THe Ellington lab

What evolves here changes the world


We are located at the University of Texas at Austin in Austin, TX. Our lab is associated with the Center for Systems and Synthetic Biology, the Institute for Cellular and Molecular Biology, the Center for Computational Biology and Bioinformatics, and several other groups at UT Austin.


The Ellington Lab is attempting to develop novel synthetic organisms based on altering the translation apparatus and developing modular nucleic acid software. Translation engineering centers on the introduction of novel amino acids into proteins that have the capability to base-pair and is being pursued using a variety of techniques, including directed evolution, computational design, and high-throughput synthesis. This latter capacity is abetted by a Gene Synthesis Facility capable of producing multiple kilobases of DNA per week. In parallel, DNA circuits based on strand exchange reactions and capable of executing embedded algorithms are being developed using tools such as aptamers and DNA nanotechnology. The first application of these circuits will be in point-of-care diagnostics, but eventually these circuits should form the basis of a new, modular cellular operating system. We anticipate this operating system should also prove useful in cell-to-cell communication and drug delivery in organisms, and are actively pursuing in vivo studies. In order to enhance both engineering translation and installing DNA circuitry into cells, we have developed tools to directly synthesize operons, enable facile horizontal transfer, and edit genomes, and are interested in how such tools can be used to engineer cellular consortiums, including biofilms.


September 7, 2016: Andre's latest paper on evolving orthogonal suppressor tRNAs for modified amino acid incorporation is now available to read.

July 18 - 21, 2016: Several members of the lab attended SEED 2016 in Chicago, where Andy spoke about the functional incorporation of unnatural amino acids into proteomes.

June 24, 2016: Research by Jared, Jimmy, and Raghav on the development of a reverse transcriptase capable of proofreading is featured in this week's issue of Science.

Summer 2016: Eric Verbeke joins the lab as a summer rotation student. Welcome Eric!

May 25, 2016: Bo's paper on anti-ricin antibody discovery through repertoire analysis and yeast surface display is out.

May 23, 2016: The new lab website is under construction.

April 29, 2016: Jared successfully defends his dissertation.

March 31, 2016: A new paper by Cheulhee on expanding oligonucleotide terminal hairpin formation and self-priming (THSP) by incorporating phosphorothioates is now available.

March 23, 2016: Sherry successfully defends her dissertation.


Meet the team. Updated August 2018.

Principal Investigator

Andrew Ellington

Andrew Ellington is the Fraser Professor of Biochemistry at the University of Texas at Austin. He is perhaps best known for the invention of the word "aptamer," but is now most involved in the development and evolution of artificial life, including nucleic acid operating systems that can function both in vitro and in vivo.


Postdoctoral Researchers

Cheulhee Jung

My research projects: 
1. Isothermal amplification (enzyme-based amplification) 
- Dumbbell concatemer amplification (DCA): Continuous self-folding and replication happens, generating very long dsDNA tandem repeats. 
- Evolutionary study for self-replicators using DCA: Good self-replicators will survive under limited resources. 
2. DNA walker on micro-particle (enzyme-free amplification) 
- Autonomous DNA walker with random direction, driven by catalytic hairpin assembly (CHA) circuit
- The stickness of DNA walker can be controlled.

Yan Du

I graduated from Changchun Institute of Applied Chemistry, Chinese Academy of Sciences (CIAC, CAS), and joined in Ellington lab in April 2013. My research interests relate to developing DNA circuitry, isothermal nucleic acid amplification technologies and using various signal output methods to realize their bioanalytical applications. For example, I am developing “one-pot” electrochemical platforms that may realize “point-of-care diagnostics” in the future.

Ross Thyer

I completed a B.Sc. and Ph.D. at the University of Western Australia and joined the Ellington lab in 2013. My research interests include the development of biosynthesis pathways and translation machinery for the incorporation of unconventional and unnatural amino acids. I also enjoy beer, rock climbing and frogs!

Jon McDaniel

Jon graduated with a PhD in biomedical engineering from Duke in 2013. He now investigates how single cell analysis can be used as a tool for rapid and high throughput antibody discovery and vaccine development, and in his free time tries to trick phage into readily incorporating new amino acids into their proteome.

Jared Ellefson

Jared Ellefson works on the development of improved emulsion methods for the selection of genes and pathways.

Xiaolong Sun

I received his MSc in 2012 from East China University of Science and Technology, China and completed his Ph.D in 2015 at the University of Bath, United kingdom. His research interests include organic synthesis to prepare small molecules, which can be utilized to understand and exploit biological systems, mainly in the fluorescent detection of reactive oxygen and nitrogen species and carbohydrates, ie monosaccharides.

Oana Lungu

Postdoctoral Fellow. Ph.D. in Biochemistry and Biophysics from the University of North Carolina at Chapel Hill. My research focuses on applying a protein structure-based approach to understanding antibody immune responses. Diversity in the sequences and structures of antibodies that constitute the human immune repertoire is critical for mounting an effective response against constantly evolving foreign viral antigens. I am currently studying antibody repertoires, such as those elicited against Filoviruses and Arenaviruses, as well as the antibodies that constitute the baseline naïve human antibody repertoire, which have not been exposed to any antigens. My goal is to characterize structural antibody repertoires and gain insights into their relationship to antibody sequence in B cell populations.

Sheng Cai


Zhanar Abil


Anna Simon


Research Assistants

Sanchita Bhadra

I engineer nucleic acid circuits and devices for diagnostic applications. My work is focused on developing methods for (i) non-enzymatic,enzymatic and isothermal nucleic acid amplification (ii) real-time sequence probing systems for isothermal amplification methodologies (iii) SNP distinction (iv) alternate platforms for amplicon detection and (v) point-of-care diagnostics. I also facilitate rapid diagnostic assay development for identification of metabolic and infectious diseases by computational target selection, primer design and establishment of standard operating procedures.

Michelle Byrom

Michelle Byrom received a BS in Microbiology, with Honors, at the University of Texas at Austin. She worked as a research assistant at M.D. Anderson Cancer Center Science Park Research Center for ten years, and joined the Ellington Lab in 2008. Currently, Michelle works on the development of novel biotechnologies for detecting RNA and DNA biomarkers.

Randall Hughes

Randall Hughes is the manager and Principal Investigator of the Applied Biosciences and Biosecurity laboratory at the University of Texas-Applied Research Laboratories. He is also the director of the gene synthesis and fabrication facilities at the Applied Research Laboratories. His research focuses on the development of novel tools and techniques for gene synthesis and translational synthetic biology as well as the development of novel biosensors for food safety, point of care diagnostics, and biosecurity.

Jiri Perutka

I am interested in a versatile genome and epigenome editing with group II introns (targetrons) and in the development of novel methods for identifying unique patterns of protein expression and neuroimaging biomarkers associated with specific diseases.

Arti Pothukuchy

Project 1: 
Tryptophanyl tRNA synthetase/tRNA pair is an attractive candidate for achieving the goal of unnatural amino acid incorporation because of its spacious binding pocket and its potential to accommodate large and bulky synthetic amino acids. We are currently developing the next generation of orthogonal tryptophanyl-tRNAs that are not only superior in their suppression ability but are also truly orthogonal in E.coli system. Rational design methodology is being used to create novel tRNA variants by making modifications on the acceptor arm as well as on the anticodon stem region of the parental tRNA sequences. 
Project 2: 
We are designing and developing SNAP-tag fusion antibodies against cancer biomarkers to develop optimized magnetic bead-based sandwich immuno-PCR reagents. We are currently optimizing a panel of oligo-conjugated or aptamer-conjugated antibodies and magnetic bead conjugates to develop a generalizable method for immuno-PCR reagent production.

Graduate Students


Stella Wang

"I am a graduate student in the lab (joined 2017). My research interests include DNA computing, nucleic acid rational design, and hybridization biophysics. My current projects include characterization of nucleic acid variant thermodynamics using hacked Next-Generation Sequencing chips and distributed in vitro transcriptional circuits for pattern transformation."

Erhu Xiong.jpg

Erhu Xiong


"I graduated with a PhD in Analytical Chemistry from Hunan University and joined the lab in 2016.

Real-time monitoring of medications and biomarkers could allow for truly personalized medicine, enabling smarter dosing and dramatically improved patient outcomes. My research mainly focuses on the development of cheap and easy-to-use electrochemical and fluorescent biosensors based on cascade signal amplification strategy by using nucleic acids circuits for the detection of proteins, nucleic acids, metal ions, and small molecules."

Jimmy Gollihar

Jimmy Gollihar is a graduate student who works on protein engineering and has experience with protein computational design.

John Milligan

John, more often known as Johnny in the wild and wonderful capital of Texas, enjoys lots of kinds of music, playing guitar, singing, lifting weights, unicorns, and sometimes molecular biology and evolution. A long-time friend of the nucleic acid side of our lab, he works on evolving polymerases to help improve their impressive and ever-developing diagnostic technologies. He is also exploring evolution on a genome-wide scale as a tool to create new phenotypes, and playing with magnets and bacteria that make them with his new friends in Berkeley.

Dan Garry

Dan Garry is a graduate student who works on the directed evolution of bacteriophage.

Bo Wang

Andre Maranhao

Andre Maranhao works on the evolutionary engineering of tRNAs and tRNA synthetases for unnatural amino acid incorporation.

Drew Tack

Drew Tack works on addicting proteins to unnatural amino acids, and on the evolution of tRNA synthetases.

Yu Sherry Jiang

As an analytical chemistry student working in biochem lab, occasionally TA in biology, I work on DNA a lot, DNA diagnostic, DNA circuit, DNA computer, DNA synthesis, and related point of care device.

Bo Wang is a graduate student who works on antibody engineering.

Byung Joon Lim

Byung Joon is a graduate student who is working jointly with Dr. Ellington and Dr. Sessler in the Department of Chemistry. He is interested in the synthesis of electrochemically active nucleic acids and applications to sensing and actuation.

Shaunak Kar

I am a Cell and Molecular Biology graduate student. Apart from being an avid sports fan (especially soccer), I work on developing transcription-based circuits capable of function in a wide variety of organisms.

Austin Cole

Austin Cole graduated from the University of Minnesota Twin Cities in 2015 then joined the lab under co-supervision with James Bull in 2016. He's broadly interested in engineering bacterial communication and understanding genetic constraints of evolution. Outside science Austin enjoys hiking, exercise, jazz, and literature.

Elizabeth (Liz) Gardner


Raghav Shroff


Boya Wang

Undergraduate Students


Saloni Gyani



Amogh Krishnagiri

My name is Amogh Krishnagiri and I'm currently a sophomore studying Biomedical Engineering. I work with Dan on his phage evolution experiments. Outside of school, I enjoy being outdoors, watching and playing sports, and watching or reading crime thrillers.


Barrett Morrow

Barrett is an alumnus of the FRI DIY Diagnostics stream and will be entering his second year with the Ellington Lab this fall. Aside from broad interests in bioengineering, he has a knack for 3D printing and is interested in the development of diagnostics for medical and commercial processes.


Paul Nguyen

I am a junior biochemistry major who joined the lab in 2015. Currently, I work with Ross on making selenocysteine great again. I also redesigned the lab website and enjoy programming, cardistry, and listening to EDM.


Pia Sen

Pia Sen is a second year undergraduate. She has worked in the Ellington Lab since 11th grade as both a member of an iGEM team (International Genetically Engineered Machines Competition) and an assistant to Jimmy Gollihar. Pia is interested in biofilms, microbiome research, astrobiology, and programming/engineering. Pia has also worked at the Palmer Lab for microbiology at UT Dallas and in the Dworkin lab at NASA GSFC for an undergraduate fellowship in astrobiology. Outside of bacteria, Pia likes smuggling cats into her dorm.


Steven Tran

Steven Tran is a biochemistry major. He joined the lab in 2016 and works with Austin to explore microbial communication circuitry as a model for large-scale communication schemes.

Administrative Associate


Jorge Villafana




Cody McLeland


Recent Alumni


Sandeep Panda

"I am a graduate student in Indian Institute of Technology (IIT) Madras, India. I was selected for the Indo-US Genome Engineering Technology Initiative (GETin) Internship, which enables PhD Scholars from India to gain exposure in the emerging domains of gene editing and synthetic biology. In the Ellington Lab, I worked on engineering and repurposing terpene binding transcriptional repressors as biosensor in Escherichia coli. I also worked on developing a synthetic RNA-based platform, which can facilitate metabolic shunting between pathways in Escherichia coli."



Armin Nourani

Armin was an undergraduate who worked with many lab members on the development of novel nucleic acid biomarker point-of-care diagnostics. He graduated in the Spring of 2016 and will be attending graduate school at Vanderbilt University to pursue a PhD in chemical biology. Armin had a strong love-hate relationship with LAMP but was an overall advocate for regular lamps.


Ella Watkins

Ella worked in the Ellington Lab for 2 years with Jimmy Gollihar. In her time here, she adapted the directed evolution methods of compartmentalized self replication and compartmentalized partnered replication to work with a eukaryotic system. She is now attending the California Institute of Technology for her PhD in Bioengineering.


Yu Sherry Jiang

As an analytical chemistry student working in a biochemistry lab (and occasionally as a TA in biology), I work with DNA a lot: DNA diagnostics, DNA circuits, DNA computers, DNA synthesis, and related point-of-care devices.


Yan Du

I graduated from Changchun Institute of Applied Chemistry, Chinese Academy of Sciences (CIAC, CAS), and joined the Ellington Lab in April 2013. My research interests relate to developing DNA circuitry and isothermal nucleic acid amplification technologies, as well as using various signal output methods to realize their bioanalytical applications. For example, I am developing “one-pot” electrochemical platforms that may realize point-of-care diagnostics in the future.


Yousef Okasheh

Yousef was an undergraduate researcher, Beckman Scholar, and hype man for the lab. Apart from research, Yousef is perhaps best known on the Internet through his involvement with multiple Austin-based startups.


Bijoy Desai

Bijoy is now working on "understanding the structural dynamics of translation elongation and its regulation using single molecule total internal reflection fluorescence (TIRF) microscopy" as a postdoctoral researcher at Columbia University.

Peter Allen

Peter is a Chemist from University of Washington in Seattle. He has published papers in journals such as Analytical Chemistry, Electrophoresis, and Biochimica et Biophysica Acta: Molecular Basis of Disease. His research has been at the interface of chemistry and neurobiology he is currently working with robotics, Sequential Injection Analysis and aptamers.


Dilek Cam

Research Interests
Nanoparticle (gold, silver) synthesis and modification, development of rapid test (lateral flow strip) platforms based on antibody and nucleic acid for pathogen detection, nanobiosensors, Surface Enhanced Raman Scattering (SERS).


Alison Moss

Alison was a Biomedical Engineering undergraduate who worked on protein engineering.


Carolyn Hargrave



Bingling Li

Dr. Bingling Li graduated from Changchun Institute of Applied Chemistry and joined the Ellington Lab in February 2010 as a postdoctoral research fellow. Her research interest covers “every aspect” related to DNA based molecular recognition, signal amplification, and signal output. Her dream of doing research is developing a commercialized point-of-care device or analytical device for easy and portable diagnosis.


Nick Marshall

Worked primarily on two disparate projects. One project involved utilizing immuno-therapy to cure cancer. The other project was focused on building electronic communication into microbes to build so called "Cyborgcells." That's right, curing a horrible disease on one hand, creating an apocalyptic scenario on the other. Such is the Ellington Lab…


Beth Marshall

Beth Marshall was a technician that worked on repertoire analysis and antibody engineering.


Shu Jun Zhen

Shu is an Associate Professor from Southwest University, China. She worked on two projects. One was about functional nucleic acid based biosensors. The other one was about super-resolution imaging of the interactions between molecules and plasmonic nanostructures.

Publications (1999–2016)

For publications dating back to 1987, visit Google Scholar.

2016JournalJung, Allen, Ellington (2016). A stochastic DNA walker that traverses a microparticle surface. Nat Nanotechnol, 11(2), pp. 157–163. (bib)
2016JournalDu, Zhen, Li, Byrom, Jiang, Ellington (2016). Engineering Signaling Aptamers That Rely on Kinetic Rather Than Equilibrium Competition. Anal. Chem., 88(4), pp. 2250–2257. (bib)
2016JournalTack, Ellefson, Thyer, Wang, Gollihar, Forster, Ellington (2016). Addicting diverse bacteria to a noncanonical amino acid. Nat. Chem. Biol., 12(3), pp. 138–140. (bib)
2016JournalMcDaniel, DeKosky, Tanno, Ellington, Georgiou (2016). Ultra-high-throughput sequencing of the immune receptor repertoire from millions of lymphocytes. Nat Protoc, 11(3), pp. 429–442. (bib)
2016JournalMartini, Ellington, Mansy (2016). An in vitro selection for small molecule induced switching RNA molecules. Methods, missing, pp. . (bib)
2016JournalJung, Ellington (2016). A primerless molecular diagnostic: phosphorothioated-terminal hairpin formation and self-priming extension (PS-THSP). Anal Bioanal Chem, missing, pp. . (bib)
2016JournalDeKosky, Lungu, Park, Johnson, Charab, Chrysostomou, Kuroda, Ellington, Ippolito, Gray, Georgiou (2016). Large-scale sequence and structural comparisons of human naive and antigen-experienced antibody repertoires. Proc. Natl. Acad. Sci. U.S.A., 113(19), pp. E2636–2645. (bib)
2016JournalHammerling, Gollihar, Mortensen, Alnahhas, Ellington, Barrick (2016). Expanded genetic codes create new mutational routes to rifampicin resistance in Escherichia coli. Mol. Biol. Evol., missing, pp. . (bib)
2015JournalEnyeart, Simpson, Ellington (2015). A microbial model of economic trading and comparative advantage. J. Theor. Biol., 364, pp. 326–343. (bib)
2015JournalMeyer, Ellefson, Ellington (2015). Directed Evolution of a Panel of Orthogonal T7 RNA Polymerase Variants for in Vivo or in Vitro Synthetic Circuitry. ACS Synth Biol, 4(10), pp. 1070–1076. (bib)
2015JournalDeKosky, Kojima, Rodin, Charab, Ippolito, Ellington, Georgiou (2015). In-depth determination and analysis of the human paired heavy- and light-chain antibody repertoire. Nat. Med., 21(1), pp. 86–91. (bib)
2015JournalThyer, Robotham, Brodbelt, Ellington (2015). Evolving tRNA(Sec) for efficient canonical incorporation of selenocysteine. J. Am. Chem. Soc., 137(1), pp. 46–49. (bib)
2015JournalP?osko?, Wagner, Ellington, Jewett, O'Reilly, Booth (2015). Controlled assembly of artificial protein-protein complexes via DNA duplex formation. Bioconjug. Chem., 26(3), pp. 427–434. (bib)
2015JournalBhadra, Ellington (2015). Design, synthesis, and application of Spinach molecular beacons triggered by strand displacement. Meth. Enzymol., 550, pp. 215–249. (bib)
2015JournalJiang, Bhadra, Li, Wu, Milligan, Ellington (2015). Robust strand exchange reactions for the sequence-specific, real-time detection of nucleic acid amplicons. Anal. Chem., 87(6), pp. 3314–3320. (bib)
2015JournalEllington (2015). RNA as a conception. RNA, 21(4), pp. 608. (bib)
2015JournalGoodwin, Gade, Byrom, Herrera, Spears, Anslyn, Ellington (2015). Next-generation sequencing as input for chemometrics in differential sensing routines. Angew. Chem. Int. Ed. Engl., 54(21), pp. 6339–6342. (bib)
2015JournalBhadra, Jiang, Kumar, Johnson, Hensley, Ellington (2015). Real-time sequence-validated loop-mediated isothermal amplification assays for detection of Middle East respiratory syndrome coronavirus (MERS-CoV). PLoS ONE, 10(4), pp. e0123126. (bib)
2015JournalMilligan, Ellington (2015). Using RecA protein to enhance kinetic rates of DNA circuits. Chem. Commun. (Camb.), 51(46), pp. 9503–9506. (bib)
2015JournalMartini, Meyer, Ellefson, Milligan, Forlin, Ellington, Mansy (2015). In Vitro Selection for Small-Molecule-Triggered Strand Displacement and Riboswitch Activity. ACS Synth Biol, 4(10), pp. 1144–1150. (bib)
2015JournalAllen, Khaing, Schmidt, Ellington (2015). 3D Printing with Nucleic Acid Adhesives. ACS Biomater Sci Eng, 1(1), pp. 19–26. (bib)
2015JournalDu, Hughes, Bhadra, Jiang, Ellington, Li (2015). A Sweet Spot for Molecular Diagnostics: Coupling Isothermal Amplification and Strand Exchange Circuits to Glucometers. Sci Rep, 5, pp. 11039. (bib)
2015JournalJung, Ellington (2015). Synthetic biology: Six pack and stack. Nat Chem, 7(8), pp. 617–619. (bib)
2015JournalMeyer, Garry, Hall, Byrom, McDonald, Yang, Yin, Ellington (2015). Transcription yield of fully 2'-modified RNA can be increased by the addition of thermostabilizing mutations to T7 RNA polymerase mutants. Nucleic Acids Res., 43(15), pp. 7480–7488. (bib)
2015JournalCunningham, Scida, Kogan, Wang, Ellington, Crooks (2015). Paper diagnostic device for quantitative electrochemical detection of ricin at picomolar levels. Lab Chip, 15(18), pp. 3707–3715. (bib)
2015JournalMayfield, Fan, Wei, Zhang, Li, Ellington, Etzkorn, Zhang (2015). Chemical Tools To Decipher Regulation of Phosphatases by Proline Isomerization on Eukaryotic RNA Polymerase II. ACS Chem. Biol., 10(10), pp. 2405–2414. (bib)
2015JournalWang, Kluwe, Lungu, DeKosky, Kerr, Johnson, Jung, Rezigh, Carroll, Reyes, Bentz, Villanueva, Altman, Davey, Ellington, Georgiou (2015). Facile Discovery of a Diverse Panel of Anti-Ebola Virus Antibodies by Immune Repertoire Mining. Sci Rep, 5, pp. 13926. (bib)
2015JournalKerr, Jackson, Lungu, Meyer, Demogines, Ellington, Georgiou, Wilke, Sawyer (2015). Computational and Functional Analysis of the Virus-Receptor Interface Reveals Host Range Trade-Offs in New World Arenaviruses. J. Virol., 89(22), pp. 11643–11653. (bib)
2015JournalQuandt, Gollihar, Blount, Ellington, Georgiou, Barrick (2015). Fine-tuning citrate synthase flux potentiates and refines metabolic innovation in the Lenski evolution experiment. Elife, 4, pp. . (bib)
2015JournalFriedman, Ellington (2015). Industrialization of Biology. ACS Synth Biol, 4(10), pp. 1053–1055. (bib)
2015JournalEllington (2015). Landscape-Based Biology. J. Mol. Evol., 81(5-6), pp. 144–145. (bib)
2015JournalMahmood, Hasan, Khan, Allen, Kim, Ellington, Iqbal (2015). One-step tumor detection from dynamic morphology tracking on aptamer-grafted surfaces. Technology (Singap World Sci), 3(4), pp. 194–200. (bib)
2014JournalXu, Tack, Hughes, Ellington, Gray (2014). Structure-based non-canonical amino acid design to covalently crosslink an antibody-antigen complex. J. Struct. Biol., 185(2), pp. 215–222. (bib)
2014JournalBhadra, Codrea, Ellington (2014). G-quadruplex-generating polymerase chain reaction for visual colorimetric detection of amplicons. Anal. Biochem., 445, pp. 38–40. (bib)
2014JournalEllefson, Meyer, Hughes, Cannon, Brodbelt, Ellington (2014). Directed evolution of genetic parts and circuits by compartmentalized partnered replication. Nat. Biotechnol., 32(1), pp. 97–101. (bib)
2014JournalLu, Levy, Kincaid, Ellington (2014). Directed evolution of the substrate specificity of biotin ligase. Biotechnol. Bioeng., 111(6), pp. 1071–1081. (bib)
2014JournalQuandt, Deatherage, Ellington, Georgiou, Barrick (2014). Recursive genomewide recombination and sequencing reveals a key refinement step in the evolution of a metabolic innovation in Escherichia coli. Proc. Natl. Acad. Sci. U.S.A., 111(6), pp. 2217–2222. (bib)
2014JournalJiang, Bhadra, Li, Ellington (2014). Mismatches improve the performance of strand-displacement nucleic Acid circuits. Angew. Chem. Int. Ed. Engl., 53(7), pp. 1845–1848. (bib)
2014JournalEnyeart, Mohr, Ellington, Lambowitz (2014). Biotechnological applications of mobile group II introns and their reverse transcriptases: gene targeting, RNA-seq, and non-coding RNA analysis. Mob DNA, 5(1), pp. 2. (bib)
2014JournalZhao, Tsechansky, Ellington, Marcotte (2014). Revisiting and revising the purinosome. Mol Biosyst, 10(3), pp. 369–374. (bib)
2014JournalGollihar, Levy, Ellington (2014). Biochemistry. Many paths to the origin of life. Science, 343(6168), pp. 259–260. (bib)
2014JournalLavinder, Wine, Giesecke, Ippolito, Horton, Lungu, Hoi, DeKosky, Murrin, Wirth, Ellington, Dorner, Marcotte, Boutz, Georgiou (2014). Identification and characterization of the constituent human serum antibodies elicited by vaccination. Proc. Natl. Acad. Sci. U.S.A., 111(6), pp. 2259–2264. (bib)
2014JournalHammerling, Ellefson, Boutz, Marcotte, Ellington, Barrick (2014). Bacteriophages use an expanded genetic code on evolutionary paths to higher fitness. Nat. Chem. Biol., 10(3), pp. 178–180. (bib)
2014JournalO'Connell, Tsechansky, Royall, Boutz, Ellington, Marcotte (2014). A proteomic survey of widespread protein aggregation in yeast. Mol Biosyst, 10(4), pp. 851–861. (bib)
2014JournalBhadra, Ellington (2014). Design and application of cotranscriptional non-enzymatic RNA circuits and signal transducers. Nucleic Acids Res., 42(7), pp. e58. (bib)
2014JournalMeyer, Ellefson, Ellington (2014). Library generation by gene shuffling. Curr Protoc Mol Biol, 105, pp. Unit 15.12.. (bib)
2014JournalMeyer, Sawyer, Ellington, Wilke (2014). Analyzing machupo virus-receptor binding by molecular dynamics simulations. PeerJ, 2, pp. e266. (bib)
2014JournalLu, Ellington (2014). Design and selection of a synthetic operon. ACS Synth Biol, 3(6), pp. 410–415. (bib)
2014JournalSingh-Blom, Hughes, Ellington (2014). An amino acid depleted cell-free protein synthesis system for the incorporation of non-canonical amino acid analogs into proteins. J. Biotechnol., 178, pp. 12–22. (bib)
2014JournalMelancon, Zhou, Zhang, Xiong, Allen, Wen, Huang, Wallace, Myers, Stafford, Liang, Ellington, Li (2014). Selective uptake and imaging of aptamer- and antibody-conjugated hollow nanospheres targeted to epidermal growth factor receptors overexpressed in head and neck cancer. ACS Nano, 8(5), pp. 4530–4538. (bib)
2014JournalJung, Ellington (2014). Diagnostic applications of nucleic acid circuits. Acc. Chem. Res., 47(6), pp. 1825–1835. (bib)
2014JournalBhadra, Ellington (2014). A Spinach molecular beacon triggered by strand displacement. RNA, 20(8), pp. 1183–1194. (bib)
2014JournalByrom, Bhadra, Jiang, Ellington (2014). Exquisite allele discrimination by toehold hairpin primers. Nucleic Acids Res., 42(15), pp. e120. (bib)
2014JournalDu, Lim, Li, Jiang, Sessler, Ellington (2014). Reagentless, ratiometric electrochemical DNA sensors with improved robustness and reproducibility. Anal. Chem., 86(15), pp. 8010–8016. (bib)
2014JournalSegall-Shapiro, Meyer, Ellington, Sontag, Voigt (2014). A 'resource allocator' for transcription based on a highly fragmented T7 RNA polymerase. Mol. Syst. Biol., 10, pp. 742. (bib)
2014JournalAllen, Chen, Simpson, Ellington (2014). Modeling Scalable Pattern Generation in DNA Reaction Networks. Nat Comput, 13(4), pp. 583–595. (bib)
2014JournalStovall, Bedenbaugh, Singh, Meyer, Hatala, Ellington, Hall (2014). In vitro selection using modified or unnatural nucleotides. Curr Protoc Nucleic Acid Chem, 56, pp. 1–33. (bib)
2013JournalLu, Ellington (2013). In vitro selection of proteins via emulsion compartments. Methods, 60(1), pp. 75–80. (bib)
2013JournalWan, Tamuly, Allen, Kim, Bachoo, Ellington, Iqbal (2013). Proliferation and migration of tumor cells in tapered channels. Biomed Microdevices, 15(4), pp. 635–643. (bib)
2013JournalDeKosky, Ippolito, Deschner, Lavinder, Wine, Rawlings, Varadarajan, Giesecke, Dorner, Andrews, Wilson, Hunicke-Smith, Willson, Ellington, Georgiou (2013). High-throughput sequencing of the paired human immunoglobulin heavy and light chain repertoire. Nat. Biotechnol., 31(2), pp. 166–169. (bib)
2013JournalWine, Boutz, Lavinder, Miklos, Hughes, Hoi, Jung, Horton, Murrin, Ellington, Marcotte, Georgiou (2013). Molecular deconvolution of the monoclonal antibodies that comprise the polyclonal serum response. Proc. Natl. Acad. Sci. U.S.A., 110(8), pp. 2993–2998. (bib)
2013JournalZhao, Tsechansky, Swaminathan, Cook, Ellington, Marcotte (2013). Transiently transfected purine biosynthetic enzymes form stress bodies. PLoS ONE, 8(2), pp. e56203. (bib)
2013JournalSingh-Blom, Hughes, Ellington (2013). Residue-specific incorporation of unnatural amino acids into proteins in vitro and in vivo. Methods Mol. Biol., 978, pp. 93–114. (bib)
2013JournalChen, Briggs, McLain, Ellington (2013). Stacking nonenzymatic circuits for high signal gain. Proc. Natl. Acad. Sci. U.S.A., 110(14), pp. 5386–5391. (bib)
2013JournalJiang, Li, Milligan, Bhadra, Ellington (2013). Real-time detection of isothermal amplification reactions with thermostable catalytic hairpin assembly. J. Am. Chem. Soc., 135(20), pp. 7430–7433. (bib)
2013JournalMaranhao, Ellington (2013). Endowing cells with logic and memory. Nat. Biotechnol., 31(5), pp. 413–415. (bib)
2013JournalDer, Kluwe, Miklos, Jacak, Lyskov, Gray, Georgiou, Ellington, Kuhlman (2013). Alternative computational protocols for supercharging protein surfaces for reversible unfolding and retention of stability. PLoS ONE, 8(5), pp. e64363. (bib)
2013JournalWilson, Morton, Deiderick, Gerth, Paul, Gerber, Patel, Ellington, Hunicke-Smith, Patrick (2013). Engineered DNA ligases with improved activities in vitro. Protein Eng. Des. Sel., 26(7), pp. 471–478. (bib)
2013JournalLuo, Yogesha, Cannon, Yan, Ellington, Brodbelt, Zhang (2013). novel modifications on C-terminal domain of RNA polymerase II can fine-tune the phosphatase activity of Ssu72. ACS Chem. Biol., 8(9), pp. 2042–2052. (bib)
2013JournalEnyeart, Chirieleison, Dao, Perutka, Quandt, Yao, Whitt, Keatinge-Clay, Lambowitz, Ellington (2013). Generalized bacterial genome editing using mobile group II introns and Cre-lox. Mol. Syst. Biol., 9, pp. 685. (bib)
2013JournalScida, Li, Ellington, Crooks (2013). DNA detection using origami paper analytical devices. Anal. Chem., 85(20), pp. 9713–9720. (bib)
2013JournalLedbetter, Hwang, Stovall, Ellington (2013). Continuous in vitro evolution of a ribozyme ligase: a model experiment for the evolution of a biomolecule. Biochem Mol Biol Educ, 41(6), pp. 433–442. (bib)
2013JournalChirieleison, Allen, Simpson, Ellington, Chen (2013). Pattern transformation with DNA circuits. Nat Chem, 5(12), pp. 1000–1005. (bib)
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2001JournalChristian, Reilly, Mokler, Wincott, Ellington (2001). Elucidation of the initial step of oligonucleotide fragmentation in matrix-assisted laser desorption/ionization using modified nucleic acids. J. Am. Soc. Mass Spectrom., 12(6), pp. 744–753. (bib)
2001JournalLevy, Ellington (2001). The descent of polymerization. Nat. Struct. Biol., 8(7), pp. 580–582. (bib)
2001JournalRobertson, Ellington (2001). In vitro selection of nucleoprotein enzymes. Nat. Biotechnol., 19(7), pp. 650–655. (bib)
2001JournalBacher, Ellington (2001). Selection and characterization of Escherichia coli variants capable of growth on an otherwise toxic tryptophan analogue. J. Bacteriol., 183(18), pp. 5414–5425. (bib)
2001JournalLevy, Ellington (2001). RNA world: catalysis abets binding, but not vice versa. Curr. Biol., 11(16), pp. R665–667. (bib)
2001JournalCox, Ellington (2001). Automated selection of anti-protein aptamers. Bioorg. Med. Chem., 9(10), pp. 2525–2531. (bib)
2001JournalLevy, Ellington (2001). Selection of deoxyribozyme ligases that catalyze the formation of an unnatural internucleotide linkage. Bioorg. Med. Chem., 9(10), pp. 2581–2587. (bib)
2001JournalSooter, Riedel, Davidson, Levy, Cox, Ellington (2001). Toward automated nucleic acid enzyme selection. Biol. Chem., 382(9), pp. 1327–1334. (bib)
2001JournalChelliserrykattil, Cai, Ellington (2001). A combined in vitro/in vivo selection for polymerases with novel promoter specificities. BMC Biotechnol., 1, pp. 13. (bib)
2001JournalPollard, Bell, Ellington (2001). Design, synthesis, and amplification of DNA pools for construction of combinatorial pools and libraries. Curr Protoc Mol Biol, Chapter 24, pp. Unit 24.2. (bib)
2001JournalJhaveri, Ellington (2001). In vitro selection of RNA aptamers to a protein target by filter immobilization. Curr Protoc Mol Biol, Chapter 24, pp. Unit 24.3. (bib)
2001JournalPollard, Bell, Ellington (2001). Design, synthesis, and amplification of DNA pools for in vitro selection. Curr Protoc Nucleic Acid Chem, Chapter 9, pp. Unit 9.2. (bib)
2001JournalJhaveri, Ellington (2001). In vitro selection of RNA aptamers to a protein target by filter immobilization. Curr Protoc Nucleic Acid Chem, Chapter 9, pp. Unit 9.3. (bib)
2000JournalHesselberth, Miller, Robertus, Ellington (2000). In vitro selection of RNA molecules that inhibit the activity of ricin A-chain. J. Biol. Chem., 275(7), pp. 4937–4942. (bib)
2000JournalHirao, Madin, Endo, Yokoyama, Ellington (2000). RNA aptamers that bind to and inhibit the ribosome-inactivating protein, pepocin. J. Biol. Chem., 275(7), pp. 4943–4948. (bib)
2000JournalRobertson, Ellington (2000). Design and optimization of effector-activated ribozyme ligases. Nucleic Acids Res., 28(8), pp. 1751–1759. (bib)
2000JournalEllington, Khrapov, Shaw (2000). The scene of a frozen accident. RNA, 6(4), pp. 485–498. (bib)
2000JournalMarshall, Ellington (2000). In vitro selection of RNA aptamers. Meth. Enzymol., 318, pp. 193–214. (bib)
2000JournalHesselberth, Robertson, Jhaveri, Ellington (2000). In vitro selection of nucleic acids for diagnostic applications. J. Biotechnol., 74(1), pp. 15–25. (bib)
2000JournalJhaveri, Rajendran, Ellington (2000). In vitro selection of signaling aptamers. Nat. Biotechnol., 18(12), pp. 1293–1297. (bib)
1999JournalMatsumura, Wallingford, Surana, Vize, Ellington (1999). Directed evolution of the surface chemistry of the reporter enzyme beta-glucuronidase. Nat. Biotechnol., 17(7), pp. 696–701. (bib)
1999JournalZidek, Stone, Lato, Pagel, Miao, Ellington, Novotny (1999). NMR mapping of the recombinant mouse major urinary protein I binding site occupied by the pheromone 2-sec-butyl-4,5-dihydrothiazole. Biochemistry, 38(31), pp. 9850–9861. (bib)
1999JournalJames, Ellington (1999). The fidelity of template-directed oligonucleotide ligation and the inevitability of polymerase function. Orig Life Evol Biosph, 29(4), pp. 375–390. (bib)
1999JournalMarshall, Ellington (1999). Molecular parasites that evolve longer genomes. J. Mol. Evol., 49(5), pp. 656–663. (bib)
1999JournalMarshall, Ellington (1999). Training ribozymes to switch. Nat. Struct. Biol., 6(11), pp. 992–994. (bib)
Showing 1 to 249 of 249 entries


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