Ellis:Publications: Difference between revisions
From OpenWetWare
Jump to navigationJump to search
No edit summary |
No edit summary |
||
Line 10: | Line 10: | ||
! <b>Synthetic Biology</b> | ! <b>Synthetic Biology</b> | ||
| One-pot DNA construction for synthetic biology: the Modular Overlap-Directed Assembly with Linkers (MODAL) strategy | | One-pot DNA construction for synthetic biology: the Modular Overlap-Directed Assembly with Linkers (MODAL) strategy | ||
| '''Casini A''', Macdonald JT, '''De Jonghe J''', Christodoulou G, Freemont P, Baldwin GS | | '''Casini A''', Macdonald JT, '''De Jonghe J''', Christodoulou G, Freemont P, Baldwin GS, '''Ellis T''' | ||
| '''Nucleic Acids Research''', 2013 [http://mic.sgmjournals.org/content/159/Pt_7/1221.full DOI Link] | | '''Nucleic Acids Research''', 2013 [http://mic.sgmjournals.org/content/159/Pt_7/1221.full DOI Link] | ||
| [http://openwetware.org/images/9/98/MicrobioOllie.pdf View PDF] | | [http://openwetware.org/images/9/98/MicrobioOllie.pdf View PDF] | ||
Line 16: | Line 16: | ||
|- | |- | ||
! | ! | ||
| | | Modelling the burden caused by gene expression: an <i>in silico</i> investigation into the interactions between synthetic gene circuits and their chassis cell | ||
| ''' | | '''Algar R, Ellis T''', Stan GB | ||
| ''' | | '''arXiv Q-Bio''', 2013 [http://mic.sgmjournals.org/content/159/Pt_7/1221.full DOI Link] | ||
| [http://openwetware.org/images/9/98/MicrobioOllie.pdf View PDF] | | [http://openwetware.org/images/9/98/MicrobioOllie.pdf View PDF] | ||
| [[Image:Biosecurity.png|160px|right|Microbiology]] | | [[Image:Biosecurity.png|160px|right|Microbiology]] | ||
|- | |- | ||
! | ! | ||
| | | Creation and characterization of component libraries for synthetic biology | ||
| ''' | | '''Weenink T, Ellis T''' | ||
| ''' | | '''Methods in Molecular Biology''', 2013 Vol. 1073 pp 51-60 [http://mic.sgmjournals.org/content/159/Pt_7/1221.full DOI Link] | ||
| [http://openwetware.org/images/9/98/MicrobioOllie.pdf View PDF] | | [http://openwetware.org/images/9/98/MicrobioOllie.pdf View PDF] | ||
| [[Image:Biosecurity.png|160px|right|Microbiology]] | | [[Image:Biosecurity.png|160px|right|Microbiology]] | ||
|- | |- | ||
! | ! | ||
| Spinach | | Characterisation of genetic control elements for synthetic biology using the Spinach RNA aptamer | ||
| ''' | | '''Pothoulakis G, Ceroni F, Reeve B, Ellis T''' | ||
| ''' | | '''ACS Synthetic Biology''', Sept 2013 [http://mic.sgmjournals.org/content/159/Pt_7/1221.full DOI Link] | ||
| [http://openwetware.org/images/9/98/MicrobioOllie.pdf View PDF] | | [http://openwetware.org/images/9/98/MicrobioOllie.pdf View PDF] | ||
| [[Image:Biosecurity.png|160px|right|Microbiology]] | | [[Image:Biosecurity.png|160px|right|Microbiology]] | ||
Line 39: | Line 39: | ||
| Engineering of regulated stochastic cell fate determination | | Engineering of regulated stochastic cell fate determination | ||
| Wu W, Su RQ, '''Ellis T''', Lai YC, Wang X | | Wu W, Su RQ, '''Ellis T''', Lai YC, Wang X | ||
| '''PNAS USA''', | | '''PNAS USA''', 2013 [http://www.pnas.org/content/110/26/10610.abstract DOI Link] | ||
| [http://openwetware.org/images/2/23/PNAS-2013-Wu-10610-5.pdf View PDF] | | [http://openwetware.org/images/2/23/PNAS-2013-Wu-10610-5.pdf View PDF] | ||
| [[Image:Stochastic.png|160px|right|PNAS USA]] | | [[Image:Stochastic.png|160px|right|PNAS USA]] | ||
Line 45: | Line 45: | ||
! | ! | ||
| Building-in Biosafety for Synthetic Biology | | Building-in Biosafety for Synthetic Biology | ||
| '''Wright O, Stan GB, Ellis T''' | | '''Wright O''', Stan GB, '''Ellis T''' | ||
| '''Microbiology''', March 2013 [http://mic.sgmjournals.org/content/159/Pt_7/1221.full DOI Link] | | '''Microbiology''', March 2013 [http://mic.sgmjournals.org/content/159/Pt_7/1221.full DOI Link] | ||
| [http://openwetware.org/images/9/98/MicrobioOllie.pdf View PDF] | | [http://openwetware.org/images/9/98/MicrobioOllie.pdf View PDF] | ||
Line 67: | Line 67: | ||
| DNA assembly for synthetic biology: from parts to pathways and beyond | | DNA assembly for synthetic biology: from parts to pathways and beyond | ||
| '''Ellis T''', Adie T, Baldwin GS | | '''Ellis T''', Adie T, Baldwin GS | ||
| '''Integrative Biology''', | | '''Integrative Biology''', 2011, Vol 3, Page 109 [http://dx.doi.org/10.1039/c0ib00070a DOI Link] | ||
| [http://openwetware.org/images/2/2e/EllisAssembly.pdf View PDF] | | [http://openwetware.org/images/2/2e/EllisAssembly.pdf View PDF] | ||
| [[Image:SynBioAssembly.jpg|160px|right|Integrative Biology]] | | [[Image:SynBioAssembly.jpg|160px|right|Integrative Biology]] | ||
Line 74: | Line 74: | ||
| Diversity-based, model-guided construction of synthetic gene networks with predicted functions | | Diversity-based, model-guided construction of synthetic gene networks with predicted functions | ||
| '''Ellis T''', Wang X, Collins JJ | | '''Ellis T''', Wang X, Collins JJ | ||
| '''Nature Biotechnology''', | | '''Nature Biotechnology''', 2009, Vol 27, Page 465 [http://dx.doi.org/10.1038/nbt.1536 DOI Link] | ||
| [http://openwetware.org/images/4/42/Biotech.pdf View PDF] | | [http://openwetware.org/images/4/42/Biotech.pdf View PDF] | ||
| [[Image:Biotech.jpg|160px|right|Nature Biotech]] | | [[Image:Biotech.jpg|160px|right|Nature Biotech]] | ||
Line 81: | Line 81: | ||
| Synthesis and screening of regulatory component libraries for synthetic biology | | Synthesis and screening of regulatory component libraries for synthetic biology | ||
| '''Ellis T''' | | '''Ellis T''' | ||
| '''Nature Protocols''', | | '''Nature Protocols''', 2009 [http://www.nature.com/protocolexchange/protocols/561 DOI Link] | ||
| [http://openwetware.org/images/9/94/Protocol.pdf View PDF] | | [http://openwetware.org/images/9/94/Protocol.pdf View PDF] | ||
| [[Image:ProtocolTom.jpg|160px|right|Nature Protocols]] | | [[Image:ProtocolTom.jpg|160px|right|Nature Protocols]] | ||
Line 95: | Line 95: | ||
|- | |- | ||
! <b>DNA-Binding</b> | ! <b>DNA-Binding</b> | ||
| | | An Extended PBD-Polyamide Conjugate with Selectivity for the ICB2 Transcription Factor Binding Site | ||
| Brucoli F, Hawkins RM, James CH, Wells G, Jenkins TC, '''Ellis T''', Hartley JA, Howard PW, Thurston DE | | Brucoli F, Hawkins RM, James CH, Wells G, Jenkins TC, '''Ellis T''', Kotecha M, Hartley JA, Howard PW, Thurston DE | ||
| ''' | | '''J Med Chem''', 2013, Vol 56, Page 6339 [http://dx.doi.org/10.1016/j.bmcl.2011.04.054] | ||
| [http://openwetware.org/images/7/7d/PBDpaper.pdf View PDF] | | [http://openwetware.org/images/7/7d/PBDpaper.pdf View PDF] | ||
| [[Image:PBDfootprint.jpg|160px|right|Bioorg Med Chem Lett]] | | [[Image:PBDfootprint.jpg|160px|right|Bioorg Med Chem Lett]] |
Revision as of 07:44, 25 October 2013
Click the links to read our papers
We're in the lab right now working on new publications. Latest Update: OCT 2013
Title | Authors | Published | Screenshot | ||
---|---|---|---|---|---|
Synthetic Biology | One-pot DNA construction for synthetic biology: the Modular Overlap-Directed Assembly with Linkers (MODAL) strategy | Casini A, Macdonald JT, De Jonghe J, Christodoulou G, Freemont P, Baldwin GS, Ellis T | Nucleic Acids Research, 2013 DOI Link | View PDF | |
Modelling the burden caused by gene expression: an in silico investigation into the interactions between synthetic gene circuits and their chassis cell | Algar R, Ellis T, Stan GB | arXiv Q-Bio, 2013 DOI Link | View PDF | ||
Creation and characterization of component libraries for synthetic biology | Weenink T, Ellis T | Methods in Molecular Biology, 2013 Vol. 1073 pp 51-60 DOI Link | View PDF | ||
Characterisation of genetic control elements for synthetic biology using the Spinach RNA aptamer | Pothoulakis G, Ceroni F, Reeve B, Ellis T | ACS Synthetic Biology, Sept 2013 DOI Link | View PDF | ||
Engineering of regulated stochastic cell fate determination | Wu W, Su RQ, Ellis T, Lai YC, Wang X | PNAS USA, 2013 DOI Link | View PDF | ||
Building-in Biosafety for Synthetic Biology | Wright O, Stan GB, Ellis T | Microbiology, March 2013 DOI Link | View PDF | ||
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 | ||
Construction of synthetic regulatory networks in yeast | Blount BA, Weenink T, Ellis T | FEBS Letters, Feb 2012 DOI Link | View PDF | ||
DNA assembly for synthetic biology: from parts to pathways and beyond | Ellis T, Adie T, Baldwin GS | Integrative Biology, 2011, Vol 3, Page 109 DOI Link | View PDF | ||
Diversity-based, model-guided construction of synthetic gene networks with predicted functions | Ellis T, Wang X, Collins JJ | Nature Biotechnology, 2009, Vol 27, Page 465 DOI Link | View PDF | ||
Synthesis and screening of regulatory component libraries for synthetic biology | Ellis T | Nature Protocols, 2009 DOI Link | View PDF | ||
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 | ||
DNA-Binding | An Extended PBD-Polyamide Conjugate with Selectivity for the ICB2 Transcription Factor Binding Site | Brucoli F, Hawkins RM, James CH, Wells G, Jenkins TC, Ellis T, Kotecha M, Hartley JA, Howard PW, Thurston DE | J Med Chem, 2013, Vol 56, Page 6339 [1] | View PDF | |
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 [2] | View PDF | ||
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 | ||
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 | ||
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 | ||
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 |