A multidimensional platform for the purification of non-coding RNA species
A renewed interest in non-coding RNA (ncRNA) has led to the discovery of novel RNA species and post-transcriptional ribonucleoside modifications, and an emerging appreciation for the role of ncRNA in RNA epigenetics. Although much can be learned by amplification-based analysis of ncRNA sequence and...
| Main Authors: | , , , , , , , , , , , , , , , |
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| Format: | Article |
| Language: | en_US |
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Oxford University Press
2013
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| Online Access: | http://hdl.handle.net/1721.1/81340 https://orcid.org/0000-0003-2673-5606 https://orcid.org/0000-0003-0011-3067 https://orcid.org/0000-0001-8533-2706 https://orcid.org/0000-0001-9920-2080 |
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| author | McBee, Megan E. Su, Dan Pang, Yan Ling Joy Gu, Chen Prestwich, Erin Dedon, Peter C. Chionh, Yok Hian Ho, Chia-Hua Pruksakorn, Dumnoensun Indrakanti, Ramesh Babu Ng, Chee Sheng Hia, Fabian Dong, Hongping Shi, Pei-Yong Preiser, Peter Rainer Alonso, Sylvie |
| author2 | Massachusetts Institute of Technology. Center for Environmental Health Sciences |
| author_facet | Massachusetts Institute of Technology. Center for Environmental Health Sciences McBee, Megan E. Su, Dan Pang, Yan Ling Joy Gu, Chen Prestwich, Erin Dedon, Peter C. Chionh, Yok Hian Ho, Chia-Hua Pruksakorn, Dumnoensun Indrakanti, Ramesh Babu Ng, Chee Sheng Hia, Fabian Dong, Hongping Shi, Pei-Yong Preiser, Peter Rainer Alonso, Sylvie |
| author_sort | McBee, Megan E. |
| collection | MIT |
| description | A renewed interest in non-coding RNA (ncRNA) has led to the discovery of novel RNA species and post-transcriptional ribonucleoside modifications, and an emerging appreciation for the role of ncRNA in RNA epigenetics. Although much can be learned by amplification-based analysis of ncRNA sequence and quantity, there is a significant need for direct analysis of RNA, which has led to numerous methods for purification of specific ncRNA molecules. However, no single method allows purification of the full range of cellular ncRNA species. To this end, we developed a multidimensional chromatographic platform to resolve, isolate and quantify all canonical ncRNAs in a single sample of cells or tissue, as well as novel ncRNA species. The applicability of the platform is demonstrated in analyses of ncRNA from bacteria, human cells and plasmodium-infected reticulocytes, as well as a viral RNA genome. Among the many potential applications of this platform are a system-level analysis of the dozens of modified ribonucleosides in ncRNA, characterization of novel long ncRNA species, enhanced detection of rare transcript variants and analysis of viral genomes. |
| first_indexed | 2024-09-23T13:56:24Z |
| format | Article |
| id | mit-1721.1/81340 |
| institution | Massachusetts Institute of Technology |
| language | en_US |
| last_indexed | 2024-09-23T13:56:24Z |
| publishDate | 2013 |
| publisher | Oxford University Press |
| record_format | dspace |
| spelling | mit-1721.1/813402022-10-01T18:06:08Z A multidimensional platform for the purification of non-coding RNA species McBee, Megan E. Su, Dan Pang, Yan Ling Joy Gu, Chen Prestwich, Erin Dedon, Peter C. Chionh, Yok Hian Ho, Chia-Hua Pruksakorn, Dumnoensun Indrakanti, Ramesh Babu Ng, Chee Sheng Hia, Fabian Dong, Hongping Shi, Pei-Yong Preiser, Peter Rainer Alonso, Sylvie Massachusetts Institute of Technology. Center for Environmental Health Sciences Massachusetts Institute of Technology. Department of Biological Engineering McBee, Megan E. Su, Dan Pang, Yan Ling Joy Gu, Chen Prestwich, Erin Dedon, Peter C. Indrakanti, Ramesh Babu A renewed interest in non-coding RNA (ncRNA) has led to the discovery of novel RNA species and post-transcriptional ribonucleoside modifications, and an emerging appreciation for the role of ncRNA in RNA epigenetics. Although much can be learned by amplification-based analysis of ncRNA sequence and quantity, there is a significant need for direct analysis of RNA, which has led to numerous methods for purification of specific ncRNA molecules. However, no single method allows purification of the full range of cellular ncRNA species. To this end, we developed a multidimensional chromatographic platform to resolve, isolate and quantify all canonical ncRNAs in a single sample of cells or tissue, as well as novel ncRNA species. The applicability of the platform is demonstrated in analyses of ncRNA from bacteria, human cells and plasmodium-infected reticulocytes, as well as a viral RNA genome. Among the many potential applications of this platform are a system-level analysis of the dozens of modified ribonucleosides in ncRNA, characterization of novel long ncRNA species, enhanced detection of rare transcript variants and analysis of viral genomes. Singapore-MIT Alliance for Research and Technology National Institute of Environmental Health Sciences (ES017010) National Institute of Environmental Health Sciences (ES002109) 2013-10-07T14:22:04Z 2013-10-07T14:22:04Z 2013-08 2013-07 Article http://purl.org/eprint/type/JournalArticle 0305-1048 1362-4962 http://hdl.handle.net/1721.1/81340 Chionh, Y. H., C.-H. Ho, D. Pruksakorn, I. Ramesh Babu, C. S. Ng, F. Hia, M. E. McBee, et al. “A multidimensional platform for the purification of non-coding RNA species.” Nucleic Acids Research 41, no. 17 (September 25, 2013): e168-e168. https://orcid.org/0000-0003-2673-5606 https://orcid.org/0000-0003-0011-3067 https://orcid.org/0000-0001-8533-2706 https://orcid.org/0000-0001-9920-2080 en_US http://dx.doi.org/10.1093/nar/gkt668 Nucleic Acids Research http://creativecommons.org/licenses/by-nc/3.0/ application/pdf Oxford University Press Oxford University Press |
| spellingShingle | McBee, Megan E. Su, Dan Pang, Yan Ling Joy Gu, Chen Prestwich, Erin Dedon, Peter C. Chionh, Yok Hian Ho, Chia-Hua Pruksakorn, Dumnoensun Indrakanti, Ramesh Babu Ng, Chee Sheng Hia, Fabian Dong, Hongping Shi, Pei-Yong Preiser, Peter Rainer Alonso, Sylvie A multidimensional platform for the purification of non-coding RNA species |
| title | A multidimensional platform for the purification of non-coding RNA species |
| title_full | A multidimensional platform for the purification of non-coding RNA species |
| title_fullStr | A multidimensional platform for the purification of non-coding RNA species |
| title_full_unstemmed | A multidimensional platform for the purification of non-coding RNA species |
| title_short | A multidimensional platform for the purification of non-coding RNA species |
| title_sort | multidimensional platform for the purification of non coding rna species |
| url | http://hdl.handle.net/1721.1/81340 https://orcid.org/0000-0003-2673-5606 https://orcid.org/0000-0003-0011-3067 https://orcid.org/0000-0001-8533-2706 https://orcid.org/0000-0001-9920-2080 |
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