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Comprehensive and quantitative mapping of RNA–protein interactions across a transcribed eukaryotic genome
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| Zeitschriftentitel: | Proceedings of the National Academy of Sciences |
|---|---|
| Personen und Körperschaften: | , , , , , , , , , |
| In: | Proceedings of the National Academy of Sciences, 114, 2017, 14, S. 3619-3624 |
| Format: | E-Article |
| Sprache: | Englisch |
| veröffentlicht: |
Proceedings of the National Academy of Sciences
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| Schlagwörter: |
| author_facet |
She, Richard Chakravarty, Anupam K. Layton, Curtis J. Chircus, Lauren M. Andreasson, Johan O. L. Damaraju, Nandita McMahon, Peter L. Buenrostro, Jason D. Jarosz, Daniel F. Greenleaf, William J. She, Richard Chakravarty, Anupam K. Layton, Curtis J. Chircus, Lauren M. Andreasson, Johan O. L. Damaraju, Nandita McMahon, Peter L. Buenrostro, Jason D. Jarosz, Daniel F. Greenleaf, William J. |
|---|---|
| author |
She, Richard Chakravarty, Anupam K. Layton, Curtis J. Chircus, Lauren M. Andreasson, Johan O. L. Damaraju, Nandita McMahon, Peter L. Buenrostro, Jason D. Jarosz, Daniel F. Greenleaf, William J. |
| spellingShingle |
She, Richard Chakravarty, Anupam K. Layton, Curtis J. Chircus, Lauren M. Andreasson, Johan O. L. Damaraju, Nandita McMahon, Peter L. Buenrostro, Jason D. Jarosz, Daniel F. Greenleaf, William J. Proceedings of the National Academy of Sciences Comprehensive and quantitative mapping of RNA–protein interactions across a transcribed eukaryotic genome Multidisciplinary |
| author_sort |
she, richard |
| spelling |
She, Richard Chakravarty, Anupam K. Layton, Curtis J. Chircus, Lauren M. Andreasson, Johan O. L. Damaraju, Nandita McMahon, Peter L. Buenrostro, Jason D. Jarosz, Daniel F. Greenleaf, William J. 0027-8424 1091-6490 Proceedings of the National Academy of Sciences Multidisciplinary http://dx.doi.org/10.1073/pnas.1618370114 <jats:title>Significance</jats:title> <jats:p>High-throughput sequencing has transformed modern biology, but its repertoire is currently confined to reading DNA molecules. Here, we report hardware and software adaptations that allow the very methods that enabled the genomic sequencing revolution to be applied to fluorescence-based biochemical assays, on a massive scale. We demonstrate the unique value of this approach by finding previously unknown features of an ancient developmental regulator, Vts1 (Smaug in metazoans), despite its extensive study with previously available techniques. Our work couples transcriptome-wide measurements of binding affinity, sequence, and structural determinants of binding, and phenotypic outcomes to provide a comprehensive portrait of Vts1 function. Our technology is easily extensible to other RNA-binding proteins involved in disease and development, and facilitates diverse applications in systems biochemistry.</jats:p> Comprehensive and quantitative mapping of RNA–protein interactions across a transcribed eukaryotic genome Proceedings of the National Academy of Sciences |
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Comprehensive and quantitative mapping of RNA–protein interactions across a transcribed eukaryotic genome |
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Comprehensive and quantitative mapping of RNA–protein interactions across a transcribed eukaryotic genome |
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Comprehensive and quantitative mapping of RNA–protein interactions across a transcribed eukaryotic genome |
| title_fullStr |
Comprehensive and quantitative mapping of RNA–protein interactions across a transcribed eukaryotic genome |
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Comprehensive and quantitative mapping of RNA–protein interactions across a transcribed eukaryotic genome |
| title_short |
Comprehensive and quantitative mapping of RNA–protein interactions across a transcribed eukaryotic genome |
| title_sort |
comprehensive and quantitative mapping of rna–protein interactions across a transcribed eukaryotic genome |
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Multidisciplinary |
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http://dx.doi.org/10.1073/pnas.1618370114 |
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2017 |
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<jats:title>Significance</jats:title>
<jats:p>High-throughput sequencing has transformed modern biology, but its repertoire is currently confined to reading DNA molecules. Here, we report hardware and software adaptations that allow the very methods that enabled the genomic sequencing revolution to be applied to fluorescence-based biochemical assays, on a massive scale. We demonstrate the unique value of this approach by finding previously unknown features of an ancient developmental regulator, Vts1 (Smaug in metazoans), despite its extensive study with previously available techniques. Our work couples transcriptome-wide measurements of binding affinity, sequence, and structural determinants of binding, and phenotypic outcomes to provide a comprehensive portrait of Vts1 function. Our technology is easily extensible to other RNA-binding proteins involved in disease and development, and facilitates diverse applications in systems biochemistry.</jats:p> |
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| author | She, Richard, Chakravarty, Anupam K., Layton, Curtis J., Chircus, Lauren M., Andreasson, Johan O. L., Damaraju, Nandita, McMahon, Peter L., Buenrostro, Jason D., Jarosz, Daniel F., Greenleaf, William J. |
| author_facet | She, Richard, Chakravarty, Anupam K., Layton, Curtis J., Chircus, Lauren M., Andreasson, Johan O. L., Damaraju, Nandita, McMahon, Peter L., Buenrostro, Jason D., Jarosz, Daniel F., Greenleaf, William J., She, Richard, Chakravarty, Anupam K., Layton, Curtis J., Chircus, Lauren M., Andreasson, Johan O. L., Damaraju, Nandita, McMahon, Peter L., Buenrostro, Jason D., Jarosz, Daniel F., Greenleaf, William J. |
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| description | <jats:title>Significance</jats:title> <jats:p>High-throughput sequencing has transformed modern biology, but its repertoire is currently confined to reading DNA molecules. Here, we report hardware and software adaptations that allow the very methods that enabled the genomic sequencing revolution to be applied to fluorescence-based biochemical assays, on a massive scale. We demonstrate the unique value of this approach by finding previously unknown features of an ancient developmental regulator, Vts1 (Smaug in metazoans), despite its extensive study with previously available techniques. Our work couples transcriptome-wide measurements of binding affinity, sequence, and structural determinants of binding, and phenotypic outcomes to provide a comprehensive portrait of Vts1 function. Our technology is easily extensible to other RNA-binding proteins involved in disease and development, and facilitates diverse applications in systems biochemistry.</jats:p> |
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| spelling | She, Richard Chakravarty, Anupam K. Layton, Curtis J. Chircus, Lauren M. Andreasson, Johan O. L. Damaraju, Nandita McMahon, Peter L. Buenrostro, Jason D. Jarosz, Daniel F. Greenleaf, William J. 0027-8424 1091-6490 Proceedings of the National Academy of Sciences Multidisciplinary http://dx.doi.org/10.1073/pnas.1618370114 <jats:title>Significance</jats:title> <jats:p>High-throughput sequencing has transformed modern biology, but its repertoire is currently confined to reading DNA molecules. Here, we report hardware and software adaptations that allow the very methods that enabled the genomic sequencing revolution to be applied to fluorescence-based biochemical assays, on a massive scale. We demonstrate the unique value of this approach by finding previously unknown features of an ancient developmental regulator, Vts1 (Smaug in metazoans), despite its extensive study with previously available techniques. Our work couples transcriptome-wide measurements of binding affinity, sequence, and structural determinants of binding, and phenotypic outcomes to provide a comprehensive portrait of Vts1 function. Our technology is easily extensible to other RNA-binding proteins involved in disease and development, and facilitates diverse applications in systems biochemistry.</jats:p> Comprehensive and quantitative mapping of RNA–protein interactions across a transcribed eukaryotic genome Proceedings of the National Academy of Sciences |
| spellingShingle | She, Richard, Chakravarty, Anupam K., Layton, Curtis J., Chircus, Lauren M., Andreasson, Johan O. L., Damaraju, Nandita, McMahon, Peter L., Buenrostro, Jason D., Jarosz, Daniel F., Greenleaf, William J., Proceedings of the National Academy of Sciences, Comprehensive and quantitative mapping of RNA–protein interactions across a transcribed eukaryotic genome, Multidisciplinary |
| title | Comprehensive and quantitative mapping of RNA–protein interactions across a transcribed eukaryotic genome |
| title_full | Comprehensive and quantitative mapping of RNA–protein interactions across a transcribed eukaryotic genome |
| title_fullStr | Comprehensive and quantitative mapping of RNA–protein interactions across a transcribed eukaryotic genome |
| title_full_unstemmed | Comprehensive and quantitative mapping of RNA–protein interactions across a transcribed eukaryotic genome |
| title_short | Comprehensive and quantitative mapping of RNA–protein interactions across a transcribed eukaryotic genome |
| title_sort | comprehensive and quantitative mapping of rna–protein interactions across a transcribed eukaryotic genome |
| title_unstemmed | Comprehensive and quantitative mapping of RNA–protein interactions across a transcribed eukaryotic genome |
| topic | Multidisciplinary |
| url | http://dx.doi.org/10.1073/pnas.1618370114 |