dorsal/arxiv
View SchemaA Chemical Kinetic Model of Transcriptional Elongation
| Authors | Yujiro Richard Yamada, Charles S. Peskin |
|---|---|
| Categories | |
| ArXiv ID | q-bio/0603012 |
| URL | https://arxiv.org/abs/q-bio/0603012 |
Abstract
A chemical kinetic model of the elongation dynamics of RNA polymerase along a DNA sequence is introduced. The proposed model governs the discrete movement of the RNA polymerase along a DNA template, with no consideration given to elastic effects. The model's novel concept is a ``look-ahead'' feature, in which nucleotides bind reversibly to the DNA prior to being incorporated covalently into the nascent RNA chain. Results are presented for specific DNA sequences that have been used in single-molecule experiments of the random walk of RNA polymerase along DNA. By replicating the data analysis algorithm from the experimental procedure, the model produces velocity histograms, enabling direct comparison with these published results.
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"abstract": "A chemical kinetic model of the elongation dynamics of RNA polymerase along a\nDNA sequence is introduced. The proposed model governs the discrete movement of\nthe RNA polymerase along a DNA template, with no consideration given to elastic\neffects. The model\u0027s novel concept is a ``look-ahead\u0027\u0027 feature, in which\nnucleotides bind reversibly to the DNA prior to being incorporated covalently\ninto the nascent RNA chain. Results are presented for specific DNA sequences\nthat have been used in single-molecule experiments of the random walk of RNA\npolymerase along DNA. By replicating the data analysis algorithm from the\nexperimental procedure, the model produces velocity histograms, enabling direct\ncomparison with these published results.",
"arxiv_id": "q-bio/0603012",
"authors": [
"Yujiro Richard Yamada",
"Charles S. Peskin"
],
"categories": [
"q-bio.BM",
"q-bio.SC"
],
"title": "A Chemical Kinetic Model of Transcriptional Elongation",
"url": "https://arxiv.org/abs/q-bio/0603012"
},
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