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2013 Journal Article Structure and function of long noncoding RNAs in epigenetic regulationMercer, Tim R. and Mattick, John S. (2013). Structure and function of long noncoding RNAs in epigenetic regulation. Nature Structural & Molecular Biology, 20 (3), 300-307. doi: 10.1038/nsmb.2480 |
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2013 Journal Article Saccharopolyspora erythraea's genome is organised in high-order transcriptional regions mediated by targeted degradation at the metabolic switchMarcellin, 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, 15.1-15.9. doi: 10.1186/1471-2164-14-15 |
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2013 Journal Article Mapping of mitochondrial RNA-protein interactions by digital RNase footprintingLiu, Ganqiang, Mercer, Timothy R., Shearwood, Anne-Marie J., Siira, Stefan J., Hibbs, Moira E., Mattick, John S., Rackham, Oliver and Filipovska, Aleksandra (2013). Mapping of mitochondrial RNA-protein interactions by digital RNase footprinting. Cell Reports, 5 (3), 839-848. doi: 10.1016/j.celrep.2013.09.036 |
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2012 Journal Article Transcriptional effects of a lupus-associated polymorphism in the 5' untranslated region (UTR) of human complement receptor 2 (CR2/CD21)Cruickshank, Mark N., Karimi, Mahdad, Mason, Rhonda L., Fenwick, Emily, Mercer, Tim, Tsao, Betty P., Boackle, Susan A. and Ulgiati, Daniela (2012). Transcriptional effects of a lupus-associated polymorphism in the 5' untranslated region (UTR) of human complement receptor 2 (CR2/CD21). Molecular Immunology, 52 (3-4), 165-173. doi: 10.1016/j.molimm.2012.04.013 |
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2012 Journal Article The human mitochondrial transcriptome and the RNA-binding proteins that regulate its expressionRackham, Oliver, Mercer, Timothy R. and Filipovska, Aleksandra (2012). The human mitochondrial transcriptome and the RNA-binding proteins that regulate its expression. Wiley Interdisciplinary Reviews. RNA, 3 (5), 675-695. doi: 10.1002/wrna.1128 |
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2012 Journal Article Targeted RNA sequencing reveals the deep complexity of the human transcriptomeMercer, 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 |
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2011 Journal Article Long noncoding RNAs are generated from the mitochondrial genome and regulated by nuclear-encoded proteinsRackham, Oliver, Shearwood, Anne-Marie J., Mercer, Tim R., Davies, Stefan M. K., Mattick, John S. and Filipovska, Aleksandra (2011). Long noncoding RNAs are generated from the mitochondrial genome and regulated by nuclear-encoded proteins. RNA, 17 (12), 2085-2093. doi: 10.1261/rna.029405.111 |
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2011 Journal Article Refining transcriptional programs in kidney development by integration of deep RNA-sequencing and array-based spatial profilingThiagarajan, Rathi D., Cloonan, Nicole, Gardiner, Brooke B., Mercer, Tim R., Kolle, Gabriel, Nourbaksh, Ehsan, Wani, Shivangi, Tang, Dave, Krishnan, Keerthana, Georgas, Kylie M., Rumballe, Bree A., Chiu, Han S., Steen, Jason A., Mattick, John S., Little, Melissa H. and Grimmond, Sean M. (2011). Refining transcriptional programs in kidney development by integration of deep RNA-sequencing and array-based spatial profiling. BMC Genomics, 12 (1) 441, 441-1-441-16. doi: 10.1186/1471-2164-12-441 |
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2011 Journal Article RNA processing in human mitochondriaLopez Sanchez, Maria I. G., Mercer, Tim R., Davies, Stefan M. K., Shearwood, Anne-Marie J., Nygard, Karoline K. A., Richman, Tara R., Mattick, John S., Rackham, Oliver and Filipovska, Aleksandra (2011). RNA processing in human mitochondria. Cell Cycle, 10 (17), 2904-2916. doi: 10.4161/cc.10.17.17060 |
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2011 Journal Article The human mitochondrial transcriptomeMercer, 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 |
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2011 Journal Article Global analysis of the mammalian RNA degradome reveals widespread miRNA-dependent and miRNA-independent endonucleolytic cleavageBracken, 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 |
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2011 Journal Article SNORD-host RNA Zfas1 is a regulator of mammary development and a potential marker for breast cancerAskarian-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 |
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2011 Journal Article Expression of distinct RNAs from 3′ untranslated regionsMercer, 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 |
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2010 Journal Article Regulated post-transcriptional RNA cleavage diversifies the eukaryotic transcriptomeMercer, 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 |
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2010 Journal Article Nuclear-localized tiny RNAs are associated with transcription initiation and splice sites in metazoansTaft, Ryan, Simons, Cas, Nahkuri, Satu, Oey, Harald, Korbie, Darren J., Mercer, Timothy R., Holst, Jeff, Ritchie, William, Wong, Justin J-L., Rasko, John E. J., Rokhsar, Daniel S., Degnan, Bernard M. and Mattick, John S. (2010). Nuclear-localized tiny RNAs are associated with transcription initiation and splice sites in metazoans. Nature Structural and Molecular Biology, 17 (8), 1030-1035. doi: 10.1038/nsmb.1841 |
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2010 Journal Article A variant of the KLK4 gene is expressed as a cis sense-antisense chimeric transcript in prostate cancer cellsLai, 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 |
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2010 Journal Article Long noncoding RNAs in neuronal-glial fate specification and oligodendrocyte lineage maturationMercer, 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) 14, 1-15. doi: 10.1186/1471-2202-11-14 |
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2009 Journal Article Pervasive transcription of the eukaryotic genome: functional indices and conceptual implicationsDinger, 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) elp038, 407-423. doi: 10.1093/bfgp/elp038 |
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2009 Journal Article Non-coding RNAs: regulators of diseaseTaft, 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 |
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2009 Journal Article Genome-wide identification of long noncoding RNAs in CD8(+) T cellsPang, 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 |
