By Professor Marcel Dinger

Journal articles

Gascoigne DK; Cheetham SW; Cattenoz PB; Clark M; Amaral PP; Taft R; Wilhelm D; Dinger ME; Mattick JS, 2012, 'Pinstripe: a suite of programs for integrating transcriptomic and proteomic datasets identifies novel proteins and improves differentiation of protein-coding and non-coding genes', Bioinformatics, 28, pp. 3042 - 3050, http://dx.doi.org/10.1093/bioinformatics/bts582

Dinger ME, 2011, 'LncRNAs: Finding the forest among the trees?', Molecular Therapy, 19, pp. 2109 - 2111, http://dx.doi.org/10.1038/mt.2011.251

Bateman A; Agrawal S; Birney E; Bruford EA; Bujnicki JM; Cochrane G; Cole JR; Dinger ME; Enright AJ; Gardner PP; Gautheret D; Griffiths-Jones S; Harrow J; Herrero J; Holmes IH; Huang HDA; Kelly KA; Kersey P; Kozomara ANA; Lowe TM; Marz M; Moxon S; Pruitt KD; Samuelsson T; Stadler PF; Vilella AJ; Vogel JH; Williams KP; Wright MW; Zwieb C, 2011, 'RNAcentral: A vision for an international database of RNA sequences', RNA, 17, pp. 1941 - 1946, http://dx.doi.org/10.1261/rna.2750811

Mercer TR; Neph S; Dinger ME; Crawford J; Smith MA; Shearwood AMJ; Haugen E; Bracken CP; Rackham O; Stamatoyannopoulos JA; Filipovska A; Mattick JS, 2011, 'The human mitochondrial transcriptome', Cell, 146, pp. 645 - 658, http://dx.doi.org/10.1016/j.cell.2011.06.051

Bracken CP; Szubert JM; Mercer TR; Dinger ME; Thomson DW; Mattick JS; Michael MZ; Goodall GJ, 2011, 'Global analysis of the mammalian RNA degradome reveals widespread miRNA-dependent and miRNA-independent endonucleolytic cleavage', Nucleic Acids Research, 39, pp. 5658 - 5668, http://dx.doi.org/10.1093/nar/gkr110

Khaitan D; Dinger ME; Mazar J; Crawford J; Smith MA; Mattick JS; Perera RJ, 2011, 'The melanoma-upregulated long noncoding RNA SPRY4-IT1 modulates apoptosis and invasion', Cancer Research, 71, pp. 3852 - 3862, http://dx.doi.org/10.1158/0008-5472.CAN-10-4460

Askarian-Amiri ME; Crawford J; French JD; Smart CE; Smith MA; Clark MB; Ru K; Mercer TR; Thompson ER; Lakhani SR; Vargas AC; Campbell IG; Brown MA; Dinger ME; Mattick JS, 2011, 'SNORD-host RNA Zfas1 is a regulator of mammary development and a potential marker for breast cancer', RNA, 17, pp. 878 - 891, http://dx.doi.org/10.1261/rna.2528811

Mercer TR; Wilhelm D; Dinger ME; Soldà G; Korbie DJ; Glazov EA; Truong V; Schwenke M; Simons C; Matthaei KI; Saint R; Koopman P; Mattick JS, 2011, 'Expression of distinct RNAs from 3′ untranslated regions', Nucleic Acids Research, 39, pp. 2393 - 2403, http://dx.doi.org/10.1093/nar/gkq1158

Amaral PP; Clark MB; Gascoigne DK; Dinger ME; Mattick JS, 2011, 'LncRNAdb: A reference database for long noncoding RNAs', Nucleic Acids Research, 39, http://dx.doi.org/10.1093/nar/gkq1138

Dinger ME; Gascoigne DK; Mattick JS, 2011, 'The evolution of RNAs with multiple functions', Biochimie, 93, pp. 2013 - 2018, http://dx.doi.org/10.1016/j.biochi.2011.07.018

Clark MB; Amaral PP; Schlesinger FJ; Dinger ME; Taft R; Rinn JL; Ponting CP; Stadler PF; Morris K; Morillon A; Rozowsky JS; Gerstein MB; Wahlestedt C; Hayashizaki Y; Carninci P; Gingeras TR; Mattick JS, 2011, 'The reality of pervasive transcription', PLoS Biology, 9, pp. e1000625, http://dx.doi.org/10.1371/journal.pbio.1000625

Mercer TR; Dinger ME; Bracken CP; Kolle G; Szubert JM; Korbie DJ; Askarian-Amiri ME; Gardiner BB; Goodall GJ; Grimmond SM; Mattick JS, 2010, 'Regulated post-transcriptional RNA cleavage diversifies the eukaryotic transcriptome', Genome Research, 20, pp. 1639 - 1650, http://dx.doi.org/10.1101/gr.112128.110

Mazar J; Sinha S; Dinger ME; Mattick JS; Perera RJ, 2010, 'Protein-coding and non-coding gene expression analysis in differentiating human keratinocytes using a three-dimensional epidermal equivalent', Molecular Genetics and Genomics, 284, pp. 1 - 9, http://dx.doi.org/10.1007/s00438-010-0543-6

Lai J; Lehman ML; Dinger ME; Hendy SC; Mercer TR; Seim I; Lawrence MG; Mattick JS; Clements JA; Nelson CC, 2010, 'A variant of the KLK4 gene is expressed as a cis sense-antisense chimeric transcript in prostate cancer cells', RNA, 16, pp. 1156 - 1166, http://dx.doi.org/10.1261/rna.2019810

Risueño A; Fontanillo C; Dinger ME; De Las Rivas J, 2010, 'GATExplorer: Genomic and Transcriptomic Explorer; mapping expression probes to gene loci, transcripts, exons and ncRNAs', BMC Bioinformatics, 11, pp. 221, http://dx.doi.org/10.1186/1471-2105-11-221

Mercer TR; Qureshi IA; Gokhan S; Dinger ME; Li G; Mattick JS; Mehler MF, 2010, 'Long noncoding RNAs in neuronal-glial fate specification and oligodendrocyte lineage maturation', BMC Neuroscience, 11, http://dx.doi.org/10.1186/1471-2202-11-14

Taft RJ; Pang KC; Mercer TR; Dinger M; Mattick JS, 2010, 'Non-coding RNAs: Regulators of disease', Journal of Pathology, 220, pp. 126 - 139, http://dx.doi.org/10.1002/path.2638

Dinger ME; Arefin AS; Berretta R; Moscato P, 2010, 'P4‐086: The Hippocampal Expression of 31 Noncoding Rnas is Upregulated in Alzheimer'S Disease Patients and Three Positively Correlate With MMSE Results and Other Biomarkers of Disease Progression', Alzheimer's & Dementia, 6, http://dx.doi.org/10.1016/j.jalz.2010.08.146

Dinger ME; Amaral PP; Mercer TR; Mattick JS, 2009, 'Pervasive transcription of the eukaryotic genome: Functional indices and conceptual implications', Briefings in Functional Genomics and Proteomics, 8, pp. 407 - 423, http://dx.doi.org/10.1093/bfgp/elp038

Pang KC; Dinger ME; Mercer TR; Malquori L; Grimmond SM; Chen W; Mattick JS, 2009, 'Genome-wide identification of long noncoding RNAs in CD8⁺ T cells', Journal of Immunology, 182, pp. 7738 - 7748, http://dx.doi.org/10.4049/jimmunol.0900603

Mercer TR; Dinger ME; Mattick JS, 2009, 'Long non-coding RNAs: Insights into functions', Nature Reviews Genetics, 10, pp. 155 - 159, http://dx.doi.org/10.1038/nrg2521

Sunwoo H; Dinger ME; Wilusz JE; Amaral PP; Mattick JS; Spector DL, 2009, 'Men ε/β nuclear-retained non-coding RNAs are up-regulated upon muscle differentiation and are essential components of paraspeckles', Genome Research, 19, pp. 347 - 359, http://dx.doi.org/10.1101/gr.087775.108

Mattick JS; Amaral PP; Dinger ME; Mercer TR; Mehler MF, 2009, 'RNA regulation of epigenetic processes', BioEssays, 31, pp. 51 - 59, http://dx.doi.org/10.1002/bies.080099

Dinger ME; Pang KC; Mercer TR; Crowe ML; Grimmond SM; Mattick JS, 2009, 'NRED: A database of long noncoding RNA expression', Nucleic Acids Research, 37, http://dx.doi.org/10.1093/nar/gkn617

Mercer TR; Dinger ME; Mariani J; Kosik KS; Mehler MF; Mattick JS, 2008, 'Noncoding RNAs in long-term memory formation', Neuroscientist, 14, pp. 434 - 445, http://dx.doi.org/10.1177/1073858408319187

Dinger ME; Amara PP; Mercer TR; Pang KC; Bruce SJ; Gardiner BB; Askarian-Amiri ME; Ru K; Soldà G; Simons C; Sunkin SM; Crowe ML; Grimmond SM; Perkins AC; Mattick JS, 2008, 'Long noncoding RNAs in mouse embryonic stem cell pluripotency and differentiation', Genome Research, 18, pp. 1433 - 1445, http://dx.doi.org/10.1101/gr.078378.108

Mattick JS; Croft LJ; Pheasant M; Mercer TR; Dinger ME, 2008, 'The mammalian genome as an RNA machine', FASEB JOURNAL, 22, https://www.webofscience.com/api/gateway?GWVersion=2&SrcApp=PARTNER_APP&SrcAuth=LinksAMR&KeyUT=WOS:000208467805697&DestLinkType=FullRecord&DestApp=ALL_WOS&UsrCustomerID=891bb5ab6ba270e68a29b250adbe88d1

Amaral PP; Dinger ME; Mercer TR; Mattick JS, 2008, 'The eukaryotic genome as an RNA machine', Science, 319, pp. 1787 - 1789, http://dx.doi.org/10.1126/science.1155472

Dinger ME; Mercer TR; Mattick JS, 2008, 'RNAs as extracellular signaling molecules', Journal of Molecular Endocrinology, 40, pp. 151 - 159, http://dx.doi.org/10.1677/JME-07-0160

Mercer TR; Dinger ME; Sunkin SM; Mehler MF; Mattick JS, 2008, 'Specific expression of long noncoding RNAs in the mouse brain', Proceedings of the National Academy of Sciences of the United States of America, 105, pp. 716 - 721, http://dx.doi.org/10.1073/pnas.0706729105

Dinger ME; Pang KC; Mercer TR; Mattick JS, 2008, 'Differentiating protein-coding and noncoding RNA: Challenges and ambiguities', PLoS Computational Biology, 4, http://dx.doi.org/10.1371/journal.pcbi.1000176

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

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

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

Musgrave D; Zhang X; Dinger M, 2002, 'Archaeal genome organization and stress responses: Implications for the origin and evolution of cellular life', Astrobiology, 2, pp. 241 - 253, http://dx.doi.org/10.1089/153110702762027835

Dinger ME; Musgrave DR, 2000, 'Identification of archaeal genes encoding a novel stationary phase- response protein', Biochimica et Biophysica Acta - Gene Structure and Expression, 1490, pp. 115 - 120, http://dx.doi.org/10.1016/S0167-4781(99)00216-X

Dinger ME; Baillie GJ; Musgrave DR, 2000, 'Growth phase-dependent expression and degradation of histones in the thermophilic archaeon Thermococcus zilligii', Molecular Microbiology, 36, pp. 876 - 885, http://dx.doi.org/10.1046/j.1365-2958.2000.01904.x

Remaley AT; Rust S; Rosier M; Knapper C; Naudin L; Broccardo C; Peterson KM; Koch C; Arnould I; Prades C; Duverger N; Funke H; Assman G; Dinger M; Dean M; Chimini G; Santamarina-Fojo S; Fredrickson DS; Denefle P; Brewer HB, 1999, 'Human ATP-binding cassette transporter 1 (ABC1): Genomic organization and identification of the genetic defect in the original Tangier disease kindred', PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA, 96, pp. 12685 - 12690, http://dx.doi.org/10.1073/pnas.96.22.12685

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