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Items: 1 to 20 of 162

1.

Towards synthesis of monoterpenes and derivatives using synthetic biology.

Zebec Z, Wilkes J, Jervis AJ, Scrutton NS, Takano E, Breitling R.

Curr Opin Chem Biol. 2016 Jun 14;34:37-43. doi: 10.1016/j.cbpa.2016.06.002. [Epub ahead of print] Review.

2.

SYNBIOCHEM-a SynBio foundry for the biosynthesis and sustainable production of fine and speciality chemicals.

Carbonell P, Currin A, Dunstan M, Fellows D, Jervis A, Rattray NJ, Robinson CJ, Swainston N, Vinaixa M, Williams A, Yan C, Barran P, Breitling R, Chen GG, Faulon JL, Goble C, Goodacre R, Kell DB, Feuvre RL, Micklefield J, Scrutton NS, Shapira P, Takano E, Turner NJ.

Biochem Soc Trans. 2016 Jun 15;44(3):675-7. doi: 10.1042/BST20160009. Review.

3.

Bioinformatics for the synthetic biology of natural products: integrating across the Design-Build-Test cycle.

Carbonell P, Currin A, Jervis AJ, Rattray NJ, Swainston N, Yan C, Takano E, Breitling R.

Nat Prod Rep. 2016 May 17. [Epub ahead of print]

PMID:
27185383
4.

LC-MS-based absolute metabolite quantification: application to metabolic flux measurement in trypanosomes.

Kim DH, Achcar F, Breitling R, Burgess KE, Barrett MP.

Metabolomics. 2015;11(6):1721-1732. Epub 2015 Jul 9.

5.

Minimum Information about a Biosynthetic Gene cluster.

Medema MH, Kottmann R, Yilmaz P, Cummings M, Biggins JB, Blin K, de Bruijn I, Chooi YH, Claesen J, Coates RC, Cruz-Morales P, Duddela S, Düsterhus S, Edwards DJ, Fewer DP, Garg N, Geiger C, Gomez-Escribano JP, Greule A, Hadjithomas M, Haines AS, Helfrich EJ, Hillwig ML, Ishida K, Jones AC, Jones CS, Jungmann K, Kegler C, Kim HU, Kötter P, Krug D, Masschelein J, Melnik AV, Mantovani SM, Monroe EA, Moore M, Moss N, Nützmann HW, Pan G, Pati A, Petras D, Reen FJ, Rosconi F, Rui Z, Tian Z, Tobias NJ, Tsunematsu Y, Wiemann P, Wyckoff E, Yan X, Yim G, Yu F, Xie Y, Aigle B, Apel AK, Balibar CJ, Balskus EP, Barona-Gómez F, Bechthold A, Bode HB, Borriss R, Brady SF, Brakhage AA, Caffrey P, Cheng YQ, Clardy J, Cox RJ, De Mot R, Donadio S, Donia MS, van der Donk WA, Dorrestein PC, Doyle S, Driessen AJ, Ehling-Schulz M, Entian KD, Fischbach MA, Gerwick L, Gerwick WH, Gross H, Gust B, Hertweck C, Höfte M, Jensen SE, Ju J, Katz L, Kaysser L, Klassen JL, Keller NP, Kormanec J, Kuipers OP, Kuzuyama T, Kyrpides NC, Kwon HJ, Lautru S, Lavigne R, Lee CY, Linquan B, Liu X, Liu W, Luzhetskyy A, Mahmud T, Mast Y, Méndez C, Metsä-Ketelä M, Micklefield J, Mitchell DA, Moore BS, Moreira LM, Müller R, Neilan BA, Nett M, Nielsen J, O'Gara F, Oikawa H, Osbourn A, Osburne MS, Ostash B, Payne SM, Pernodet JL, Petricek M, Piel J, Ploux O, Raaijmakers JM, Salas JA, Schmitt EK, Scott B, Seipke RF, Shen B, Sherman DH, Sivonen K, Smanski MJ, Sosio M, Stegmann E, Süssmuth RD, Tahlan K, Thomas CM, Tang Y, Truman AW, Viaud M, Walton JD, Walsh CT, Weber T, van Wezel GP, Wilkinson B, Willey JM, Wohlleben W, Wright GD, Ziemert N, Zhang C, Zotchev SB, Breitling R, Takano E, Glöckner FO.

Nat Chem Biol. 2015 Sep;11(9):625-31. doi: 10.1038/nchembio.1890. No abstract available.

PMID:
26284661
6.

Butyrolactone signalling circuits for synthetic biology.

Biarnes-Carrera M, Breitling R, Takano E.

Curr Opin Chem Biol. 2015 Oct;28:91-8. doi: 10.1016/j.cbpa.2015.06.024. Epub 2015 Jul 9. Review.

7.

antiSMASH 3.0-a comprehensive resource for the genome mining of biosynthetic gene clusters.

Weber T, Blin K, Duddela S, Krug D, Kim HU, Bruccoleri R, Lee SY, Fischbach MA, Müller R, Wohlleben W, Breitling R, Takano E, Medema MH.

Nucleic Acids Res. 2015 Jul 1;43(W1):W237-43. doi: 10.1093/nar/gkv437. Epub 2015 May 6.

8.

Probing the metabolic network in bloodstream-form Trypanosoma brucei using untargeted metabolomics with stable isotope labelled glucose.

Creek DJ, Mazet M, Achcar F, Anderson J, Kim DH, Kamour R, Morand P, Millerioux Y, Biran M, Kerkhoven EJ, Chokkathukalam A, Weidt SK, Burgess KE, Breitling R, Watson DG, Bringaud F, Barrett MP.

PLoS Pathog. 2015 Mar 16;11(3):e1004689. doi: 10.1371/journal.ppat.1004689. eCollection 2015 Mar.

9.

Synthetic biology advances for pharmaceutical production.

Breitling R, Takano E.

Curr Opin Biotechnol. 2015 Dec;35:46-51. doi: 10.1016/j.copbio.2015.02.004. Epub 2015 Mar 3. Review.

10.

Incorporating peak grouping information for alignment of multiple liquid chromatography-mass spectrometry datasets.

Wandy J, Daly R, Breitling R, Rogers S.

Bioinformatics. 2015 Jun 15;31(12):1999-2006. doi: 10.1093/bioinformatics/btv072. Epub 2015 Feb 2.

11.

Judging synthetic biology risks.

Breitling R, Takano E, Gardner TS.

Science. 2015 Jan 9;347(6218):107. doi: 10.1126/science.aaa5253. No abstract available.

12.

A fast algorithm for determining bounds and accurate approximate p-values of the rank product statistic for replicate experiments.

Heskes T, Eisinga R, Breitling R.

BMC Bioinformatics. 2014 Nov 21;15:367. doi: 10.1186/s12859-014-0367-1.

13.

TrypanoCyc: a community-led biochemical pathways database for Trypanosoma brucei.

Shameer S, Logan-Klumpler FJ, Vinson F, Cottret L, Merlet B, Achcar F, Boshart M, Berriman M, Breitling R, Bringaud F, Bütikofer P, Cattanach AM, Bannerman-Chukualim B, Creek DJ, Crouch K, de Koning HP, Denise H, Ebikeme C, Fairlamb AH, Ferguson MA, Ginger ML, Hertz-Fowler C, Kerkhoven EJ, Mäser P, Michels PA, Nayak A, Nes DW, Nolan DP, Olsen C, Silva-Franco F, Smith TK, Taylor MC, Tielens AG, Urbaniak MD, van Hellemond JJ, Vincent IM, Wilkinson SR, Wyllie S, Opperdoes FR, Barrett MP, Jourdan F.

Nucleic Acids Res. 2015 Jan;43(Database issue):D637-44. doi: 10.1093/nar/gku944. Epub 2014 Oct 9.

14.

Pep2Path: automated mass spectrometry-guided genome mining of peptidic natural products.

Medema MH, Paalvast Y, Nguyen DD, Melnik A, Dorrestein PC, Takano E, Breitling R.

PLoS Comput Biol. 2014 Sep 4;10(9):e1003822. doi: 10.1371/journal.pcbi.1003822. eCollection 2014 Sep.

15.

MetAssign: probabilistic annotation of metabolites from LC-MS data using a Bayesian clustering approach.

Daly R, Rogers S, Wandy J, Jankevics A, Burgess KE, Breitling R.

Bioinformatics. 2014 Oct;30(19):2764-71. doi: 10.1093/bioinformatics/btu370. Epub 2014 Jun 9.

16.

The silicon trypanosome: a test case of iterative model extension in systems biology.

Achcar F, Fadda A, Haanstra JR, Kerkhoven EJ, Kim DH, Leroux AE, Papamarkou T, Rojas F, Bakker BM, Barrett MP, Clayton C, Girolami M, Krauth-Siegel RL, Matthews KR, Breitling R.

Adv Microb Physiol. 2014;64:115-43. doi: 10.1016/B978-0-12-800143-1.00003-8. Review.

17.

SecA is required for membrane targeting of the cell division protein DivIVA in vivo.

Halbedel S, Kawai M, Breitling R, Hamoen LW.

Front Microbiol. 2014 Feb 14;5:58. doi: 10.3389/fmicb.2014.00058. eCollection 2014.

18.

Stable isotope-labeling studies in metabolomics: new insights into structure and dynamics of metabolic networks.

Chokkathukalam A, Kim DH, Barrett MP, Breitling R, Creek DJ.

Bioanalysis. 2014 Feb;6(4):511-24. doi: 10.4155/bio.13.348. Review.

19.

Phosphoenolpyruvate carboxylase identified as a key enzyme in erythrocytic Plasmodium falciparum carbon metabolism.

Storm J, Sethia S, Blackburn GJ, Chokkathukalam A, Watson DG, Breitling R, Coombs GH, Müller S.

PLoS Pathog. 2014 Jan;10(1):e1003876. doi: 10.1371/journal.ppat.1003876. Epub 2014 Jan 16.

20.

Steps towards the synthetic biology of polyketide biosynthesis.

Cummings M, Breitling R, Takano E.

FEMS Microbiol Lett. 2014 Feb;351(2):116-25. doi: 10.1111/1574-6968.12365. Epub 2014 Jan 7. Review.

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