Publications
Journal Papers
Weighing the DNA content of Adeno-Associated Virus vectors with zeptogram precision using nanomechanical resonators
Georgios Katsikis, Iris E. Hwang, Wade Wang, Vikas S. Bhat, Nicole L. McIntosh, Omair A. Karim, Bartlomiej J. Blus, Sha Sha, Vincent Agache, Jacqueline M. Wolfrum, Stacy L. Springs, Anthony J. Sinskey, Paul W. Barone, Richard D. Braatz, Scott R. Manalis
Nano Letters 22, 4, 1511-1517 (2022)
We developed a nanofluidic weight scale to quantify the DNA content of Adeno-Associated Virus (AAV) vectors. The platform has the potential to provide real-time quality control during biomanufacturing of viral vectors in gene therapy.
Media coverage in cell & gene and AzoNano.
Inertial and viscous flywheel sensing of nanoparticles
Georgios Katsikis*, Jesse F. Collis*, Scott M. Knudsen, Vincent Agache, John E. Sader, Scott R. Manalis
* equal contribution
Nature Communications 12, 5099 (2021)
Balances for nanoparticles such as resonating fluid-filled cantilevers usually probe only mass through changes in oscillation frequency. We tapped information from previously ignored rotational motion to simultaneously measure particle mass and volume.
Media coverage in EurekAlert, Phys.Org, Nanowerk.
Cellular Pathways of recombinant adeno-associated virus production for gene therapy
S. Sha, A. J. Maloney, G. Katsikis, T. T.N. Nguyen, C. Neufeld, J. Wolfrum, P.W. Barone, S. L. Springs, S. R. Manalis, A. J. Sinskey, R. D. Braatz
Biotechnology Advances, 49, 107764 (2021)
Review of cellular pathways of recombinant Adenoassociated virus (rAAV) production, based on its assembly mechanisms first in the wild-type (wt) AAV replication and then in the common methods of rAAV production. Comparing these mechanisms, we identify potential barriers to high productivity of rAAV and discuss future directions for improvement to meet the emerging needs set by the growth of rAAV-based therapy and the needs of patients.
Analytical methods for process and product characterization of recombinant adeno-associated virus-based gene therapies
Andreas L. Gimpel, G. Katsikis, S. Sha, A. J. Maloney, M. S. Hong, T. T.N. Nguyen J. Wolfrum, S. L. Springs, A. J. Sinskey, S. R. Manalis, P. W. Barone, R. D. Braatz
Molecular Therapy Methods & Clinical Development, 20, 740-754 (2021)
Review of established and upcoming analytical methods for the characterization of recombinant Adeno-Associated Virus (rAAV) as viral vectors for gene therapy.
Monitoring and modeling of lymphocytic leukemia cell bioenergetics reveals decreased ATP synthesis during cell division
Joon Ho Kang*, Georgios Katsikis*, Zhaoqi Li, Kiera M. Sapp, Max A. Stockslager, Daniel Lim, Matthew G. Vander Heiden, Michael B. Yafee, Scott R. Manalis and Teemu P. Miettinen
* equal contribution
Nature Communications 11, 4893 (2020)
ATP drives most cellular processes, although ATP production and consumption levels during mitosis remain unreported. Here, we combined metabolic measurements and modeling to quantify ATP levels and synthesis dynamics, revealing that ATP synthesis and consumption are lowered during mitosis.
Media coverage in MIT Koch Institute News.
Suspended Nanochannel Resonator Arrays with Piezoresistive Sensors for High-Throughput Weighing of Nanoparticles in solution
Marco Gagino*, Georgios Katsikis*, Selim Olcum, Leopold Virot, Martine Covhet, Aurelie Thuaire, Scott R. Manalis and Vincent Agache
* equal contribution
ACS Sensors 5,4, 1230-1238 (2020)
We demonstrated an approach for measuring the mass of nanoparticles using mechanical resonators at a throughput of put to 40,000 particles per hour.
Noninvasive monitoring of single-cell mechanics by acoustic scattering
Joon Ho Kang, Teemu P. Miettinen, Lynna Chen, Selim Olcum, Georgios Katsikis, Patrick S. Doyle and Scott R. Manalis
Acoustic scattering in a suspended microchannel resonator can be used to measure mechanical properties of single cells in a noninvasive manner. The approach is applied to follow stiffness changes of individual cells throughout the cell cycle.
Media coverage in MIT News, Science Daily.
Transition in swimming direction in a model self-propelled inertial swimmer
Thomas Dombrowski, Shannon K. Jones, Georgios Katsikis, Amneet Pal Singh Bhalla, Boyce E. Griffith, and Daphne Klotsa
Phys. Rev. Fluids 4, 021101(R)
A reciprocal model swimmer at intermediate Reynolds numbers (Re) uses steady streaming (SS) flows to propel itself as well as switch direction solely based on the value of Re.
Synchronous magnetic control of water droplets in bulk ferrofluid
Georgios Katsikis , Alexandre Breant, Anatoly Rinberg, Manu Prakash
Soft Matter 14, 681 - 692 (2017)
A microfluidic device enables synchronous magnetic 2D control of water droplets in bulk ferrofluid including generation, propagation, droplet break-up and droplet interactions.
Article selected as front cover for Soft Matter.
Generation of droplet arrays with rational number spacing patterns driven by a periodic energy landscape
Anatoly Rinberg, Georgios Katsikis , Manu Prakash
Physical Review E 96, 033108 (2017)
A droplet generator using a periodic magnetic force creates arrays of droplets at various time scales. A simple discrete-time dynamical systems model reproduces the experimental observations and provides a framework for understanding systems with periodic energy landscapes.
Hand-powered ultralow-cost paper centrifuge
M. Saad Bhamla, Brandon Benson, Chew Chai , Georgios Katsikis , Aanchal Johri, Manu Prakash
Nature Biomedical Engineering 1, 0009 (2017)
Media coverage in Stanford News, CNN, The Economist, Reddit, Wired, Science Magazine and others
Schistosoma mansoni cercariae swim efficiently by exploiting an elastohydrodynamic coupling
Deepak Krishnamurthy, Georgios Katsikis, Arjun Bhargava, Manu Prakash
Nature Physics 13, 266-271 (2016)
The success with which the parasite Schistosoma mansoni infects humans is due largely to its efficient motility. Experiments, modelling and robotics suggest that it swims via an elastohydrodynamic mechanism, rather than using active muscle control.
Media coverage in Stanford News, Physics World, Science Daily and others.
Synchronous Universal Droplet Logic and Control
Georgios Katsikis, James S. Cybulski, Manu Prakash
Nature Physics 11, 588–596 (2015)
A computer based on droplets moving in microfluidic channels requires synchronous manipulation of the droplets. Such synchronous logic is now shown for a system of ferrofluid droplets, with a rotating magnetic field providing the computer clock rate.
Media coverage in Stanford News, The New York Times, BBC News, Popular Science, Wired and others.
Patents
- Two dimensional magnetic trap arrays for droplet control
Manu Prakash, Georgios Katsikis
US2013/056821 | Filing date: Aug 27, 2013
A method to manipulate droplets in a synchronous manner using magnetic fields on a substrate with patterned permalloy patterns.
- Synchronous universal droplet logic and control
Manu Prakash, Georgios Katsikis
US12-313/USSN 62/164,323 | Filing date: May 20, 2015
A method to do universal logic operations with droplets, including both combinational and sequential logic, utlizing hydrodynamic and magnetic interactions between the droplets.
- Method and apparatus for three-dimensional fabrication of continuous sheets of material
Gregory W. Dachs II, David Moore, Georgios Katsikis
PCT 15/630,307 | Filing date: June 22, 2017
A method to 3d-print continuous sheets of material, including flexible and rigid UV curable plastics, using an electromechanical system or rollers and other engaging mechanisms.
Books
Introduction to Machine design
Symeon Publishing
Conference Presentations & Invited talks
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Inertial and flywheel sensing of nanoparticles
Georgios Katsikis
Invited talk at Fluids Seminar at Brown
Sep 22, 2020; Brown University, RI
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How droplets compute and parasites infect: ‘Simple’ Fluids, Complex Functions
Georgios Katsikis
30th International Workshop on Science and Technology of Complex Fluids,
Jun18-22, 2018; San Luis Potosí, México
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A simple discrete-time model to explain droplet break-up in a periodic energy landscape
Georgios Katsikis, Anatoly Rinberg, Manu Prakash
70th Annual Meeting of the APS Division of Fluid Dynamics, Nov 19–21, 2017; Denver, CO
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Deadly parasites, whirligig toys and droplet computers: do the math!
Georgios Katsikis
Invited Talk at Applied Mathematics Colloquium, University of North Carolina at Chapel Hill
Mar 10,2017, Chapel Hill, NC
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A 20-Cent Centrifuge for Global Health Applications
Saad M. Bhamla, Brandon Benson, Chew Chai, Georgios Katsikis, Anchal Johri,
Manu Prakash
American Institute of Chemical Engineers, Annual Meeting 2016, San Fransisco, CA
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Analytics vs Computer Simulations: who wins for Engineering analysis?
Georgios Katsikis
Invited Guest Lecture for Stanford class ME 353: Design for Additive Manufacturing
Oct 6,2016; Stanford, CA
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Manipulation of droplets using synchronous universal logic operations
Georgios Katsikis
Invited talk at Palo Alto Research Center (PARC), May 27 2016; Palo Alto, CA
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Making a droplet computer: what does it take?
Georgios Katsikis
Invited Lecture for Carbon´s Friday Science Speaker Series, Feb 12 2016; Redwood City, CA
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Magnetophoretic control of water droplets in bulk ferrofluid
Georgios Katsikis, Alexandre Breant, Manu Prakash
68th Annual Meeting of the APS Division of Fluid Dynamics, Nov 22–24, 2015; Boston, MA
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Investigation of the swimming mechanics of Schistosoma Cercarie and its role
in disease transmission
Deepak Krishnamurphy, Georgios Katsikis, Arjun Bhargava, Manu Prakash
68th Annual Meeting of the APS Division of Fluid Dynamics, Nov 22–24, 2015; Boston, MA
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Synchronous Universal Droplet Logic and Control (poster)
Georgios Katsikis, Jim Cybulski, Manu Prakash
Molecular Programming Project, Jan 07–10, 2015; San Fransisco CA
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Synchronous droplets as a test bed for pulsatory active fluids
Georgios Katsikis, Manu Prakash
67th Annual Meeting of the APS Division of Fluid Dynamics, Nov 23–25, 2014; San Fransisco CA
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Engineered Active Fluids: One clock to "rule them all"
Georgios Katsikis, Jim Cubylski, Manu Prakash
Active Fluids: Bridging Complex Fluids and Biofluids, Jan 27– Feb01, 2014; Aspen, CO
