007, 'The relationship between non-protein-coding DNA and eukaryotic complexity', BioEssays, 29, pp. 288 - 299, http://dx.doi.org/10.1002/bies.20544

Pang KC; Stephen S; Dinger ME; Engström PG; Lenhard B; Mattick JS, 2007, 'RNAdb 2.0 - An expanded database of mammalian non-coding RNAs', Nucleic Acids Research, 35, http://dx.doi.org/10.1093/nar/gkl926

Leech AJ; Mattick JS, 2006, 'Effect of site-specific mutations in different phosphotransfer domains of the chemosensory protein ChpA on Pseudomonas aeruginosa motility', Journal of Bacteriology, 188, pp. 8479 - 8486, http://dx.doi.org/10.1128/JB.00157-06

Hallinan JS; Bradley DR; Mattick JS; Wiles J, 2006, 'Effects of an RNA control layer on the state space of Boolean models of genetic regulatory networks', 2006 IEEE Congress on Evolutionary Computation, CEC 2006, pp. 2551 - 2555

Perkins A; Bruce S; Dinger M; Gardiner B; Steptoe A; Burke L; Mattick J; Grimmond S, 2006, 'Transcription factors, non-coding RNAs and ES cell differentiation in vitro and in vivo', TRANSGENIC RESEARCH, 15, pp. 778 - 778, https://www.webofscience.com/api/gateway?GWVersion=2&SrcApp=PARTNER_APP&SrcAuth=LinksAMR&KeyUT=WOS:000242336100017&DestLinkType=FullRecord&DestApp=ALL_WOS&UsrCustomerID=891bb5ab6ba270e68a29b250adbe88d1

Mehler MF; Mattick JS, 2006, 'Non-coding RNAs in the nervous system', Journal of Physiology, 575, pp. 333 - 341, http://dx.doi.org/10.1113/jphysiol.2006.113191

Kenzelmann M; Rippe K; Mattick JS, 2006, 'RNA: Networks & Imaging', Molecular Systems Biology, 2, http://dx.doi.org/10.1038/msb4100086

Furuno M; Pang KC; Ninomiya N; Fukuda S; Frith MC; Bult C; Kai C; Kawai J; Carninci P; Hayashizaki Y; Mattick JS; Suzuki H, 2006, 'Clusters of internally primed transcripts reveal novel long noncoding RNAs', PLoS Genetics, 2, pp. 537 - 553, http://dx.doi.org/10.1371/journal.pgen.0020037

Furuno M; Pang KC; Ninomiya N; Fukuda S; Frith MC; Bult C; Kai C; Kawai J; Carninci P; Hayashizaki Y; Mattick JS; Suzuki H, 2006, 'Clusters of internally primed transcripts reveal novel long noncoding RNAs.', PLoS genetics, 2, http://dx.doi.org/10.1371/journal.pgen.0020037

Mattick JS, 2006, 'The hidden layer of noncoding rna in the genetic programming of complex organisms', GENES & GENETIC SYSTEMS, 81, pp. 149 - 150, https://www.webofscience.com/api/gateway?GWVersion=2&SrcApp=PARTNER_APP&SrcAuth=LinksAMR&KeyUT=WOS:000239467100011&DestLinkType=FullRecord&DestApp=ALL_WOS&UsrCustomerID=891bb5ab6ba270e68a29b250adbe88d1

Stanley SM; Bailey TL; Mattick JS, 2006, 'GONOME: Measuring correlations between GO terms and genomic positions', BMC Bioinformatics, 7, http://dx.doi.org/10.1186/1471-2105-7-94

Simons C; Pheasant M; Makunin IV; Mattick JS, 2006, 'Transposon-free regions in mammalian genomes', Genome Research, 16, pp. 164 - 172, http://dx.doi.org/10.1101/gr.4624306

Simons C; Pheasant M; Makunin IV; Mattick JS, 2006, 'Transposon-free regions in mammalian genomes', GENOME RESEARCH, 16, pp. 164 - 172, http://dx.doi.org/10.1101/gr4624306

Mattick JS, 2006, 'Noncoding RNAs: A Regulatory Role?', , http://dx.doi.org/10.1038/npg.els.0005985

Frith MC; Bailey TL; Kasukawa T; Mignone F; Kummerfeld SK; Madera M; Sunkara S; Furuno M; Bult CJ; Quackenbush J; Kai C; Kawai J; Carninci P; Hayashizaki Y; Pesole G; Mattick JS, 2006, 'Discrimination of non-protein-coding transcripts from protein-coding mRNA', RNA Biology, 3, pp. 40 - 48, http://dx.doi.org/10.4161/rna.3.1.2789

Glazov EA; Pheasant M; Nahkuri S; Mattick JS, 2006, 'Evidence for control of splicing by alternative RNA secondary structures in dipteran homothorax pre-mRNA', RNA Biology, 3, pp. 36 - 39, http://dx.doi.org/10.4161/rna.3.1.2719

Ravasi T; Suzuki H; Pang KC; Katayama S; Furuno M; Okunishi R; Fukuda S; Ru K; Frith MC; Gongora MM; Grimmond SM; Hume DA; Hayashizaki Y; Mattick JS, 2006, 'Experimental validation of the regulated expression of large numbers of non-coding RNAs from the mouse genome', Genome Research, 16, pp. 11 - 19, http://dx.doi.org/10.1101/gr.4200206

Mattick JS; Makunin IV, 2006, 'Non-coding RNA.', Human molecular genetics, 15 Spec No 1, http://dx.doi.org/10.1093/hmg/ddl046

Pang KC; Frith MC; Mattick JS, 2006, 'Rapid evolution of noncoding RNAs: Lack of conservation does not mean lack of function', Trends in Genetics, 22, pp. 1 - 5, http://dx.doi.org/10.1016/j.tig.2005.10.003

Mattick JS, 2006, 'The underworld of RNA', Nature Genetics, 38, pp. 393 - 393, http://dx.doi.org/10.1038/ng0406-1

Katayama S; Tomaru Y; Kasukawa T; Waki K; Nakanishi M; Nakamura M; Nishida H; Yap CC; Suzuki M; Kawai J; Suzuki H; Carninci P; Hayashizaki Y; Wells C; Frith M; Ravasi T; Pang KC; Hallinan J; Mattick J; Hume DA; Lipovich L; Batalov S; Engström PG; Mizuno Y; Faghihi MA; Sandelin A; Chalk AM; Mottagui-Tabar S; Liang Z; Lenhard B; Wahlestedt C, 2005, 'Molecular biology: Antisense transcription in the mammalian transcriptome', Science, 309, pp. 1564 - 1566, http://dx.doi.org/10.1126/science.1112009

Carninci P; Kasukawa T; Katayama S; Gough J; Frith MC; Maeda N; Oyama R; Ravasi T; Lenhard B; Wells C; Kodzius R; Shimokawa K; Bajic VB; Brenner SE; Batalov S; Forrest ARR; Zavolan M; Davis MJ; Wilming LG; Aidinis V; Allen JE; Ambesi-Impiombato A; Apweiler R; Aturaliya RN; Bailey TL; Bansal M; Baxter L; Beisel KW; Bersano T; Bono H; Chalk AM; Chiu KP; Choudhary V; Christoffels A; Clutterbuck DR; Crowe ML; Dalla E; Dalrymple BP; Bono B; Gatta GD; Bernardo DD; Down T; Engstrom P; Fagiolini M; Faulkner G; Fletcher CF; Fukushima T; Furuno M; Futaki S; Gariboldi M; Georgii-Hemming P; Gingeras TR; Gojobori T; Green RE; Gustincich S; Harbers M; Hayashi Y; Hensch TK; Hirokawa N; Hill D; Huminiecki L; Iacono M; Ikeo K; Iwama A; Ishikawa T; Jakt M; Kanapin A; Katoh M; Kawasawa Y; Kelso J; Kitamura H; Kitano H; Kollias G; Krishnan SPT; Kruger A; Kummerfeld SK; Kurochkin IV; Lareau LF; Lazarevic D; Lipovich L; Liu J; Liuni S; McWilliam S; Babu MM; Madera M; Marchionni L; Matsuda H; Matsuzawa S; Miki H; Mignone F; Miyake S; Morris K; Mottagui-Tabar S; Mulder N; Nakano N; Nakauchi H; Ng P; Nilsson R; Nishiguchi S; Nishikawa S, 2005, 'Molecular biology: The transcriptional landscape of the mammalian genome', Science, 309, pp. 1559 - 1563, http://dx.doi.org/10.1126/science.1112014

Mattick JS, 2005, 'The functional genomics of noncoding RNA', Science, 309, pp. 1527 - 1528, http://dx.doi.org/10.1126/science.1117806

Frith MC; Pheasant M; Mattick JS, 2005, 'The amazing complexity of the human transcriptome', European Journal of Human Genetics, 13, pp. 894 - 897, http://dx.doi.org/10.1038/sj.ejhg.5201459

Gagen MJ; Mattick JS, 2005, 'Accelerating, hyperaccelerating, and decelerating networks', Physical Review E - Statistical, Nonlinear, and Soft Matter Physics, 72, http://dx.doi.org/10.1103/PhysRevE.72.016123

Glazov EA; Pheasant M; McGraw EA; Bejerano G; Mattick JS, 2005, 'Ultraconserved elements in insect genomes: A highly conserved intronic sequence implicated in the control of homothorax mRNA splicing', Genome Research, 15, pp. 800 - 808, http://dx.doi.org/10.1101/gr.3545105

Gagen MJ; Mattick JS, 2005, 'Inherent size constraints on prokaryote gene networks due to "accelerating" growth', Theory in Biosciences, 123, pp. 381 - 411, http://dx.doi.org/10.1016/j.thbio.2005.02.002

Mattick JS; Makunin IV, 2005, 'Small regulatory RNAs in mammals', Human Molecular Genetics, 14, http://dx.doi.org/10.1093/hmg/ddi101

Whitchurch CB; Beatson SA; Comolli JC; Jakobsen T; Sargent JL; Bertrand JJ; West J; Klausen M; Waite LL; Kang PJ; Tolker-Nielsen T; Mattick JS; Engel JN, 2005, 'Pseudomonas aeruginosa fimL regulates multiple virulence functions by intersecting with Vfr-modulated pathways', Molecular Microbiology, 55, pp. 1357 - 1378, http://dx.doi.org/10.1111/j.1365-2958.2005.04479.x

Mattick JS, 2005, 'What makes a human?', Scientist, 19, pp. 32 - 33

Mattick JS; Gagen MJ, 2005, 'Accelerating networks', Science, 307, pp. 856 - 858, http://dx.doi.org/10.1126/science.1103737

Pang KC; Stephen S; Engström PG; Tajul-Arifin K; Chen W; Wahlestedt C; Lenhard B; Hayashizaki Y; Mattick JS, 2005, 'RNAdb - A comprehensive mammalian noncoding RNA database', Nucleic Acids Research, 33, http://dx.doi.org/10.1093/nar/gki089

Pang KC; Stephen S; Engstrom PG; Tajul-Arifin K; Chen WS; Wahlestedt C; Lenhard B; Hayashizaki Y; Mattick JS, 2005, 'RNAdb - a comprehensive mammalian noncoding RNA database', NUCLEIC ACIDS RESEARCH, 33, pp. D125 - D130, http://dx.doi.org/10.1093/nar/gri089

Gagen MJ; Mattick JS, 2005, 'Accelerating, hyperaccelerating, and decelerating networks.', Phys Rev E Stat Nonlin Soft Matter Phys, 72, pp. 016123, http://dx.doi.org/10.1103/PhysRevE.72.016123

Mattick JS, 2004, 'Digital RNA regulation of complex organisms', Gene Therapy and Regulation, 2, pp. 313 - 319, http://dx.doi.org/10.1163/1568558043967517

Huang B; Ru K; Yuan Z; Whitchurch CB; Mattick JS, 2004, 'tonB3 is required for normal twitching motility and extracellular assembly of type IV pili', Journal of Bacteriology, 186, pp. 4387 - 4389, http://dx.doi.org/10.1128/JB.186.13.4387-4389.2004

Bejerano G; Pheasant M; Makunin I; Stephen S; Kent WJ; Mattick JS; Haussler D, 2004, 'Ultraconserved elements in the human genome', Science, 304, pp. 1321 - 1325, http://dx.doi.org/10.1126/science.1098119

Whitchurch CB; Leech AJ; Young MD; Kennedy D; Sargent JL; Bertrand JJ; Semmler ABT; Mellick AS; Martin PR; Alm RA; Hobbs M; Beatson SA; Huang B; Nguyen L; Commolli JC; Engel JN; Darzins A; Mattick JS, 2004, 'Characterization of a complex chemosensory signal transduction system which controls twitching motility in Pseudomonas aeruginosa', Molecular Microbiology, 52, pp. 873 - 893, http://dx.doi.org/10.1111/j.1365-2958.2004.04026.x

Yuan Z; Mattick JS; Teasdale RD, 2004, 'SVMtm: Support Vector Machines to Predict Transmembrane Segments', Journal of Computational Chemistry, 25, pp. 632 - 636, http://dx.doi.org/10.1002/jcc.10411

Mattick JS, 2004, 'RNA regulation: A new genetics?', Nature Reviews Genetics, 5, pp. 316 - 323, http://dx.doi.org/10.1038/nrg1321

Mattick JS, 2004, 'The hidden genetic program of complex organisms', Scientific American, 291, pp. 60 - 67, http://dx.doi.org/10.1038/scientificamerican1004-60

Mattick JS, 2004, 'Response to A. M. Poole: Is all that junk really regulatory RNA?', Nature Reviews Genetics, 5, pp. 324 - 324, http://dx.doi.org/10.1038/nrg1321-c2

Huang B; Whitchurch CB; Mattick JS, 2003, 'FimX, a Multidomain Protein Connecting Environmental Signals to Twitching Motility in Pseudomonas aeruginosa', Journal of Bacteriology, 185, pp. 7068 - 7076, http://dx.doi.org/10.1128/JB.185.24.7068-7076.2003

Mattick JS, 2003, 'Challenging the dogma: The hidden layer of non-protein-coding RNAs in complex organisms', BioEssays, 25, pp. 930 - 939, http://dx.doi.org/10.1002/bies.10332

Mattick JS, 2003, 'The human genome and the future of medicine', Medical Journal of Australia, 179, pp. 212 - 216, http://dx.doi.org/10.5694/j.1326-5377.2003.tb05505.x

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