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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 27   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 54   8 Cited 7 times in Scopus7 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 49   123 Cited 120 times in Scopus120 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 142   1 Cited 2 times in Scopus2 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 109 20 49 Cited 60 times in Scopus60 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 97 12 22 Cited 24 times in Scopus24 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 73   71 Cited 74 times in Scopus74 15
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 61   59 Cited 61 times in Scopus61 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 20   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 74 34 29 Cited 28 times in Scopus28 0
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 19   20 Cited 18 times in Scopus18 0
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 54   9 Cited 8 times in Scopus8 1
Dinger, Marcel E. (2011) IncRNAs: finding the forest among the trees?. Molecular Therapy, 19 12: 2109-2111. doi:10.1038/mt.2011.251 53 61 1 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 102 66 98 Cited 146 times in Scopus146 1
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 14   32 Cited 32 times in Scopus32 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 85   253 Cited 260 times in Scopus260 1
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 72 15 92 Cited 108 times in Scopus108 0
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. 32   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 206   714 Cited 753 times in Scopus753 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.087775.108 145   162 Cited 162 times in Scopus162 7
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. 81   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 19   9 Cited 8 times in Scopus8 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 59   58 Cited 60 times in Scopus60 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 73   238 Cited 276 times in Scopus276 15
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 30   73 Cited 74 times in Scopus74 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 61   Cited 48 times in Scopus48 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 76   6 Cited 8 times in Scopus8 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 45   9 Cited 9 times in Scopus9 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 75 65 8 Cited 8 times in Scopus8 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 23   2 Cited 2 times in Scopus2 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. 52   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 78   29 Cited 33 times in Scopus33 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 51   18 Cited 14 times in Scopus14 19
Amaral, Paulo, Dinger, Marcel, Mattick, John, Mehler, Mark and Mercer, Tim (2008) RNA control of epigenetic processes. Australian Biochemist, 39 2: 4-8. 81  
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 76   82 Cited 91 times in Scopus91 10
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 69   152 Cited 163 times in Scopus163 0
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 12   65 Cited 72 times in Scopus72 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 50   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 129   46 Cited 49 times in Scopus49 0
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 64   323 Cited 335 times in Scopus335 14
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 72 201 104 Cited 115 times in Scopus115 35
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 49   0 Cited 0 times in Scopus0 6
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 19   258 Cited 282 times in Scopus282 16
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 53 45 21 Cited 25 times in Scopus25 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. 36   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 55 189 101 Cited 102 times in Scopus102 28
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 152   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 135 117 65 Cited 75 times in Scopus75 6
Clark, Michael B., Amaral, Paulo P., Schlesinger, Felix J., Dinger, Marcel E., Taft, Ryan J., Rinn, John L., Ponting, Chris P., Stadler, Peter F., Morris, Kevin V., Morillon, Antonin, Rozowsky, Joel S., Gerstein, Mark B., Wahlestedt, Claes, Hayashizaki, Yoshihide, Carninci, Piero, Gingeras, Thomas R. and Mattick, John S. (2011) The reality of pervasive transcription. PLoS Biology, 9 7: e1000625.1-e1000625.6. doi:10.1371/journal.pbio.1000625 63 26 119 Cited 142 times in Scopus142 55

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