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Items: 1 to 50 of 374

1.

Bringing Microscopy-By-Sequencing into View.

Boulgakov AA, Ellington AD, Marcotte EM.

Trends Biotechnol. 2019 Jul 6. pii: S0167-7799(19)30134-9. doi: 10.1016/j.tibtech.2019.06.001. [Epub ahead of print] Review.

PMID:
31416630
2.

Aptamers in Education: Undergraduates Make Aptamers and Acquire 21st Century Skills Along the Way.

Stovall GM, Huynh V, Engelman S, Ellington AD.

Sensors (Basel). 2019 Jul 25;19(15). pii: E3270. doi: 10.3390/s19153270.

3.

Synthetic evolution.

Simon AJ, d'Oelsnitz S, Ellington AD.

Nat Biotechnol. 2019 Jul;37(7):730-743. doi: 10.1038/s41587-019-0157-4. Epub 2019 Jun 17. Review.

PMID:
31209374
4.

Pattern Generation with Nucleic Acid Chemical Reaction Networks.

Wang SS, Ellington AD.

Chem Rev. 2019 May 22;119(10):6370-6383. doi: 10.1021/acs.chemrev.8b00625. Epub 2019 Mar 13.

PMID:
30865429
5.

Hachimoji DNA and RNA: A genetic system with eight building blocks.

Hoshika S, Leal NA, Kim MJ, Kim MS, Karalkar NB, Kim HJ, Bates AM, Watkins NE Jr, SantaLucia HA, Meyer AJ, DasGupta S, Piccirilli JA, Ellington AD, SantaLucia J Jr, Georgiadis MM, Benner SA.

Science. 2019 Feb 22;363(6429):884-887. doi: 10.1126/science.aat0971.

PMID:
30792304
6.

Selection of self-priming molecular replicators.

Park D, Ellington AD, Jung C.

Nucleic Acids Res. 2019 Mar 18;47(5):2169-2176. doi: 10.1093/nar/gkz044.

7.

Supercharging enables organized assembly of synthetic biomolecules.

Simon AJ, Zhou Y, Ramasubramani V, Glaser J, Pothukuchy A, Gollihar J, Gerberich JC, Leggere JC, Morrow BR, Jung C, Glotzer SC, Taylor DW, Ellington AD.

Nat Chem. 2019 Mar;11(3):204-212. doi: 10.1038/s41557-018-0196-3. Epub 2019 Jan 14.

PMID:
30643229
8.

Simultaneous Detection of Different Zika Virus Lineages via Molecular Computation in a Point-of-Care Assay.

Bhadra S, Saldaña MA, Han HG, Hughes GL, Ellington AD.

Viruses. 2018 Dec 14;10(12). pii: E714. doi: 10.3390/v10120714.

9.

Effective design principles for leakless strand displacement systems.

Wang B, Thachuk C, Ellington AD, Winfree E, Soloveichik D.

Proc Natl Acad Sci U S A. 2018 Dec 26;115(52):E12182-E12191. doi: 10.1073/pnas.1806859115. Epub 2018 Dec 13.

10.

The Role of tRNA in Establishing New Genetic Codes.

Thyer R, Ellington AD.

Biochemistry. 2019 Mar 19;58(11):1460-1463. doi: 10.1021/acs.biochem.8b00834. Epub 2018 Nov 14.

PMID:
30387992
11.

A highly parallel strategy for storage of digital information in living cells.

Akhmetov A, Ellington AD, Marcotte EM.

BMC Biotechnol. 2018 Oct 17;18(1):64. doi: 10.1186/s12896-018-0476-4.

12.

Retroelement-Based Genome Editing and Evolution.

Simon AJ, Morrow BR, Ellington AD.

ACS Synth Biol. 2018 Nov 16;7(11):2600-2611. doi: 10.1021/acssynbio.8b00273. Epub 2018 Oct 26.

PMID:
30256621
13.

Predicting Evolution of the Transcription Regulatory Network in a Bacteriophage.

Garry DJ, Meyer AJ, Ellefson JW, Bull JJ, Ellington AD.

Genome Biol Evol. 2018 Oct 1;10(10):2614-2628. doi: 10.1093/gbe/evy191.

14.

Direct nucleic acid analysis of mosquitoes for high fidelity species identification and detection of Wolbachia using a cellphone.

Bhadra S, Riedel TE, Saldaña MA, Hegde S, Pederson N, Hughes GL, Ellington AD.

PLoS Negl Trop Dis. 2018 Aug 30;12(8):e0006671. doi: 10.1371/journal.pntd.0006671. eCollection 2018 Aug.

15.

Cellular reagents for diagnostics and synthetic biology.

Bhadra S, Pothukuchy A, Shroff R, Cole AW, Byrom M, Ellefson JW, Gollihar JD, Ellington AD.

PLoS One. 2018 Aug 15;13(8):e0201681. doi: 10.1371/journal.pone.0201681. eCollection 2018.

16.

Compartmentalized Self-Replication for Evolution of a DNA Polymerase.

Abil Z, Ellington AD.

Curr Protoc Chem Biol. 2018 Mar;10(1):1-17. doi: 10.1002/cpch.34.

PMID:
30040233
17.

In Vitro Transcription Networks Based on Hairpin Promoter Switches.

Kar S, Ellington AD.

ACS Synth Biol. 2018 Aug 17;7(8):1937-1945. doi: 10.1021/acssynbio.8b00172. Epub 2018 Aug 1.

PMID:
30021064
18.

Phosphorothioated Primers Lead to Loop-Mediated Isothermal Amplification at Low Temperatures.

Cai S, Jung C, Bhadra S, Ellington AD.

Anal Chem. 2018 Jul 17;90(14):8290-8294. doi: 10.1021/acs.analchem.8b02062. Epub 2018 Jul 5.

PMID:
29968462
19.

Viral attenuation by engineered protein fragmentation.

Garry DJ, Ellington AD, Molineux IJ, Bull JJ.

Virus Evol. 2018 Jun 19;4(1):vey017. doi: 10.1093/ve/vey017. eCollection 2018 Jan.

20.

Custom selenoprotein production enabled by laboratory evolution of recoded bacterial strains.

Thyer R, Shroff R, Klein DR, d'Oelsnitz S, Cotham VC, Byrom M, Brodbelt JS, Ellington AD.

Nat Biotechnol. 2018 Aug;36(7):624-631. doi: 10.1038/nbt.4154. Epub 2018 Jun 4.

21.

Single-step Precision Genome Editing in Yeast Using CRISPR-Cas9.

Akhmetov A, Laurent JM, Gollihar J, Gardner EC, Garge RK, Ellington AD, Kachroo AH, Marcotte EM.

Bio Protoc. 2018 Mar 20;8(6). pii: e2765. doi: 10.21769/BioProtoc.2765.

22.

Directed Evolution of Heterologous tRNAs Leads to Reduced Dependence on Post-transcriptional Modifications.

Baldridge KC, Jora M, Maranhao AC, Quick MM, Addepalli B, Brodbelt JS, Ellington AD, Limbach PA, Contreras LM.

ACS Synth Biol. 2018 May 18;7(5):1315-1327. doi: 10.1021/acssynbio.7b00421. Epub 2018 Apr 25.

PMID:
29694026
23.

Strand Displacement Probes Combined with Isothermal Nucleic Acid Amplification for Instrument-Free Detection from Complex Samples.

Phillips EA, Moehling TJ, Bhadra S, Ellington AD, Linnes JC.

Anal Chem. 2018 Jun 5;90(11):6580-6586. doi: 10.1021/acs.analchem.8b00269. Epub 2018 May 8.

24.

Microbiota and Metatranscriptome Changes Accompanying the Onset of Gingivitis.

Nowicki EM, Shroff R, Singleton JA, Renaud DE, Wallace D, Drury J, Zirnheld J, Colleti B, Ellington AD, Lamont RJ, Scott DA, Whiteley M.

MBio. 2018 Apr 17;9(2). pii: e00575-18. doi: 10.1128/mBio.00575-18.

25.

Fingerprinting Non-Terran Biosignatures.

Johnson SS, Anslyn EV, Graham HV, Mahaffy PR, Ellington AD.

Astrobiology. 2018 Jul;18(7):915-922. doi: 10.1089/ast.2017.1712. Epub 2018 Mar 8.

26.

Evolution of a Thermophilic Strand-Displacing Polymerase Using High-Temperature Isothermal Compartmentalized Self-Replication.

Milligan JN, Shroff R, Garry DJ, Ellington AD.

Biochemistry. 2018 Aug 7;57(31):4607-4619. doi: 10.1021/acs.biochem.8b00200. Epub 2018 Apr 18.

PMID:
29629759
27.

Genetic Engineering of Bee Gut Microbiome Bacteria with a Toolkit for Modular Assembly of Broad-Host-Range Plasmids.

Leonard SP, Perutka J, Powell JE, Geng P, Richhart DD, Byrom M, Kar S, Davies BW, Ellington AD, Moran NA, Barrick JE.

ACS Synth Biol. 2018 May 18;7(5):1279-1290. doi: 10.1021/acssynbio.7b00399. Epub 2018 Apr 13.

28.

Construction of synthetic T7 RNA polymerase expression systems.

Kar S, Ellington AD.

Methods. 2018 Jul 1;143:110-120. doi: 10.1016/j.ymeth.2018.02.022. Epub 2018 Mar 5.

PMID:
29518499
29.

Directed evolution of a synthetic phylogeny of programmable Trp repressors.

Ellefson JW, Ledbetter MP, Ellington AD.

Nat Chem Biol. 2018 Apr;14(4):361-367. doi: 10.1038/s41589-018-0006-7. Epub 2018 Feb 26.

PMID:
29483643
30.

Evolving Bacterial Fitness with an Expanded Genetic Code.

Tack DS, Cole AC, Shroff R, Morrow BR, Ellington AD.

Sci Rep. 2018 Feb 19;8(1):3288. doi: 10.1038/s41598-018-21549-w.

31.

Functional interrogation and mining of natively paired human VH:VL antibody repertoires.

Wang B, DeKosky BJ, Timm MR, Lee J, Normandin E, Misasi J, Kong R, McDaniel JR, Delidakis G, Leigh KE, Niezold T, Choi CW, Viox EG, Fahad A, Cagigi A, Ploquin A, Leung K, Yang ES, Kong WP, Voss WN, Schmidt AG, Moody MA, Ambrozak DR, Henry AR, Laboune F, Ledgerwood JE, Graham BS, Connors M, Douek DC, Sullivan NJ, Ellington AD, Mascola JR, Georgiou G.

Nat Biotechnol. 2018 Feb;36(2):152-155. doi: 10.1038/nbt.4052. Epub 2018 Jan 8.

32.

Portable platform for rapid in-field identification of human fecal pollution in water.

Jiang YS, Riedel TE, Popoola JA, Morrow BR, Cai S, Ellington AD, Bhadra S.

Water Res. 2018 Mar 15;131:186-195. doi: 10.1016/j.watres.2017.12.023. Epub 2017 Dec 13.

33.

Differential array sensing for cancer cell classification and novelty detection.

Gade AM, Meadows MK, Ellington AD, Anslyn EV.

Org Biomol Chem. 2017 Nov 29;15(46):9866-9874. doi: 10.1039/c7ob02174g.

PMID:
29139514
34.

Compartmentalized partnered replication for the directed evolution of genetic parts and circuits.

Abil Z, Ellefson JW, Gollihar JD, Watkins E, Ellington AD.

Nat Protoc. 2017 Dec;12(12):2493-2512. doi: 10.1038/nprot.2017.119. Epub 2017 Nov 9. Review.

35.
36.

Charge Shielding Prevents Aggregation of Supercharged GFP Variants at High Protein Concentration.

Laber JR, Dear BJ, Martins ML, Jackson DE, DiVenere A, Gollihar JD, Ellington AD, Truskett TM, Johnston KP, Maynard JA.

Mol Pharm. 2017 Oct 2;14(10):3269-3280. doi: 10.1021/acs.molpharmaceut.7b00322. Epub 2017 Sep 18.

37.

De novo design of antibody complementarity determining regions binding a FLAG tetra-peptide.

Entzminger KC, Hyun JM, Pantazes RJ, Patterson-Orazem AC, Qerqez AN, Frye ZP, Hughes RA, Ellington AD, Lieberman RL, Maranas CD, Maynard JA.

Sci Rep. 2017 Aug 31;7(1):10295. doi: 10.1038/s41598-017-10737-9.

38.

A Simple, Cleated DNA Walker That Hangs on to Surfaces.

Jung C, Allen PB, Ellington AD.

ACS Nano. 2017 Aug 22;11(8):8047-8054. doi: 10.1021/acsnano.7b02693. Epub 2017 Jul 18.

PMID:
28719175
39.

Massively Parallel Biophysical Analysis of CRISPR-Cas Complexes on Next Generation Sequencing Chips.

Jung C, Hawkins JA, Jones SK Jr, Xiao Y, Rybarski JR, Dillard KE, Hussmann J, Saifuddin FA, Savran CA, Ellington AD, Ke A, Press WH, Finkelstein IJ.

Cell. 2017 Jun 29;170(1):35-47.e13. doi: 10.1016/j.cell.2017.05.044.

40.

Amplicon Competition Enables End-Point Quantitation of Nucleic Acids Following Isothermal Amplification.

Jiang YS, Stacy A, Whiteley M, Ellington AD, Bhadra S.

Chembiochem. 2017 Sep 5;18(17):1692-1695. doi: 10.1002/cbic.201700317. Epub 2017 Jul 17.

41.

Purification of single-stranded DNA by co-polymerization with acrylamide and electrophoresis.

Damase TR, Ellington AD, Allen PB.

Biotechniques. 2017 Jun 1;62(6):275-282. doi: 10.2144/000114557.

42.

Synthetic DNA Synthesis and Assembly: Putting the Synthetic in Synthetic Biology.

Hughes RA, Ellington AD.

Cold Spring Harb Perspect Biol. 2017 Jan 3;9(1). pii: a023812. doi: 10.1101/cshperspect.a023812. Review.

43.

Coupling Sensitive Nucleic Acid Amplification with Commercial Pregnancy Test Strips.

Du Y, Pothukuchy A, Gollihar JD, Nourani A, Li B, Ellington AD.

Angew Chem Int Ed Engl. 2017 Jan 19;56(4):992-996. doi: 10.1002/anie.201609108. Epub 2016 Dec 19.

44.

Molecular-level analysis of the serum antibody repertoire in young adults before and after seasonal influenza vaccination.

Lee J, Boutz DR, Chromikova V, Joyce MG, Vollmers C, Leung K, Horton AP, DeKosky BJ, Lee CH, Lavinder JJ, Murrin EM, Chrysostomou C, Hoi KH, Tsybovsky Y, Thomas PV, Druz A, Zhang B, Zhang Y, Wang L, Kong WP, Park D, Popova LI, Dekker CL, Davis MM, Carter CE, Ross TM, Ellington AD, Wilson PC, Marcotte EM, Mascola JR, Ippolito GC, Krammer F, Quake SR, Kwong PD, Georgiou G.

Nat Med. 2016 Dec;22(12):1456-1464. doi: 10.1038/nm.4224. Epub 2016 Nov 7.

45.
46.

Design and engineering of a transmissible antiviral defense.

Paff ML, Nuismer SL, Ellington AD, Molineux IJ, May RH, Bull JJ.

J Biol Eng. 2016 Oct 12;10:12. eCollection 2016.

47.

Recent advances in synthetic biosafety.

Simon AJ, Ellington AD.

F1000Res. 2016 Aug 31;5. pii: F1000 Faculty Rev-2118. doi: 10.12688/f1000research.8365.1. eCollection 2016. Review.

48.

Evolving Orthogonal Suppressor tRNAs To Incorporate Modified Amino Acids.

Maranhao AC, Ellington AD.

ACS Synth Biol. 2017 Jan 20;6(1):108-119. doi: 10.1021/acssynbio.6b00145. Epub 2016 Sep 21.

PMID:
27600875
49.

Corrigendum to "An amino acid depleted cell-free protein synthesis system for the incorporation of non-canonical amino acid analogs into proteins" [J. Biotechnol. 178 (2014) 12-22].

Singh-Blom A, Hughes RA, Ellington AD.

J Biotechnol. 2016 Aug 10;231:296. doi: 10.1016/j.jbiotec.2016.06.031. Epub 2016 Jul 16. No abstract available.

PMID:
27470576
50.

Synthesis of alanyl nucleobase amino acids and their incorporation into proteins.

Talukder P, Dedkova LM, Ellington AD, Yakovchuk P, Lim J, Anslyn EV, Hecht SM.

Bioorg Med Chem. 2016 Sep 15;24(18):4177-4187. doi: 10.1016/j.bmc.2016.07.008. Epub 2016 Jul 6.

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