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10.1371/journal.pone.0151740 http://scihub22266oqcxt.onion/10.1371/journal.pone.0151740 C4795680!4795680!26987123     free     free     free Deprecated: Implicit conversion from float 211.6 to int loses precision in C:\Inetpub\vhosts\kidney.de\httpdocs\pget.php on line 534 Deprecated: Implicit conversion from float 211.6 to int loses precision in C:\Inetpub\vhosts\kidney.de\httpdocs\pget.php on line 534       PLoS+One 2016 ; 11 (3): ä Nephropedia Template TP {{tp|p=26987123|t=2016. SiteOut: An Online Tool to Design Binding Site-Free DNA Sequences |pdf=|usr=}}{{26987123}} gab.com Text SiteOut: An Online Tool to Design Binding Site-Free DNA Sequences JO: PLoS One http://www.kidney.de/pget.php?&tw=1&pmid=26987123 #FOAvip DNA-binding proteins control many fundamental biological processes such as transcription, recombination and replication. A major goal is to decipher the role that DNA sequence plays in orchestrating the binding and activity of such regulatory proteins. To address this goal, it is useful to rationally design DNA sequences with desired numbers, affinities and arrangements of protein binding sites. However, removing binding sites from DNA is computationally non-trivial since one risks creating new sites in the process of deleting or moving others. Here we present an online binding site removal tool, SiteOut, that enables users to design arbitrary DNA sequences that entirely lack binding sites for factors of interest. SiteOut can also be used to delete sites from a specific sequence, or to introduce site-free spacers between functional sequences without creating new sites at the junctions. In combination with commercial DNA synthesis services, SiteOut provides a powerful and flexible platform for synthetic projects that interrogate regulatory DNA. Here we describe the algorithm and illustrate the ways in which SiteOut can be used; it is publicly available at https://depace.med.harvard.edu/siteout/. Twit Text FOAVip SiteOut: An Online Tool to Design Binding Site-Free DNA Sequences ????PLoS One http://www.kidney.de/pget.php?&tw=1&pmid=26987123 #FOAvip Twit Text # Free Paper on # # # # # LINK http://www.kidney.de/pget.php?&tw=1&pmid=26987123 #FOAvip English Wikipedia <ref>{{Cite pmid|26987123}}</ref> SiteOut: An Online Tool to Design Binding Site-Free DNA Sequences #MMPMID26987123 Estrada J; Ruiz-Herrero T; Scholes C; Wunderlich Z; DePace AH PLoS One 2016[]; 11 (3): ä PMID26987123show ga DNA-binding proteins control many fundamental biological processes such as transcription, recombination and replication. A major goal is to decipher the role that DNA sequence plays in orchestrating the binding and activity of such regulatory proteins. To address this goal, it is useful to rationally design DNA sequences with desired numbers, affinities and arrangements of protein binding sites. However, removing binding sites from DNA is computationally non-trivial since one risks creating new sites in the process of deleting or moving others. Here we present an online binding site removal tool, SiteOut, that enables users to design arbitrary DNA sequences that entirely lack binding sites for factors of interest. SiteOut can also be used to delete sites from a specific sequence, or to introduce site-free spacers between functional sequences without creating new sites at the junctions. In combination with commercial DNA synthesis services, SiteOut provides a powerful and flexible platform for synthetic projects that interrogate regulatory DNA. Here we describe the algorithm and illustrate the ways in which SiteOut can be used; it is publicly available at https://depace.med.harvard.edu/siteout/. äSiteOut: An Online Tool to Design Binding Site-Free DNA Sequences (epmc).pdf DeepDyve Pubget Overpricing