Ellis:Publications

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'''Click the links to read our papers'''                                   
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'''Latest Update: April 2010'''
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<font face="trebuchet ms" style="color:#000000">We're in the lab right now working on new publications. '''Latest Update: MAR 2012'''
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Publications of the Ellis Lab will appear here when we have some. So far we're just starting up our lab.  
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== Tom Ellis - Synthetic Biology ==
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<biblio>
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#ellis1 pmid=19377462
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#ellis2 pmid=18406319
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'''Method Paper''' - Ellis T. ''Synthesis and screening of regulatory component libraries for synthetic biology'' Nature Protocols 2009 Apr 23. doi:10.1038/nprot.2009.79 [http://www.natureprotocols.com/2009/04/23/synthesis_and_screening_of_reg.php Link]
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== Tom Ellis - Previous Publications ==
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{| border="1" cellpadding="4" cellspacing="0" style="border:#c9c9c9 1px solid; margin: 1em 1em 1em 0; border-collapse: collapse; width:720px" <!-- This line here formats your table for you.  Change the code to change the formatting of your table.-->
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! || Title !! Authors !! Published !! PDF !! Screenshot
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#ellis3 pmid=17429957
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#ellis4 pmid=17586817
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! Synthetic Biology Research
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#ellis5 pmid=15766241
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| Rational Diversification of a Promoter Providing Fine-Tuned Expression and Orthogonal Regulation for Synthetic Biology
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#ellis6 pmid=15333913
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| '''Blount BA, Weenink T, Vasylechko S, Ellis T'''
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| '''PLoS One''', March 2012 [http://www.plosone.org/article/info%3Adoi%2F10.1371%2Fjournal.pone.0033279 DOI Link]
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| [http://openwetware.org/images/b/b7/TALORsPDF.pdf View PDF]
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| [[Image:TALORs.jpg|160px|right|PLos One]]
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! Synthetic Biology Reviews
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| Construction of synthetic regulatory networks in yeast
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| '''Blount BA, Weenink T, Ellis T'''
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| '''FEBS Letters''', Feb 2012 [http://dx.doi.org/10.1016/j.febslet.2012.01.053 DOI Link]
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| [http://openwetware.org/images/c/cd/FEBSEllis.pdf View PDF]
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| [[Image:YSRNreview.jpg|160px|right|FEBS Letters]]
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| DNA assembly for synthetic biology: from parts to pathways and beyond
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| '''Ellis T''', Adie T, Baldwin GS
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| '''Integrative Biology''', Feb 2011, Vol 3, Page 109 [http://dx.doi.org/10.1039/c0ib00070a DOI Link]
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| [http://openwetware.org/images/2/2e/EllisAssembly.pdf View PDF]
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| [[Image:SynBioAssembly.jpg|160px|right|Integrative Biology]]
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! Synthetic Biology by Tom Ellis
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| Diversity-based, model-guided construction of synthetic gene networks with predicted functions
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| '''Ellis T''', Wang X, Collins JJ
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| '''Nature Biotechnology''', April 2009, Vol 27, Page 465 [http://dx.doi.org/10.1038/nbt.1536 DOI Link]
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| [http://openwetware.org/images/4/42/Biotech.pdf View PDF]
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| [[Image:Biotech.jpg|160px|right|Nature Biotech]]
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| Gene regulation: hacking the network on a sugar high
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| '''Ellis T''', Wang X, Collins JJ
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| '''Molecular Cell''', 2008, Vol 30, Page 1 [http://dx.doi.org/10.1016/j.molcel.2008.03.005 DOI Link]
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| [http://openwetware.org/images/1/12/MolCell.pdf View PDF]
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| [[Image:Mol_Cell.jpg|160px|right|Mol Cell]]
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!
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| Synthesis and screening of regulatory component libraries for synthetic biology
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| '''Ellis T'''
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| '''Nature Protocols''', April 2009 [http://www.nature.com/protocolexchange/protocols/561 DOI Link]
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| [http://openwetware.org/images/9/94/Protocol.pdf View PDF]
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| [[Image:ProtocolTom.jpg|160px|right|Nature Protocols]]
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! Previous Publications by Tom Ellis
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| Novel C8-linked pyrrolobenzodiazepine (PBD)-heterocycle conjugates that recognize DNA sequences containing an inverted CCAAT box
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| Brucoli F, Hawkins RM, James CH, Wells G, Jenkins TC, '''Ellis T''', Hartley JA, Howard PW, Thurston DE
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| '''Bioorg Med Chem Letters''', 2011, Vol 21, Page 3780 [http://dx.doi.org/10.1016/j.bmcl.2011.04.054]
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| [http://openwetware.org/images/7/7d/PBDpaper.pdf View PDF]
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| [[Image:PBDfootprint.jpg|160px|right|Bioorg Med Chem Lett]]
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| Molecular recognition of DNA by rigid [N]-polynorbornane derived bifunctional intercalators: synthesis and evaluation of their binding properties
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| Van Vliet LD, '''Ellis T''', Foley PJ, Liu L, Pfeffer FM, Russell RA, Warrener RN, Hollfelder F, Waring MJ
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| '''Journal of Medicinal Chemistry''', 2007, Vol 50, Page 2326 [http://dx.doi.org/10.1021/jm0613020 DOI Link]
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| [http://openwetware.org/images/b/bd/MOLRAC.pdf View PDF]
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| [[Image:MOLRAC.jpg|160px|right|J Med Chem]]
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| A 96-well DNase I footprinting screen for drug-DNA interactions
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| '''Ellis T''', Evans DA, Martin CR, Hartley JA
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| '''Nucleic Acids Research''', 2007, Vol 35 [http://dx.doi.org/10.1093/nar/gkm467 DOI Link]
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| [http://openwetware.org/images/6/62/Footprinting.pdf View PDF]
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| [[Image:96wellFootprint.jpg|160px|right|NAR]]
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| Sequence-selective interaction of the minor-groove interstrand cross-linking agent SJG-136 with naked and cellular DNA: footprinting and enzyme inhibition studies
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| Martin C, '''Ellis T''', McGurk CJ, Jenkins TC, Hartley JA, Waring MJ, Thurston DE
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| '''Biochemistry''', 2005, Vol 44, Page 4135 [http://dx.doi.org/10.1021/bi0479813 DOI Link]
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| [http://openwetware.org/images/1/18/SJG-136.pdf View PDF]
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| [[Image:SJG136.jpg|160px|right|Biochemistry]]
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| DNase I footprinting of small molecule binding sites on DNA
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| Bailly C, Kluza J, Martin C, '''Ellis T''', Waring MJ
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| '''Methods in Molecular Biology''', 2005, Vol 288, Page 319 [http://dx.doi.org/10.1385/1-59259-823-4:319 DOI Link]
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| Book Chapter
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| [[Image:DNaseI.jpg|160px|right|Meth Mol Biol]]
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Revision as of 05:35, 20 March 2012

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Click the links to read our papers

We're in the lab right now working on new publications. Latest Update: MAR 2012

Title Authors Published PDF Screenshot
Synthetic Biology Research Rational Diversification of a Promoter Providing Fine-Tuned Expression and Orthogonal Regulation for Synthetic Biology Blount BA, Weenink T, Vasylechko S, Ellis T PLoS One, March 2012 DOI Link View PDF
PLos One
Synthetic Biology Reviews Construction of synthetic regulatory networks in yeast Blount BA, Weenink T, Ellis T FEBS Letters, Feb 2012 DOI Link View PDF
FEBS Letters
DNA assembly for synthetic biology: from parts to pathways and beyond Ellis T, Adie T, Baldwin GS Integrative Biology, Feb 2011, Vol 3, Page 109 DOI Link View PDF
Integrative Biology
Synthetic Biology by Tom Ellis Diversity-based, model-guided construction of synthetic gene networks with predicted functions Ellis T, Wang X, Collins JJ Nature Biotechnology, April 2009, Vol 27, Page 465 DOI Link View PDF
Nature Biotech
Gene regulation: hacking the network on a sugar high Ellis T, Wang X, Collins JJ Molecular Cell, 2008, Vol 30, Page 1 DOI Link View PDF
Mol Cell
Synthesis and screening of regulatory component libraries for synthetic biology Ellis T Nature Protocols, April 2009 DOI Link View PDF
Nature Protocols
Previous Publications by Tom Ellis Novel C8-linked pyrrolobenzodiazepine (PBD)-heterocycle conjugates that recognize DNA sequences containing an inverted CCAAT box Brucoli F, Hawkins RM, James CH, Wells G, Jenkins TC, Ellis T, Hartley JA, Howard PW, Thurston DE Bioorg Med Chem Letters, 2011, Vol 21, Page 3780 [1] View PDF
Bioorg Med Chem Lett
Molecular recognition of DNA by rigid [N]-polynorbornane derived bifunctional intercalators: synthesis and evaluation of their binding properties Van Vliet LD, Ellis T, Foley PJ, Liu L, Pfeffer FM, Russell RA, Warrener RN, Hollfelder F, Waring MJ Journal of Medicinal Chemistry, 2007, Vol 50, Page 2326 DOI Link View PDF
J Med Chem
A 96-well DNase I footprinting screen for drug-DNA interactions Ellis T, Evans DA, Martin CR, Hartley JA Nucleic Acids Research, 2007, Vol 35 DOI Link View PDF
NAR
Sequence-selective interaction of the minor-groove interstrand cross-linking agent SJG-136 with naked and cellular DNA: footprinting and enzyme inhibition studies Martin C, Ellis T, McGurk CJ, Jenkins TC, Hartley JA, Waring MJ, Thurston DE Biochemistry, 2005, Vol 44, Page 4135 DOI Link View PDF
Biochemistry
DNase I footprinting of small molecule binding sites on DNA Bailly C, Kluza J, Martin C, Ellis T, Waring MJ Methods in Molecular Biology, 2005, Vol 288, Page 319 DOI Link Book Chapter
Meth Mol Biol
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