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Musgrave, D, Zhang, XY and Dinger, M (2002). Archaeal genome organization and stress responses: Implications for the origin and evolution of cellular life. In: Astrobiology. Conference on Astrobiology, Sydney Australia, (241-253). Jul, 2001. doi:10.1089/153110702762027835 29   4 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 62   10 Cited 8 times in Scopus8 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 50   131 Cited 133 times in Scopus133 3
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 53 Cited 66 times in Scopus66 1
Risueno, Alberto, Fontanillo, Celia, Dinger, Marcel E. and De Las Rivas, Javier (2010) GATExplorer: Genomic and Transcriptomic Explorer; mapping expression probes to gene loci, transcripts, exons and ncRNAs. BMC Bioinformatics, 11 221.1-221.12. doi:10.1186/1471-2105-11-221 99 15 22 Cited 25 times in Scopus25 1
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 75   77 Cited 87 times in Scopus87 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 63   66 Cited 74 times in Scopus74 0
Li, Jian-Liang, Mazar, Joseph, Zhong, Cuncong, Faulkner, Geoffrey J., Govindarajan, Subramaniam S., Zhang, Zhan, Dinger, Marcel E., Meredith, Gavin, Adams, Christopher, Zhang, Shaojie, Mattick, John S., Ray, Animesh and Perera, Ranjan J. (2013) Genome-wide methylated CpG island profiles of melanoma cells reveal a melanoma coregulation network. Scientific Reports, 3 02962.1-02962.12. doi:10.1038/srep02962 21   2 Cited 2 times in Scopus2 4
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 30 Cited 31 times in Scopus31 3
Dinger, ME, Baillie, GJ and Musgrave, DR (2000) Growth phase-dependent expression and degradation of histones in the thermophilic archaeon Thermococcus zilligii. Molecular Microbiology, 36 4: 876-885. doi:10.1046/j.1365-2958.2000.01904.x 20   20 Cited 18 times in Scopus18 0
Ulveling, Damien, Dinger, Marcel E., Francastel, Claire and Hube, Florent (2014) Identification of a dinucleotide signature that discriminates coding from non-coding long RNAs. Frontiers in Genetics, 5 SEP: 1-5. doi:10.3389/fgene.2014.00316 17   Cited 0 times in Scopus0 3
Dinger, ME and Musgrave, DR (2000) Identification of archaeal genes encoding a novel stationary phase-response protein. Biochimica Et Biophysica Acta-Gene Structure and Expression, 1490 1-2: 115-120. doi:10.1016/S0167-4781(99)00216-X 14   3 Cited 2 times in Scopus2 0
Chen, Huijun, Palmer, James S., Thaigarajan, Rathi D., Dinger, Marcel E., Frampton, Emmanuelle, Chiu, Hansheng, Schulz, Alexandra, Spiller, Cassy, Grimmond, Sean M., Little, Melissa H., Koopman, Peter A. and Wilhelm, Ingrid D. (2012) Identification of novel markers of mouse fetal ovary development. PLoS One, 7 7: e41683.1-e41683.15. doi:10.1371/journal.pone.0041683 56   10 Cited 13 times in Scopus13 1
Dinger, Marcel E. (2011) IncRNAs: finding the forest among the trees?. Molecular Therapy, 19 12: 2109-2111. doi:10.1038/mt.2011.251 55 69 2 Cited 2 times in Scopus2 0
Amaral, Paulo P., Clark, Michael B., Gascoigne, Dennis K., Dinger, Marcel E. and Mattick, John S. (2011) LncRNAdb: a reference database for long noncoding RNAs. Nucleic Acids Research, 39 Supplement 1: D146-D151. doi:10.1093/nar/gkq1138 103 73 118 Cited 168 times in Scopus168 4
Cheetham, S. W., Gruhl, F., Mattick, J. S. and Dinger, M. E. (2013) Long noncoding RNAs and the genetics of cancer. British Journal of Cancer, 108 12: 2419-2425. doi:10.1038/bjc.2013.233 16   45 Cited 47 times in Scopus47 5
Dinger, Marcel E., Amaral, Paulo P., Mercer, Tim R, Pang, Ken C., Bruce, Stephen J., Gardiner, Brooke B., Askarian-Amiri, Marjan E., Ru, Kelin, Solda, Giulia, Simons, Cas, Sunkin, Susan M., Crowe, Mark L., Grimmond, Sean M, Perkins, Andrew C. and Mattick, John S. (2008) Long Noncoding RNAs in mouse embryonic stem cell pluripotency and differentiation. Genome Research, 18 9: 1433-1445. doi:10.1101/gr.078378.108 87   274 Cited 281 times in Scopus281 4
Mercer, Tim R., Qureshi, Irfan A., Gokhan, Solen, Dinger, Marcel E., Li, Guangyu, Mattick, John S. and Mehler, Mark F. (2010) Long noncoding RNAs in neuronal-glial fate specification and oligodendrocyte lineage maturation. BMC Neuroscience, 11 1-15. doi:10.1186/1471-2202-11-14 77 21 101 Cited 118 times in Scopus118 3
Dinger, ME, Mercer, TR, Amaral, PP, Pang, KC, Sunkin, SM, Perkins, AC and Mattick, JS (2009). LONG NONCODING RNAs: INSIGHTS INTO FUNCTION. In: Cellular Oncology. 3rd Marie Curie-Genome Architecture in Relation to Disease Meeting (MC-GARD), Edinburgh Scotland, (97-98). Apr 01-05, 2009. 35   0
Mercer, T. R., Dinger, M. E. and Mattick, J. S. (2009) Long non-coding RNAs: insights into functions. Nature Reviews Genetics, 10 3: 155-159. doi:10.1038/nrg2521 221   808 Cited 853 times in Scopus853 12
Sunwoo, H., Dinger, M. E., Wilusz, J. E., Amaral, P. P., Mattick, J. S. and Spector, D. L. (2009) MEN / nuclear retained non-coding RNAs are up-regulated upon muscle differentiation and are essential components of paraspeckles. Genome Research, 19 3: 347-359. doi:10.1101/gr.087775.108 146   180 Cited 182 times in Scopus182 10
Cossetti, Chiara, Mercer, Tim R., Alpi, Emanuele, Leonardi, Tommaso, Drago, Denise, Iraci, Nunzio, Alfaro-Cervello, Clara, Dinger, Marcel E., Dietmann, Sabine, Crawford, Joanna, Caddeo, Carla, Garcia Verdugo, Manuel, Bachi, Angela, Mattick, John S. and Pluchino, Stefano (2012). Neural stem cells sort protein and RNA cargoes for export with exosomes in response to inflammation. In: Proceedings of the 11th International Congress of Neuroimmunology (ISNI). 11th International Congress of Neuroimmunology (ISNI), Boston MA., United States, (127-127). 4-8 November 2012. 86   0
Amaral, Paulo P., Dinger, Marcel E. and Mattick, John S. (2013) Non-coding RNAs in homeostasis, disease and stress responses: an evolutionary perspective. Briefings in Functional Genomics, 12 3: 254-278. doi:10.1093/bfgp/elt016 21   10 Cited 9 times in Scopus9 0
Mercer, T. R., Dinger, M. E., Mariani J., Kosik, K . S., Mehler, M. F. and Mattick, J. S. (2008) Noncoding RNAs in long term memory formation. Neuroscientist, 14 5: 434-445. doi:10.1177/1073858408319187 61   62 Cited 65 times in Scopus65 1
Taft, R. J., Pang, K. C., Mercer, T. R., Dinger, M and Mattick, J. S. (2009) Non-coding RNAs: regulators of disease. Journal of Pathology, 220 2: 126-139. doi:10.1002/path.2638 74   268 Cited 296 times in Scopus296 16
Dinger, M. E., Pang, K. C., Mercer, T. R., Crowe, M. L., Grimmond, S. M. and Mattick, J. S. (2009) NRED: a database of long noncoding RNA expression. Nucleic Acids Research, 37 SUPPL. 1: D122-D126. doi:10.1093/nar/gkn617 33   78 Cited 82 times in Scopus82 1
Dinger, M. E., Amaral, P. A., Mercer, T. R. and Mattick, J. S. (2009) Pervasive transcription of the eukaryotic genome: functional indices and conceptual implications. Briefings in Functional Genomics and Proteomics, 8 6: 407-423. doi:10.1093/bfgp/elp038 62   Cited 52 times in Scopus52 0
Gascoigne, Dennis K., Cheetham, Seth W., Cattenoz, Pierre B., Clark, Michael B., Amaral, Paulo P., Taft, Ryan J., Wilhelm, Dagmar, Dinger, Marcel E. and Mattick, John S. (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 23: 3042-3050. doi:10.1093/bioinformatics/bts582 80   10 Cited 11 times in Scopus11 3
Shore, Amy N., Kabotyanski, Elena B., Roarty, Kevin, Smith, Martin A., Zhang, Yiqun, Creighton, Chad J., Dinger, Marcel E. and Rosen, Jeffrey M. (2012) Pregnancy-induced noncoding RNA (PINC) associates with polycomb repressive complex 2 and regulates mammary epithelial differentiation. Plos Genetics, 8 7: . doi:10.1371/journal.pgen.1002840 47   12 Cited 12 times in Scopus12 1
Mazar, Joseph, Sinha, Satyabrata, Dinger, Marcel E., Mattick, John S. and Perera, Ranjan J. (2010) Protein-coding and non-coding gene expression analysis in differentiating human keratinocytes using a three-dimensional epidermal equivalent. Molecular Genetics and Genomics, 284 1: 1-9. doi:10.1007/s00438-010-0543-6 76 90 9 Cited 9 times in Scopus9 0
Dave, Richa K., Dinger, Marcel E., Andrew, Megan, Askarian-Amiri, Marjan, Hume, David A. and Kellie, Stuart (2013) Regulated expression of PTPRJ/CD148 and an antisense long noncoding RNA in macrophages by proinflammatory stimuli. PLoS One, 8 6: e68306.1-e68306.13. doi:10.1371/journal.pone.0068306 26   4 Cited 4 times in Scopus4 2
Mercer, Tim R., Dinger, Marcel E., Wilhelm, Dagmar E., Solda, Giulia S., Koopman, Peter A. and Mattick, John S. (2009). Regulated independent expression of 3' untranslated regions in mammals. In: Abstracts of the 3rd MC-GARD Meeting. 3rd Marie Curie-Genome Architecture in Relation to Disease Meeting (MC-GARD), Edinburgh Scotland, (112-112). 01-05 April 2009. 54   0
Mercer, Tim R., Dinger, Marcel E., Bracken, Cameron P., Kolle, Gabriel, Szubert, Jan M., Korbie, Darren J., Askarian-Amiri, Marjan E., Gardiner, Brooke B., Goodall, Gregory J., Grimmond, Sean M. and Mattick, John S. (2010) Regulated post-transcriptional RNA cleavage diversifies the eukaryotic transcriptome. Genome Research, 20 12: 1639-1650. doi:10.1101/gr.112128.110 80   30 Cited 34 times in Scopus34 0
Bateman, Alex, Agrawal, Shipra, Birney, Ewan, Bruford, Elspeth A., Bujnicki, Janusz M., Cochrane, Guy, Cole, James R., Dinger, Marcel E., Enright, Anton J., Gardner, Paul P., Gautheret, Daniel, Griffiths-Jones, Sam, Harrow, Jen, Herrero, Javier, Holmes, Ian H., Huang, Hsien-Da, Kelly, Krystyna A., Kersey, Paul, Kozomara, Ana, Lowe, Todd M., Marz, Manja, Moxon, Simon, Pruitt, Kim D., Samuelsson, Tore, Stadler, Peter F., Vilella, Albert J., Vogel, Jan-Hinnerk, Williams, Kelly P., Wright, Mathew W. and Zwieb, Christian (2011) RNAcentral: A vision for an international database of RNA sequences. RNA, 17 11: 1941-1946. doi:10.1261/rna.2750811 52   27 Cited 23 times in Scopus23 19
Amaral, Paulo, Dinger, Marcel, Mattick, John, Mehler, Mark and Mercer, Tim (2008) RNA control of epigenetic processes. Australian Biochemist, 39 2: 4-8. 82  
Pang, K. C., Stephen, S., Dinger, M. E., Engstrom, P. G., Lenhard, B. and Mattick, J.S. (2007) RNAdb 2.0-an expanded database of mammalian non-coding RNAs. Nucleic Acids Research, 35 SUPPL. 1: D178-D182. doi:10.1093/nar/gkl926 78   82 Cited 92 times in Scopus92 9
Mattick, J. S, Amaral, P. P., Dinger, M. E., Mercer, T. R. and Mehler, M. F. (2009) RNA regulation of epigenetic processes. BioEssays, 31 1: 51-59. doi:10.1002/bies.080099 72   164 Cited 173 times in Scopus173 3
Dinger, M. E., Mercer, T. R. and Mattick, J. S. (2008) RNAs as extracellular signaling molecules. Journal Of Molecular Endocrinology, 40 4: 151-159. doi:10.1677/JME-07-0160 14   69 Cited 77 times in Scopus77 6
Marcellin, Esteban, Mercer, Tim R., Licona-Cassani, Cuauhtemoc, Palfreyman, Robin W., Dinger, Marcel E., Steen, Jennifer A., Mattick, John S. and Nielsen, Lars K. (2013) Saccharopolyspora erythraea's genome is organised in high-order transcriptional regions mediated by targeted degradation at the metabolic switch. BMC Genomics, 14 1: 15.1-15.9. doi:10.1186/1471-2164-14-15 56   4 Cited 4 times in Scopus4 1
Askarian-Amiri, Marjan E., Crawford, Joanna, French, Juliet D., Smart, Chanel E., Smith, Martin A., Clark, Michael B., Ru, Kelin, Mercer, Tim R., Thompson, Ella R., Lakhani, Sunil R., Vargas, Ana C., Campbell, Ian G., Brown, Melissa A., Dinger, Marcel E. and Mattick, John S. (2011) SNORD-host RNA Zfas1 is a regulator of mammary development and a potential marker for breast cancer. RNA, 17 5: 878-891. doi:10.1261/rna.2528811 134   54 Cited 58 times in Scopus58 3
Mercer, T. R., Dinger, M. E., Sunkin, S. M., Mehler, M. F. and Mattick, J. S. (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 2: 716-721. doi:10.1073/pnas.0706729105 69   352 Cited 373 times in Scopus373 15
Mercer, Tim R., Gerhardt, Daniel J., Dinger, Marcel E., Crawford, Joanna, Trapnell, Cole, Jeddeloh, Jeffrey A., Mattick, John S. and Rinn, John L. (2012) Targeted RNA sequencing reveals the deep complexity of the human transcriptome. Nature Biotechnology, 30 1: 99-104. doi:10.1038/nbt.2024 76 277 118 Cited 129 times in Scopus129 51
Mercer, Tim R., Clark, Michael B., Crawford, Joanna, Brunck, Marion E., Gerhardt, Daniel J., Taft, Ryan J., Nielsen, Lars K., Dinger, Marcel E. and Mattick, John S. (2014) Targeted sequencing for gene discovery and quantification using RNA CaptureSeq. Nature Protocols, 9 5: 989-1009. doi:10.1038/nprot.2014.058 63   3 Cited 3 times in Scopus3 9
Amaral, P. P., Dinger, M. E., Mercer, T. R. and Mattick, J. S. (2008) The Eukaryotic genome as an RNA machine. Science, 319 5871: 1787-1789. doi:10.1126/science.1155472 21   266 Cited 293 times in Scopus293 18
Dinger, Marcel E., Gascoigne, Dennis K. and Mattick, John S. (2011) The evolution of RNAs with multiple functions. Biochimie, 93 11: 2013-2018. doi:10.1016/j.biochi.2011.07.018 56 52 25 Cited 33 times in Scopus33 6
Mattick, JS, Croft, LJ, Dinger, ME, Pheasant, M, Makunin, IV, Amiri, MA, Mercer, TR, Pang, KC, Simons, C and Taft, RJ (2007). The human genome as an RNA machine. In: FEBS JOURNAL. 32nd Congress of the Federation-of-European-Biochemical-Societies (FEBS), Vienna AUSTRIA, (15-15). JUL 07-12, 2007. 38   0
Mercer, Tim R., Neph, Shane, Dinger, Marcel E., Crawford, Joanna, Smith, Martin A., Shearwood, Anne-Marie J., Haugen, Eric, Bracken, Cameron P., Rackham, Oliver, Stamatoyannopoulos, John A., Filipovska, Aleksandra and Mattick, John S. (2011) The human mitochondrial transcriptome. Cell, 146 4: 645-658. doi:10.1016/j.cell.2011.06.051 60 205 112 Cited 112 times in Scopus112 32
Khaitan, D., Dinger, M. E., Mazar, J., Crawford, J., Smith, M. A., Mattick, J. S. and Perera, R. J. (2011). The melanoma-upregulated long noncoding RNA SPRY4-IN1 modulates apoptosis and invasion. In: Special Issue: 36th FEBS Congress, Biochemistry for Tomorrow's Medicine. 36th FEBS Congress, Biochemistry for Tomorrows Medicine, Torino, Italy, (88-88). 25-30 June 2010. doi:10.1111/j.1742-4658.2011.08137.x 158   0 0
Khaitan, Divya, Dinger, Marcel E., Mazar, Joseph, Crawford, Joanna, Smith, Martin A., Mattick, John S. and Perera, Ranjan J. (2011) The melanoma-upregulated long noncoding RNA SPRY4-IT1 modulates apoptosis and invasion. Cancer Research, 71 11: 3852-3862. doi:10.1158/0008-5472.CAN-10-4460 136 137 73 Cited 88 times in Scopus88 9

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