From DNA sequence to transcriptional behaviour: a quantitative approach. Export

@article{citeulike:4895086, abstract = {Complex transcriptional behaviours are encoded in the DNA sequences of gene regulatory regions. Advances in our understanding of these behaviours have been recently gained through quantitative models that describe how molecules such as transcription factors and nucleosomes interact with genomic sequences. An emerging view is that every regulatory sequence is associated with a unique binding affinity landscape for each molecule and, consequently, with a unique set of molecule-binding configurations and transcriptional outputs. We present a quantitative framework based on existing methods that unifies these ideas. This framework explains many experimental observations regarding the binding patterns of factors and nucleosomes and the dynamics of transcriptional activation. It can also be used to model more complex phenomena such as transcriptional noise and the evolution of transcriptional regulation.}, author = {Segal, Eran and Widom, Jonathan}, citeulike-article-id = {4895086}, citeulike-linkout-0 = {http://dx.doi.org/10.1038/nrg2591}, citeulike-linkout-1 = {http://dx.doi.org/10.1038/nrg2591}, citeulike-linkout-2 = {http://view.ncbi.nlm.nih.gov/pubmed/19506578}, citeulike-linkout-3 = {http://www.hubmed.org/display.cgi?uids=19506578}, comment = {Well written review about key biological mechanisms involved in the regulation of transcription and how these mechanisms can be modeled mathematically. However, the paper does not review or compare the different modeling approaches currently used and is hence biased towards methods and approaches used by Segal et al. }, day = {01}, doi = {10.1038/nrg2591}, issn = {1471-0064}, journal = {Nature reviews. Genetics}, keywords = {review, thermodynamic\_model, transcriptional\_regulation}, month = {July}, number = {7}, pages = {443--456}, posted-at = {2009-06-19 01:11:11}, priority = {0}, publisher = {Nature Publishing Group}, title = {From DNA sequence to transcriptional behaviour: a quantitative approach.}, url = {http://dx.doi.org/10.1038/nrg2591}, volume = {10}, year = {2009} }

TY - JOUR ID - citeulike:4895086 L3 - citeulike-article-id:4895086 N2 - Complex transcriptional behaviours are encoded in the DNA sequences of gene regulatory regions. Advances in our understanding of these behaviours have been recently gained through quantitative models that describe how molecules such as transcription factors and nucleosomes interact with genomic sequences. An emerging view is that every regulatory sequence is associated with a unique binding affinity landscape for each molecule and, consequently, with a unique set of molecule-binding configurations and transcriptional outputs. We present a quantitative framework based on existing methods that unifies these ideas. This framework explains many experimental observations regarding the binding patterns of factors and nucleosomes and the dynamics of transcriptional activation. It can also be used to model more complex phenomena such as transcriptional noise and the evolution of transcriptional regulation. IS - 7 JF - Nature reviews. Genetics SN - 1471-0064 EP - 456 TI - From DNA sequence to transcriptional behaviour: a quantitative approach. PB - Nature Publishing Group VL - 10 SP - 443 KW - review KW - thermodynamic_model KW - transcriptional_regulation N1 - Well written review about key biological mechanisms involved in the regulation of transcription and how these mechanisms can be modeled mathematically. However, the paper does not review or compare the different modeling approaches currently used and is hence biased towards methods and approaches used by Segal et al. AU - Segal, Eran AU - Widom, Jonathan PY - 2009/07/01/ UR - http://dx.doi.org/10.1038/nrg2591 ER -