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Manalis Laboratory - MIT Departments of Biological and Mechanical Engineering



MA Stockslager, S Malinowski, M Touat, JC Yoon, J Geduldig, M Mirza, AS Kim, PY Wen, KH Chow, KL Ligon, SR Manalis. Functional drug susceptibility testing using single-cell mass predicts treatment outcome in patient-derived cancer spheroid models, Cell Reports, accepted.

G Katsikis, JF Collis, SM Knudsen, V Agache, JE Sader, SR Manalis. Inertial and viscous flywheel sensing of nanoparticles, Nature Communications (2021). Download PDF and Suppl. Info.

B Hamza, AB Miller, L Meier, M Stockslager, EM King, SR Ng, KL DeGouveia, N Mulugeta, NL Calistri, H Strouf, L Lin, CR Chin, RA Weinberg, AK Shalek, T Jacks, and SR Manalis. Measuring kinetics and metastatic propensity of CTCs by blood exchange between mice, Nature Communications, accepted. bioRxiv

MN Calvo-Vidal, N Zamponi, J Krumsiek, MA Stockslager, MV Revuelta, JM Phillip, R Marullo, E Tikhonova, N Kotlov, J Patel, SN Yang, L Yang, T Taldone, C Thieblemont, JP Leonard, P Martin,
G Inghirami, G Chiosis, SR Manalis and L Cerchietti. Metabolism alterations in aggressive B-cell lymphomas are facilitated by oncogenic HSP90, Cancer Research, accepted. bioRxiv

J Lengefeld, CW Cheng, P Maretich, M Blair, H Hagen, MR McReynolds, E Sullivan, K Majors, C Roberts, JH Kang, JD Steiner, TP Miettinen, SR Manalis, A Antebi, SJ Morrison, JA Lees, LA Boyer, ÖH Yilmaz, A Amon. Cell size is a determinant of stem cell potential during aging, submitted. bioRxiv

JF Collis, S Olcum, D Chakraborty, SR Manalis, and JE Sader. The measurement of Navier slip on individual nanoparticles in liquid, Nanoletters (2021). Download PDF and Suppl. Info.

PD Odermatt, TP Miettinen, J Lemière, JH Kang, E Bostan, SR Manalis, KC Huang, F Chang. Variations of intracellular density during the cell cycle arise from tip-growth regulation in fission yeast, eLife (2021). Download PDF

AL Gimpel, G Katsikis, S Sha, AJ Maloney, MS Hong, TN Nguyen, J Wolfrum, SL Springs, AJ Sinskey, SR Manalis, PW Barone, RD Braatz. Analytical methods for process and product characterization of recombinant adeno-associated virus-based gene therapies, Mol Ther Methods Clin Dev (2021). Download PDF

JH Kang, G Katsikis, MA Stockslager, D Lim, MB Yaffe, SR Manalis, TP Miettinen. Monitoring and modeling of lymphocytic leukemia cell bioenergetics reveals decreased ATP synthesis during cell division, Nature Communications (2020). Download PDF and Suppl. Info.

DC Benjamin, JH Kang, B Hamza, EM King, J Lamar, SR Manalis, RO Hynes. YAP Enhances Tumor Cell Dissemination by Promoting Intravascular Motility and Re-entry into Systemic Circulation, Cancer Research (2020). Download PDF

L Mu, JH Kang, S Olcum, KR Payer, NL Calistri, RJ Kimmerling, SR Manalis, TP Miettinen. Mass measurements during lymphocytic leukemia cell polyploidization decouple cell cycle and cell size-dependent growth, PNAS (2020). Download PDF and Suppl. Info.

M Urbanska, HE Muñoz, JS Bagnall, O Otto, SR Manalis, DD Carlo, J Guck. A comparison of microfluidic methods for high-throughput cell deformability measurements, Nature Methods (2020). Download PDF and Suppl. Info.

M Gagino, G Katsikis, S Olcum, L Virot, M Cochet, A Thuaire, SR Manalis, V Agache. Suspended Nanochannel Resonators Arrays with piezoresistive sensors for high-throughput weighing of nanoparticles in solution, ACS Sensors (2020). Download PDF and Suppl. Info.

MA Stockslager, S Olcum, SM Knudsen, RJ Kimmerling, N Cermak, K Payer, V Agache, SR Manalis. Rapid and high-precision sizing of single particles using parallel suspended microchannel resonator arrays and deconvolution, Review of Scientific Instruments (2019). Download PDF.

TP Miettinen, JH Kang, LF Yang, SR Manalis. Mammalian cell growth dynamics in mitosis, eLife (2019). Download PDF.

JH Kang, TP Miettinen, L Chen, S Olcum, G Katsikis, PS Doyle, SR Manalis. Noninvasive monitoring of single-cell mechanics by acoustic scattering, Nature Methods (2019). Download PDF and Suppl. Info. See also MIT News.

GE Neurohr, RL Terry, J Lengefeld, M Bonney, GP Brittingham, F Moretto, TP Miettinen, LP Vaites, LM Soares, JA Paulo, JW Harper, S Buratowski, SR Manalis, FJ van Werven, LJ Holt, A Amon. Excessive Cell Growth Causes Cytoplasm Dilution and Contributes to Senescence, Cell (2019). Download PDF. See also MIT News and Summary in Curr. Bio.

B Hamza, SR Ng, SM Prakadan, FF Delgado, CR Chin, EM King, LF Yang, SM Davidson, KL DeGouveia, N Cermak, AW Navia, PS Winter, T Tammela, CM Li, T Papagiannakopoulos, AJ Gupta, JS Bagnall, SM Knudsen, MG Vander Heiden, SC Wasserman, T Jacks, AK Shalek, SR Manalis. An Optofluidic Real-Time Cell Sorter for Longitudinal CTC Studies in Mouse Models of Cancer, PNAS (2019). Download PDF. See also MIT News.

CR Harding, M Gow, JH Kang, E Shortt, SR Manalis, M Meissner, S Lourido. Alveolar proteins stabilize cortical microtubules in Toxoplasma gondii, Nature Communications (2019). Download PDF and Suppl. Info.

NL Calistri, RJ Kimmerling, SW Malinowski, M Touat, MM Stevens, S Olcum, KL Ligon, SR Manalis. Microfluidic active loading of single cells enables analysis of complex clinical specimens, Nature Communications (2018). Download PDF and Suppl. Info.

RJ Kimmerling, SM Prakadan, AJ Gupta, NL Calistri, MM Stevens, S Olcum, N Cermak, RS Drake1, K Pelton, FD Smet, KL Ligon, AK Shalek, SR Manalis. Linking single-cell measurements of mass, growth rate and gene expression, Genome Biology (2018). Download PDF and Suppl. Info. See also MIT News.

MR Luskin, MA Murakami, SR Manalis, DM Weinstock. Targeting minimal residual disease: a path to cure?, Nature Reviews Cancer (2018). Download PDF

AE Cetin, MM Stevens, NL Calistri, M Fulciniti, S Olcum, RJ Kimmerling, NC Munshi, SR Manalis. Determining therapeutic susceptibility in multiple myeloma by single-cell mass accumulation, Nature Communications (2017). Download PDF and Suppl. Info. See also MIT News.

MA Stockslager, JS Bagnall, VC Hecht, K Hu, E Aranda-Michel, K Payer, RJ Kimmerling, SR Manalis. Microfluidic platform for characterizing TCR–pMHC interactions, Biomicrofluidics (2017). Download PDF.

N Cermak, JW Becker, SM Knudsen, SW Chisholm, SR Manalis, MF Polz. Direct single-cell biomass estimates for marine bacteria via Archimedes’ principle, International Society for Microbial Ecology Journal (2017). Download PDF.

MM Stevens, CL Maire, N Chou, M Murakami, D Knoff, Y Kikuchi, RJ Kimmerling, H Liu, S Haidar, NL Calistri, N Cermak, S Olcum, N Cordero, A Idbaih, PY Wen, DM Weinstock, KL Ligon, SR Manalis. Drug sensitivity of single cancer cells is predicted by changes in mass accumulation rate, Nature Biotechnology (2016). Download PDF and Suppl. Info. See also MIT News.

N Cermak, S. Olcum, FF Delgado, SC Wasserman, KR Payer, M Murakami, SM Knudsen, RJ Kimmerling, MM Stevens, Y Kikuchi, A Sandikci, M Ogawa, V Agache, F Baléras, DM Weinstock, SR Manalis. High-throughput single-cell growth measurements via serial microfluidic mass sensor arrays, Nature Biotechnology (2016). Download PDF and Suppl. Info. See also MIT News.

JS Bagnall, S Byun, DT Miyamoto, JH Kang, S Maheswaran, SL Stott, M Toner, SR Manalis. Deformability-based cell selection with downstream immunofluorescence analysis, Integrated Biology (2016). Download PDF.

AM Hosios, VC Hecht, LV Danai, MO Johnson, JC Rathmell, ML Steinhauser, SR Manalis, MG Vander Heiden. Amino Acids Rather than Glucose Account for the Majority of Cell Mass in Proliferating Mammalian Cells, Developmental Cell (2016). Download PDF and Suppl. Info.

VC Hecht, LB Sullivan, R Kimmerling, DH Kim, AM Hosios, M Stevens, JH Kang, D Wirtz, MG Vander Heiden, SR Manalis. Biophysical changes reduce energetic demand in growth factor-deprived lymphocytes, Journal of Cell Biology (2016). Download PDF and Suppl. Info. See also JCB In Focus.

RJ Kimmerling, GL Szeto, JW Li, AS Genshaft, SW Kazer, KP Payer, JD Borrajo, JC Blainey, DJ Irvine, AK Shalek, SR Manalis. A microfluidic platform enabling single cell RNA-seq of multigenerational lineages, Nature Communications (2016). Download PDF and Suppl. Info. See also MIT News.

SM Knudsen, N Cermak, FF Delgado, B Setlow, P Setlow, SR Manalis. Water and Small Molecule Permeation of Dormant Bacillus subtilis Spores, Journal of Bacteriology (2016). Download PDF and Suppl. Info.

S Son, M Stevens, HX Chao, C Thoreen, AM Hosios, Y Weng, K Wood, D Sabatini, MG Vander Heiden, SR Manalis. Cooperative nutrient accumulation sustains growth of mammalian cells, Scientific Reports (2015). Download PDF and Suppl. Info.

JS Bagnall, S Byun, S Begum, DT Miyamoto, VC Hecht, S Maheswaran, SL Stott, M Toner, RO Hynes, SR Manalis. Deformability of Tumor Cells versus Blood Cells, Scientific Reports (2015). Download PDF and Suppl. Info.

S Son, JH Kang, S Oh, MW Kirschner, TJ Mitchison, SR Manalis. Resonant microchannel volume and mass measurements show that suspended cells swell during mitosis, Journal of Cell Biology (2015). Download PDF and Suppl. Info. JCB Comment: Mitosis is Swell

S Byun, VC Hecht, SR Manalis. Characterizing cellular biophysical responses to environmental stresses by relating density, deformability and size, Biophysical Journal (2015). Download PDF and Suppl. Info.

S. Olcum, N. Cermak, S.C. Wasserman, S.R. Manalis. High-speed multiple-mode mass-sensing resolves dynamic nanoscale mass distributions, Nature Communications (2015). Download PDF and Suppl. Info. See also MIT News.

R. Malka, F.F. Delgado, S.R. Manalis, J.M. Higgins. In Vivo Volume and Hemoglobin Dynamics of Human Red Blood Cells. PLoS Computational Biology (2014). Download PDF.

S. Olcum, N. Cermak, S.C. Wasserman, K.S. Christine, H. Atsumi, K.R. Payer, W. Shen , J. Lee, A.M. Belcher, S.N. Bhatia, S.R. Manalis. Weighing nanoparticles in solution at the attogram scale, Proceedings of the National Academy of Sciences (2014). Download PDF and Suppl. Info. See also MIT News.

A.K. Bryan, V.C. Hecht, W. Shen, K. Payer, W.H. Grover, S.R. Manalis. Measuring single cell mass, volume, and density with dual suspended microchannel resonators. Lab on a chip (2014). Download PDF. See also Suppl. Info.

F.F. Delgado, N. Cermak, V.C. Hecht, S. Son, Y. Li, S.M. Knudsen, S. Olcum, J.M. Higgins, J. Chen, W.H. Grover, S.R. Manalis. Intracellular water exchange for measuring the dry mass, water mass and changes in chemical composition of living cells. PLoS ONE (2013). Download PDF. See also Suppl. Info.

A.I. Goranov, A. Gulati, N. Dephoure, T. Takahara, T. Maeda, S.P. Gygi, S.R. Manalis, A. Amon. Changes in Cell Morphology Are Coordinated with Cell Growth through the TORC1 Pathway. Current Biology (2013). Download PDF.

S. Byun, S. Son, D. Amodei, N. Cermak, J. Shaw, J.H. Kang, V.C. Hecht, M.W. Winslow, T. Jacks, P. Mallick and S.R Manalis. Characterizing deformability and surface friction of cancer cells, Proceedings of the National Academy of Sciences (2013). Download PDF. See also MIT News.

S. Son, A. Tzur, Y. Weng, P. Jorgensen, J. Kim, M.W. Kirschner, S.R. Manalis. Direct observation of mammalian cell growth and size regulation, Nature Methods (2012). Download PDF. See also MIT News. Highlight in Nature Methods.

J. Shaw, K. Payer, S. Son, W.H. Grover, S.R. Manalis. A microfluidic ''baby machine'' for cell synchronization, Lab on a chip (2012). Download PDF.

S.M. Knudsen, M.G. von Muhlen, S.R. Manalis. Quantifying Particle Coatings Using High-Precision Mass Measurements, Analytical Chemistry (2012). Download PDF.

A.K. Bryan, A. Engler, A. Gulati, S.R. Manalis. Continuous and Long-Term Volume Measurements with a Commercial Coulter Counter, PloS ONE (2012). Download PDF.

W.H. Grover, A.K Bryan, M. Diez-Silva, S. Suresh, J.M. Higgins, S.R. Manalis. Measuring single-cell density, Proceedings of the National Academy of Sciences (2011). Download PDF. Animation. See also MIT News.

Y.C. Weng, F.F. Delgado, S. Son, T.P. Burg, S.C. Wasserman, S.R. Manalis. Mass sensors with mechanical traps for weighing single cells in different fluids, Lab on a chip (2011). Download PDF.

J. Lee, R. Chunara, W. Shen, K. Payer, K. Babcock, T. P. Burg, S.R. Manalis. Suspended microchannel resonators with piezoresistive sensors, Lab on a chip (2011). Download PDF.

J. Lee, A.K. Bryan, S.R. Manalis. Second eigenmode operation of suspended microchannel resonators for high precision flow-through mass sensing, Review of Scientific Instruments (2011). Download PDF.

P. Dextras, K.R. Payer, T.P. Burg, W. Shen, Y.C. Wang, J. Han, S.R. Manalis. Fabrication and Characterization of an Integrated Microsystem for Protein Preconcentration and Sensing, IEEE Journal of Microelectromechanical Systems (2011). Download PDF.

J.E. Sader, J. Lee, S.R. Manalis. Energy dissipation in microfluidic beam resonators: Dependence on mode number, Journal of Applied Physics (2010). Download PDF.

J. Lee, W. Shen, K. Payer, T.P. Burg , S.R. Manalis. Toward attogram mass measurements in solution with suspended nanochannel resonators, Nano Letters (2010). Download PDF.

M. Godin, F.F. Delgado, S. Son, W.H. Grover, A.K. Bryan, A. Tzur, P. Jorgensen, K. Payer, A.D. Grossman, M.W. Kirschner, S.R. Manalis. Using buoyant mass to measure the growth of single cells, Nature Methods (2010). Download PDF. See also News & Views and highlight in Nature Biotechnology.

M.G. von Muhlen, N.D. Brault, S.M. Knudsen, S. Jiang, S.R. Manalis. Label-Free Biomarker Sensing in Undiluted Serum with Suspended Microchannel Resonators, Analytical Chemistry (2010). Download PDF.

J.E. Sader, T.P. Burg, S.R. Manalis. Energy Dissipation in Microfluidic Beam Resonators. Journal of Fluid Mechanics (2010). Download PDF.

A.K. Bryan, A. Goranov, A. Amon, S.R. Manalis. Measurement of Mass, Density, and Volume During the Cell Cycle of Yeast, Proceedings of the National Academy of Sciences (2009). Download PDF.

S.M. Knudsen, M. von Muhlen, D.B. Schauer, S.R. Manalis. Determination of Bacterial Antibiotic Resistance Based on Osmotic Shock Response. Analytical Chemistry (2009). Download PDF.

R. Datar, S. Kim, S. Jeon, P. Hesketh, S. Manalis, A. Boisen, T. Thundat. Cantilever Sensors: Nanomechanical Tools for Diagnostics. MRS Bulletin (2009). Download PDF.

T.P. Burg, J.E. Sader, S.R. Manalis. Nonmonotonic Energy Dissipation in Microfluidic Resonators. Physical Review Letters (2009). Download PDF.

P. Dextras, T.P. Burg, S.R. Manalis. Integrated Measurement of the Mass and Surface Charge of Discrete Microparticles Using a Suspended Microchannel Resonator. Analytical Chemistry (2009). Download PDF.

S. Son, W.H. Grover, T.P. Burg, S.R. Manalis. Suspended microchannel resonators for ultra-low volume universal detection. Analytical Chemistry (2008). Download PDF.

T.M. Squires, R.J. Messinger, S.R. Manalis. Making it stick: convection, reaction, and diffusion in surface based biosensors. Nature Biotechnology, 26 417 (2008). Download PDF. See also Suppl. Info.

W.H. Grover, M. von Muhlen, S.R. Manalis. Teflon films for chemically-inert microfluidic valves and pumps. Lab on a chip, 8 913 (2008). Download PDF.

R. Chunara, M. Godin, S. M. Knudsen, S.R. Manalis. Mass-based readout for agglutination assays. Applied Physics Letters, 91 193902 (2007). Download PDF.

M. Godin, A.K. Bryan, T. Burg, K. Babcock, S.R. Manalis. Measuring the mass, density and size of particles and cells using a suspended microchannel resonator. Applied Physics Letters, 91 123121 (2007). Download PDF.

T.P. Burg, M.Godin, S.M. Knudsen, W. Shen, G. Carlson, J.S. Foster, K. Babcock, and S.R. Manalis. Weighing of Biomolecules, Single Cells, and Single Nanoparticles in Fluid. Nature, 446 1066 (2007). Download PDF. See also News & Views.

J. Hou, M. Godin, K. Payer, R. Chakrabarti, S.R. Manalis. Integrated Microelectronic Device for Label-free Nucleic Acid Amplification and Detection. Lab on a Chip, 7 347 (2007). Download PDF.

N. Milovic, J. Behr, M. Godin, C.J. Hou, K.R. Payer, A. Chandrasekaran, P.R. Russo, R. Sasisekharan, S.R. Manalis. Monitoring of Heparin and Its Low Molecular Weight Analogs by Silicon Field Effect. Proceedings of the National Academy of Sciences, 103 13374 (2006). Download PDF.

M. Shusteff, T.P. Burg, S.R. Manalis. Measuring Boltzmann's constant with a low-cost atomic force microscope: an undergraduate experiment. American Journal of Physics, 74 873 (2006). Download PDF.

T.P. Burg, A.R. Mirza, N. Milovic, C.H. Tsau, G.A. Popescu, J.S. Foster, S.R. Manalis. Vacuum-Packaged Suspended Microchannel Resonant Mass Sensor for Biomolecular Detection. IEEE Journal of Microelectromechanical Systems, online (2006). Download PDF.

A.W. Sparks and S.R. Manalis. Atomic force microscopy with inherent disturbance suppression for nanostructure imaging. Nanotechnology, 17 1574 (2006). Download PDF.

C.J. Hou, N. Milovic, M. Godin, P.R. Russo, R. Chakrabarti, S.R. Manalis. Label-free Microelectronic PCR Quantification. Analytical Chemistry, 78 2526 (2006). Download PDF.

A.W. Sparks and S.R. Manalis. Scanning probe microcopy with inherent disturbance suppression. Applied Physics Letters, 85 3929 (2004). Download PDF.

C.A. Savran. S.M. Knudson, A.D. Ellington, S.R. Manalis. Micromechanical detection of proteins using aptamer-based receptor molecules. Analytical Chemistry, 76 3194 (2004). Download PDF.

T.P. Burg and S.R. Manalis. Suspended microchannel resonators for biomolecular detection. Applied Physics Letters, 83 2698 (2003). Download PDF.

C.A. Savran, T.P. Burg, J. Fritz, and S.R. Manalis. Microfabricated mechanical biosensor with inherently differential readout. Applied Physics Letters, 83 1659 (2003). Download PDF.

J. Fritz, E.B. Cooper, S. Gaudet, P.K. Sorger, and S.R. Manalis. Electronic detection of DNA by its intrinsic molecular charge. Proceedings of the National Academy of Sciences, 99 14142 (2002). Download PDF.

C.A. Savran, A.W. Sparks, J. Sihler, J. Li, W. Wu, D. Berlin, J. Fritz, M.A. Schmidt, and S.R. Manalis. Fabrication and characterization of a micromechanical sensor for differential detection of nanoscale motions. IEEE Journal of Microelectromechanical Systems, 11 703 (2002). Download PDF.

N.C. Loh, M.A. Schmidt, and S.R. Manalis. Sub-10 cm3 interferometric accelerometer with nano-g resolution. IEEE Journal of Microelectromechanical Systems, 11 182 (2002). Download PDF.

E. B. Cooper, J. Fritz, G. Wiegand, P. Wagner and S. R. Manalis. A robust microfabricated field-effect sensor for monitoring molecular adsorption in liquids. Applied Physics Letters, 79 3875 (2001). Download PDF.

Y.Gotoh, K. Matsumoto, T. Maeda, E. B. Cooper, S.R. Manalis, H. Fang, S.C. Minne, T. Hunt, H. Dai, J. Harris, C.F. Quate. Experimental and theoretical results of room-temperature single-electron transistor formed by the atomic force microscope nano-oxidation process. Journal of Vacuum Science Technology, 18 1321 (2000). Download PDF.

S.R. Manalis, E.B. Cooper, P.F. Indermuhle, P. Kernen, P. Wagner, D.G. Hafeman, S.C. H. Dai, S.C. Minne, C.F. Quate. Microvolume field-effect pH sensor for the scanning probe microscope. Applied Physics Letters, 76 1072 (2000). Download PDF.

E.B. Cooper, E.R. Post, S. Griffith, J. Levitan, S.R. Manalis, M.A. Schmidt, C.F. Quate. A high-sensitivity micromachined interferometric accelerometer. Applied Physics Letters, 76 3316 (2000). Download PDF.

E.B. Cooper, S.R. Manalis, H. Fang, H. Dai, K. Matsumoto, S.C. Minne, T. Hunt, C.F. Quate. Terabit-per-square-inch data storage with the atomic force microscope. Applied Physics Letters, 75 3566 (1999). Download PDF.