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Items: 26

1.

De novo design of bioactive protein switches.

Langan RA, Boyken SE, Ng AH, Samson JA, Dods G, Westbrook AM, Nguyen TH, Lajoie MJ, Chen Z, Berger S, Mulligan VK, Dueber JE, Novak WRP, El-Samad H, Baker D.

Nature. 2019 Aug;572(7768):205-210. doi: 10.1038/s41586-019-1432-8. Epub 2019 Jul 24.

PMID:
31341284
2.

A Tool for Automatic Correction of Endogenous Concentrations: Application to BHB Analysis by LC-MS-MS and GC-MS.

Desharnais B, Lajoie MJ, Laquerre J, Savard S, Mireault P, Skinner CD.

J Anal Toxicol. 2019 Aug 23;43(7):512-519. doi: 10.1093/jat/bkz024.

PMID:
31141151
3.

Codon usage of highly expressed genes affects proteome-wide translation efficiency.

Frumkin I, Lajoie MJ, Gregg CJ, Hornung G, Church GM, Pilpel Y.

Proc Natl Acad Sci U S A. 2018 May 22;115(21):E4940-E4949. doi: 10.1073/pnas.1719375115. Epub 2018 May 7.

4.

Evolution of a designed protein assembly encapsulating its own RNA genome.

Butterfield GL, Lajoie MJ, Gustafson HH, Sellers DL, Nattermann U, Ellis D, Bale JB, Ke S, Lenz GH, Yehdego A, Ravichandran R, Pun SH, King NP, Baker D.

Nature. 2017 Dec 21;552(7685):415-420. doi: 10.1038/nature25157. Epub 2017 Dec 13.

5.

Rewriting the Genetic Code.

Mukai T, Lajoie MJ, Englert M, Söll D.

Annu Rev Microbiol. 2017 Sep 8;71:557-577. doi: 10.1146/annurev-micro-090816-093247. Epub 2017 Jul 11. Review.

6.

Millstone: software for multiplex microbial genome analysis and engineering.

Goodman DB, Kuznetsov G, Lajoie MJ, Ahern BW, Napolitano MG, Chen KY, Chen C, Church GM.

Genome Biol. 2017 May 25;18(1):101. doi: 10.1186/s13059-017-1223-1.

7.

Optimizing complex phenotypes through model-guided multiplex genome engineering.

Kuznetsov G, Goodman DB, Filsinger GT, Landon M, Rohland N, Aach J, Lajoie MJ, Church GM.

Genome Biol. 2017 May 25;18(1):100. doi: 10.1186/s13059-017-1217-z.

8.

An orthogonalized platform for genetic code expansion in both bacteria and eukaryotes.

Italia JS, Addy PS, Wrobel CJ, Crawford LA, Lajoie MJ, Zheng Y, Chatterjee A.

Nat Chem Biol. 2017 Apr;13(4):446-450. doi: 10.1038/nchembio.2312. Epub 2017 Feb 13.

PMID:
28192410
9.

Emergent rules for codon choice elucidated by editing rare arginine codons in Escherichia coli.

Napolitano MG, Landon M, Gregg CJ, Lajoie MJ, Govindarajan L, Mosberg JA, Kuznetsov G, Goodman DB, Vargas-Rodriguez O, Isaacs FJ, Söll D, Church GM.

Proc Natl Acad Sci U S A. 2016 Sep 20;113(38):E5588-97. doi: 10.1073/pnas.1605856113. Epub 2016 Sep 6.

10.

Design, synthesis, and testing toward a 57-codon genome.

Ostrov N, Landon M, Guell M, Kuznetsov G, Teramoto J, Cervantes N, Zhou M, Singh K, Napolitano MG, Moosburner M, Shrock E, Pruitt BW, Conway N, Goodman DB, Gardner CL, Tyree G, Gonzales A, Wanner BL, Norville JE, Lajoie MJ, Church GM.

Science. 2016 Aug 19;353(6301):819-22. doi: 10.1126/science.aaf3639.

11.

Performance of optimized noncanonical amino acid mutagenesis systems in the absence of release factor 1.

Zheng Y, Lajoie MJ, Italia JS, Chin MA, Church GM, Chatterjee A.

Mol Biosyst. 2016 May 24;12(6):1746-9. doi: 10.1039/c6mb00070c.

PMID:
27027374
12.

Multiplex pairwise assembly of array-derived DNA oligonucleotides.

Klein JC, Lajoie MJ, Schwartz JJ, Strauch EM, Nelson J, Baker D, Shendure J.

Nucleic Acids Res. 2016 Mar 18;44(5):e43. doi: 10.1093/nar/gkv1177. Epub 2015 Nov 8.

13.

Corrigendum: Biocontainment of genetically modified organisms by synthetic protein design.

Mandell DJ, Lajoie MJ, Mee MT, Takeuchi R, Kuznetsov G, Norville JE, Gregg CJ, Stoddard BL, Church GM.

Nature. 2015 Nov 12;527(7577):264. doi: 10.1038/nature15536. Epub 2015 Sep 23. No abstract available.

PMID:
26416745
14.

Overcoming Challenges in Engineering the Genetic Code.

Lajoie MJ, Söll D, Church GM.

J Mol Biol. 2016 Feb 27;428(5 Pt B):1004-21. doi: 10.1016/j.jmb.2015.09.003. Epub 2015 Sep 5. Review.

15.

Biocontainment of genetically modified organisms by synthetic protein design.

Mandell DJ, Lajoie MJ, Mee MT, Takeuchi R, Kuznetsov G, Norville JE, Gregg CJ, Stoddard BL, Church GM.

Nature. 2015 Feb 5;518(7537):55-60. doi: 10.1038/nature14121. Epub 2015 Jan 21. Erratum in: Nature. 2015 Nov 12;527(7577):264.

16.

A bacterial strain with a unique quadruplet codon specifying non-native amino acids.

Chatterjee A, Lajoie MJ, Xiao H, Church GM, Schultz PG.

Chembiochem. 2014 Aug 18;15(12):1782-6. doi: 10.1002/cbic.201402104. Epub 2014 May 27.

PMID:
24867343
17.

Rational optimization of tolC as a powerful dual selectable marker for genome engineering.

Gregg CJ, Lajoie MJ, Napolitano MG, Mosberg JA, Goodman DB, Aach J, Isaacs FJ, Church GM.

Nucleic Acids Res. 2014 Apr;42(7):4779-90. doi: 10.1093/nar/gkt1374. Epub 2014 Jan 22.

18.

Probing the limits of genetic recoding in essential genes.

Lajoie MJ, Kosuri S, Mosberg JA, Gregg CJ, Zhang D, Church GM.

Science. 2013 Oct 18;342(6156):361-3. doi: 10.1126/science.1241460.

19.

Genomically recoded organisms expand biological functions.

Lajoie MJ, Rovner AJ, Goodman DB, Aerni HR, Haimovich AD, Kuznetsov G, Mercer JA, Wang HH, Carr PA, Mosberg JA, Rohland N, Schultz PG, Jacobson JM, Rinehart J, Church GM, Isaacs FJ.

Science. 2013 Oct 18;342(6156):357-60. doi: 10.1126/science.1241459.

20.

Natural reassignment of CUU and CUA sense codons to alanine in Ashbya mitochondria.

Ling J, Daoud R, Lajoie MJ, Church GM, Söll D, Lang BF.

Nucleic Acids Res. 2014 Jan;42(1):499-508. doi: 10.1093/nar/gkt842. Epub 2013 Sep 17.

21.

Improving lambda red genome engineering in Escherichia coli via rational removal of endogenous nucleases.

Mosberg JA, Gregg CJ, Lajoie MJ, Wang HH, Church GM.

PLoS One. 2012;7(9):e44638. doi: 10.1371/journal.pone.0044638. Epub 2012 Sep 5.

22.

Manipulating replisome dynamics to enhance lambda Red-mediated multiplex genome engineering.

Lajoie MJ, Gregg CJ, Mosberg JA, Washington GC, Church GM.

Nucleic Acids Res. 2012 Dec;40(22):e170. doi: 10.1093/nar/gks751. Epub 2012 Aug 16.

23.

Enhanced multiplex genome engineering through co-operative oligonucleotide co-selection.

Carr PA, Wang HH, Sterling B, Isaacs FJ, Lajoie MJ, Xu G, Church GM, Jacobson JM.

Nucleic Acids Res. 2012 Sep 1;40(17):e132. Epub 2012 May 25.

24.

Precise manipulation of chromosomes in vivo enables genome-wide codon replacement.

Isaacs FJ, Carr PA, Wang HH, Lajoie MJ, Sterling B, Kraal L, Tolonen AC, Gianoulis TA, Goodman DB, Reppas NB, Emig CJ, Bang D, Hwang SJ, Jewett MC, Jacobson JM, Church GM.

Science. 2011 Jul 15;333(6040):348-53. doi: 10.1126/science.1205822.

25.

Tricyclic compounds containing nonenolizable cyano enones. A novel class of highly potent anti-inflammatory and cytoprotective agents.

Honda T, Yoshizawa H, Sundararajan C, David E, Lajoie MJ, Favaloro FG Jr, Janosik T, Su X, Honda Y, Roebuck BD, Gribble GW.

J Med Chem. 2011 Mar 24;54(6):1762-78. doi: 10.1021/jm101445p. Epub 2011 Mar 1.

26.

Lambda red recombineering in Escherichia coli occurs through a fully single-stranded intermediate.

Mosberg JA, Lajoie MJ, Church GM.

Genetics. 2010 Nov;186(3):791-9. doi: 10.1534/genetics.110.120782. Epub 2010 Sep 2.

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