Review of methods to probe single cell metabolism and bioenergetics

Metabolic Engineering

Volumn 27, Issue , 2015, Pages 115-135

  Vasdekis, Andreas E ^a,c   Stephanopoulos, Gregory ^b  

^a PACIFIC NORTHWEST NATIONAL LABORATORY   (United States)

^b Massachusetts Institute of Technology Cambridge   (United States)

^c UNIVERSITY OF IDAHO   (United States)

Author keywords

Bioenergetics; Metabolism; Microfluidics; Microscopy; Single cell analysis

Indexed keywords

BIOCHEMISTRY; CELL CULTURE; CELLS; MASS SPECTROMETRY; METABOLIC ENGINEERING; MICROFLUIDICS; MICROSCOPIC EXAMINATION; PHYSIOLOGY;

BIOENERGETICS; BIOLOGICAL NOISE; CELL SUSPENSION; DYNAMIC APPROACHES; FLUORESCENCE MICROSPECTROSCOPY; PHENOTYPIC SWITCHING; SINGLE CELLS; SINGLECELL ANALYSIS;

METABOLISM;

ACOUSTICS; BIOENERGY; CELL FUNCTION; CELL ISOLATION; CELL MANIPULATION; CELL METABOLISM; CELL SUSPENSION; CHEMOSTAT; ENCAPSULATION; FLOW CYTOMETER; FLOW CYTOMETRY; FLUORESCENCE ACTIVATED CELL SORTER; FLUORESCENCE ACTIVATED CELL SORTING; FLUORESCENCE SPECTROSCOPY; HUMAN; HYDRODYNAMICS; HYDROGEL; IMMOBILIZED CELL; LABORATORY DEVICE; MASS SPECTROMETRY; MECHANICAL PROBE; METABOLIC ENGINEERING; MICROANALYSIS; MICROBIOLOGY; MICROFLUIDICS; MICROMANIPULATION; MICROPIPETTE; MICROSCOPY; MICROTECHNOLOGY; MICROWELL PLATE; MOLECULAR PROBE; NANOPROBE; NANOTECHNOLOGY; NONHUMAN; NUCLEAR MAGNETIC RESONANCE; OPTICAL TWEEZERS; PROCEDURES CONCERNING CELLS; RADIATION SCATTERING; SHORT SURVEY; SINGLE CELL ANALYSIS; CYTOLOGY; ENERGY METABOLISM; METABOLISM;

CELLS, IMMOBILIZED; ENERGY METABOLISM;

EID: 84916931896     PISSN: 10967176     EISSN: 10967184     Source Type: Journal    
DOI: 10.1016/j.ymben.2014.09.007     Document Type: Short Survey

References (363)

1. Acar M., Becskei A., van Oudenaarden A. Enhancement of cellular memory by reducing stochastic transitions. Nature 2005, 435(7039):228-232.
2. Agresti J.J., et al. Ultrahigh-throughput screening in drop-based microfluidics for directed evolution. Proc. Natl. Acad. Sci. USA 2010, 107(9):4004-4009.
3. Aharoni A., et al. High-throughput screening of enzyme libraries: thiolactonases evolved by fluorescence-activated sorting of single cells in emulsion compartments. Chem. Biol. 2005, 12(12):1281-1289.
4. Ahluwalia B.S., et al. Optical trapping and propulsion of red blood cells on waveguide surfaces. Opt. Express 2010, 18(20):21053-21061.
5. Andersson H., van den Berg A. Microfluidic devices for cellomics: a review. Sens. Actuators B - Chem. 2003, 92(3):315-325.
6. Arai F., et al. On chip single-cell separation and immobilization using optical tweezers and thermosensitive hydrogel. Lab on a Chip 2005, 5(12):1399-1403.
7. Asher S.A. UV resonance Raman studies of molecular-structure and dynamics: applications in physical and biophysical chemistry. Annu. Rev. Phys. Chem. 1988, 39:537-588.
8. Ashkin A. Acceleration and trapping of particles by radiation pressure. Phys. Rev. Lett. 1970, 24(4):156.
9. Ashkin A., Dziedzic J.M. Optical trapping and manipulation of viruses and bacteria. Science 1987, 235(4795):1517-1520.
10. Ashkin A., et al. Observation of a single beam gradient force optical trap for dielectric particles. Opt. Lett. 1986, 11(5):288-290.
11. Ashok P.C., Dholakia K. Optical trapping for analytical biotechnology. Curr. Opin. Biotechnol. 2012, 23(1):16-21.
12. Avesar J., Arye T.B., Levenberg S. Frontier microfluidic techniques for short and long-term single cell analysis. Lab on a Chip 2014, 14:2161-2167.
13. Bacia K., Kim S.A., Schwille P. Fluorescence cross-correlation spectroscopy in living cells. Nat. Methods 2006, 3(2):83-89.
14. Baker N.V. Segregation and sedimentation of red blood cells in ultrasonic standing waves. Nature 1972, 239(5372):398.
15. Balaban N.Q., et al. Bacterial persistence as a phenotypic switch. Science 2004, 305(5690):1622-1625.
16. Balagadde F.K., et al. Long-term monitoring of bacteria undergoing programmed population control in a microchemostat. Science 2005, 309(5731):137-140.
17. Baret J.-C., et al. Fluorescence-activated droplet sorting (FADS): efficient microfluidic cell sorting based on enzymatic activity. Lab on a Chip 2009, 9(13):1850-1858.
18. Barinov A., et al. Synchrotron-based photoelectron microscopy. Nucl. Instrum. Methods Phys. Res. Sect. A - Accel. Spectrom. Detect. Assoc. Equip. 2009, 601(1-2):195-202.
19. Barnett D., et al. CD4 immunophenotyping in HIV infection. Nat. Rev. Microbiol. 2008, 6(11):S7-S15.
20. Bart J., et al. A microfluidic high-resolution NMR flow probe. J. Am. Chem. Soc. 2009, 131(14):5014.
21. Bassnett S., Reinisch L., Beebe D.C. Intracellular pH measurement using single excitation - dual emission fluorescence ratios. Am. J. Physiol. 1990, 258(1):C171-C178.
22. Bazou D., Kuznetsova L.A., Coakley W.T. Physical environment of 2-D animal cell aggregates formed in a short pathlength ultrasound standing wave trap. Ultrasound Med. Biol. 2005, 31(3):423-430.
23. Bearinger J.P., et al. Chemical tethering of motile bacteria to silicon surfaces. Biotechniques 2009, 46(3):209.
24. Becker W., et al. Fluorescence lifetime imaging by time-correlated single-photon counting. Microsc. Res. Tech. 2004, 63(1):58-66.
25. Beetz T., Jacobsen C. Soft X-ray radiation-damage studies in PMMA using a cryo-STXM. J. Synchrotron Radiat. 2003, 10:280-283.
26. Bell L., et al. A microfluidic device for the hydrodynamic immobilisation of living fission yeast cells for super-resolution imaging. Sens. Actuators B - Chem. 2014, 192:36-41.
27. Belousov V.V., et al. Genetically encoded fluorescent indicator for intracellular hydrogen peroxide. Nat. Methods 2006, 3(4):281-286.
28. Bendall S.C., et al. Single-cell mass cytometry of differential immune and drug responses across a human hematopoietic continuum. Science 2011, 332(6030):687-696.
29. Bennett M.R., Hasty J. Microfluidic devices for measuring gene network dynamics in single cells. Nat. Rev. Genet. 2009, 10(9):628-638.
30. Bennett M.R., et al. Metabolic gene regulation in a dynamically changing environment. Nature 2008, 454(7208):1119-1122.
31. Binder D., et al. Light-responsive control of bacterial gene expression: precise triggering of the lac promoter activity using photocaged IPTG. Integr. Biol. 2014, 6:755-765. 10.1039/C4IB00027G.
32. Blake W.J., et al. Noise in eukaryotic gene expression. Nature 2003, 422(6932):633-637.
33. Borland L.M., et al. Chemical analysis of single cells. Annu. Rev. Anal. Chem. 2008, 1:191-227.
34. Bottier C., et al. Dynamic measurement of the height and volume of migrating cells by a novel fluorescence microscopy technique. Lab on a Chip 2011, 11(22):3855-3863.
35. Braschler T., et al. Gentle cell trapping and release on a microfluidic chip by in situ alginate hydrogel formation. Lab on a Chip 2005, 5(5):553-559.
36. Bratosin D., et al. Novel fluorescence assay using calcein-AM for the determination of human erythrocyte viability and aging. Cytometry Part A 2005, 66A(1):78-84.
37. Brauchle E., Schenke-Layland K. Raman spectroscopy in biomedicine - non-invasive in vitro analysis of cells and extracellular matrix components in tissues. Biotechnol. J. 2013, 8(3):288-297.
38. Brehm-Stecher B.F., Johnson E.A. Single-cell microbiology: tools, technologies, and applications. Microbiol. Mol. Biol. Rev. 2004, 68(3):538.
39. Brouzes E., et al. Droplet microfluidic technology for single-cell high-throughput screening. Proc. Natl. Acad. Sci. USA 2009, 106(34):14195-14200.
40. Bryan A.K., et al. Continuous and long-term volume measurements with a commercial Coulter counter. PLoS One 2012, 7(1):1-8.
41. Burg T.P., et al. Weighing of biomolecules, single cells and single nanoparticles in fluid. Nature 2007, 446(7139):1066-1069.
42. Cai L., Friedman N., Xie X.S. Stochastic protein expression in individual cells at the single molecule level. Nature 2006, 440(7082):358-362.
43. Camden J.P., et al. Controlled plasmonic nanostructures for surface-enhanced spectroscopy and sensing. Acc. Chem. Res. 2008, 41(12):1653-1661.
44. Carlquist M., et al. Physiological heterogeneities in microbial populations and implications for physical stress tolerance. Microb. Cell Fact. 2012, 11:1-13.
45. Carlson R.H., et al. Self-sorting of white blood cells in a lattice. Phys. Rev. Lett. 1997, 79(11):2149-2152.
46. Chalfie M., et al. Green fluorescent protein as a marker for gene expression. Science 1994, 263(5148):802-805.
47. Chan K.L.A., Kazarian S.G. New opportunities in micro- and macro-attenuated total reflection infrared spectroscopic imaging: spatial resolution and sampling versatility. Appl. Spectrosc. 2003, 57(4):381-389.
48. Charnley M., et al. Integration column: microwell arrays for mammalian cell culture. Integr. Biol. 2009, 1(11-12):625-634.
49. Chen D., Huang S.-s., Li Y.-Q. Real-time detection of kinetic germination and heterogeneity of single Bacillus spores by laser tweezers Raman spectroscopy. Anal. Chem. 2006, 78(19):6936-6941.
50. Cheng J.X., Xie X.S. Coherent anti-Stokes Raman scattering microscopy: instrumentation, theory, and applications. J. Phys. Chem. B 2004, 108(3):827-840.
51. Chiou P.Y., Ohta A.T., Wu M.C. Massively parallel manipulation of single cells and microparticles using optical images. Nature 2005, 436(7049):370-372.
52. Chumnanpuen P., et al. Lipid biosynthesis monitored at the single-cell level in Saccharomyces cerevisiae. Biotechnol. J. 2012, 7(5):594-601.
53. Connell J.L., et al. Probing prokaryotic social behaviors with bacterial "Lobster Traps". Mbio 2010, 1:4.
54. Cookson S., et al. Monitoring dynamics of single-cell gene expression over multiple cell cycles. Mol. Syst. Biol. 2005, 1:1-6.
55. Corbin E.A., et al. Micro-patterning of mammalian cells on suspended MEMS resonant sensors for long-term growth measurements. Lab on a Chip 2014, 14(8):1401-1404.
56. Cosson S., Lutolf M.P. Hydrogel microfluidics for the patterning of pluripotent stem cells. Sci. Rep. 2014, 4:1-6.
57. Cotte Y., et al. Marker-free phase nanoscopy. Nat. Photon. 2013, 7(2):113-117.
58. Coulter W.H. High speed automatic blood cell counter and cell size analyzer. Proc. Natl. Electron. Conf. 1956, 12:1034-1040.
59. Croslandtaylor P.J. A device for counting small particles suspended in a fluid through a tube. Nature 1953, 171(4340):37-38.
60. Cui X., et al. Lensless high-resolution on-chip optofluidic microscopes for Caenorhabditis elegans and cell imaging. Proc. Natl. Acad. Sci. USA 2008, 105(31):10670-10675.
61. de Mello A.J., Beard N. Dealing with 'real' samples: sample pre-treatment in microfluidic systems. Lab on a Chip 2003, 3(1):11N-19N.
62. Dean K.M., Palmer A.E. Advances in fluorescence labeling strategies for dynamic cellular imaging. Nat. Chem. Biol. 2014, 10:512-523.
63. Denervaud N., et al. A chemostat array enables the spatio-temporal analysis of the yeast proteome. Proc. Natl. Acad. Sci. USA 2013, 110(39):15842-15847.
64. Deniset-Besseau A., et al. Monitoring triacylglycerols accumulation by atomic force microscopy based infrared spectroscopy in Streptomyces species for biodiesel applications. J. Phys. Chem. Lett. 2014, 5(4):654-658.
65. Denk W., Strickler J.H., Webb W.W. 2-Photon laser scanning fluorescence microscopy. Science 1990, 248(4951):73-76.
66. Deutsch M., et al. A novel miniature cell retainer for correlative high-content analysis of individual untethered non-adherent cells. Lab on a Chip 2006, 6(8):995-1000.
67. Di Carlo D., Wu L.Y., Lee L.P. Dynamic single cell culture array. Lab on a Chip 2006, 6(11):1445-1449.
68. Didar T.F., Tabrizian M. Adhesion based detection, sorting and enrichment of cells in microfluidic Lab-on-Chip devices. Lab on a Chip 2010, 10(22):3043-3053.
69. Digman M.A., et al. The phasor approach to fluorescence lifetime imaging analysis. Biophys. J. 2008, 94(2):L14-L16.
70. Ding X., et al. On-chip manipulation of single microparticles, cells, and organisms using surface acoustic waves. Proc. Natl. Acad. Sci. USA 2012, 109(28):11105-11109.
71. Doudkine A., et al. Nuclear texture measurements in image cytometry. Pathologica 1995, 87(3):286-299.
72. Doughty D.M., et al. Probing the subcellular localization of hopanoid lipids in bacteria using NanoSIMS. PLoS One 2014, 9(1):1-8.
73. Douglas E.S., et al. DNA-barcode directed capture and electrochemical metabolic analysis of single mammalian cells on a microelectrode array. Lab on a Chip 2009, 9(14):2010-2015.
74. Dragavon J., et al. A cellular isolation system for real-time single-cell oxygen consumption monitoring. J. R. Soc. Interface 2008, 5:S151-S159.
75. Dusny C., et al. Isolated microbial single cells and resulting micropopulations grow faster in controlled environments. Appl. Environ. Microbiol. 2012, 78(19):7132-7136.
76. Edd J.F., et al. Controlled encapsulation of single-cells into monodisperse picolitre drops. Lab on a Chip 2008, 8(8):1262-1264.
77. Eriksson E., et al. Optical manipulation and microfluidics for studies of single cell dynamics. J. Opt. A - Pure Appl. Opt. 2007, 9(8):S113-S121.
78. Eun Y.-J., et al. Encapsulating bacteria in agarose microparticles using microfluidics for high-throughput cell analysis and isolation. ACS Chem. Biol. 2011, 6(3):260-266.
79. Evander M., et al. Noninvasive acoustic cell trapping in a microfluidic perfusion system for online bioassays. Anal. Chem. 2007, 79(7):2984-2991.
80. Eyer K., et al. A microchamber array for single cell isolation and analysis of intracellular biomolecules. Lab on a Chip 2012, 12(4):765-772.
81. Eyer K., et al. Implementing enzyme-linked immunosorbent assays on a microfluidic chip to quantify intracellular molecules in single cells. Anal. Chem. 2013, 85(6):3280-3287.
82. Falconnet D., et al. High-throughput tracking of single yeast cells in a microfluidic imaging matrix. Lab on a Chip 2011, 11(3):466-473.
83. Fan H.C., et al. Whole-genome molecular haplotyping of single cells. Nat. Biotechnol. 2011, 29(1):51.
84. Freudiger C.W., et al. Label-free biomedical imaging with high sensitivity by stimulated Raman scattering microscopy. Science 2008, 322(5909):1857-1861.
85. Friend J., Yeo L.Y. Microscale acoustofluidics: microfluidics driven via acoustics and ultrasonics. Rev. Mod. Phys. 2011, 83(2):647-704.
86. Fu A.Y., et al. A microfabricated fluorescence-activated cell sorter. Nat. Biotechnol. 1999, 17(11):1109-1111.
87. Fu D., et al. Quantitative chemical imaging with multiplex stimulated Raman scattering microscopy. J. Am. Chem. Soc. 2012, 134(8):3623-3626.
88. Fu D., et al. Imaging the intracellular distribution of tyrosine kinase inhibitors in living cells with quantitative hyperspectral stimulated Raman scattering. Nat. Chem. 2014, 6:614-622.
89. Gach P.C., et al. Isolation and manipulation of living adherent cells by micromolded magnetic rafts. Biomicrofluidics 2011, 5(3).
90. Gaffield M.A., Betz W.J. Imaging synaptic vesicle exocytosis and endocytosis with FM dyes. Nat. Protoc. 2006, 1(6):2916-2921.
91. Galler K., et al. Making a big thing of a small cell - recent advances in single cell analysis. Analyst 2014, 139(6):1237-1273.
92. Garstecki P., et al. Formation of droplets and bubbles in a microfluidic T-junction - scaling and mechanism of break-up. Lab on a Chip 2006, 6(3):437-446.
93. Gawad S., et al. Dielectric spectroscopy in a micromachined flow cytometer: theoretical and practical considerations. Lab on a Chip 2004, 4(3):241-251.
94. Giepmans B.N.G., et al. Review - the fluorescent toolbox for assessing protein location and function. Science 2006, 312(5771):217-224.
95. Gisselson L.A., Graneli E., Pallon J. Variation in cellular nutrient status within a population of Dinophysis norvegica (Dinophyceae) growing in situ: single-cell elemental analysis by use of a nuclear microprobe. Limnol. Oceanogr. 2001, 46(5):1237-1242.
96. Gobaa S., et al. Artificial niche microarrays for probing single stem cell fate in high throughput. Nat. Methods 2011, 8(11):949-955.
97. Godin M., et al. Using buoyant mass to measure the growth of single cells. Nat. Methods 2010, 7(5):387-390.
98. Goff K.L., Quaroni L., Wilson K.E. Measurement of metabolite formation in single living cells of Chlamydomonas reinhardtii using synchrotron Fourier-Transform Infrared spectromicroscopy. Analyst 2009, 134(11):2216-2219.
99. Govender T., et al. BODIPY staining, an alternative to the Nile Red fluorescence method for the evaluation of intracellular lipids in microalgae. Bioresour. Technol. 2012, 114:507-511.
100. Grant S.C., et al. NMR spectroscopy of single neurons. Magn. Reson. Med. 2000, 44(1):19-22.
101. Gratton E., et al. Fluorescence lifetime imaging for the two-photon microscope: time-domain and frequency-domain methods. J. Biomed. Opt. 2003, 8(3):381-390.
102. Groisman A., et al. A microfluidic chemostat for experiments with bacterial and yeast cells. Nat. Methods 2005, 2(9):685-689.
103. Gruenberger A., et al. A disposable picolitre bioreactor for cultivation and investigation of industrially relevant bacteria on the single cell level. Lab on a Chip 2012, 12(11):2060-2068.
104. Grünberger A., Wiechert W., Kohlheyer D. Single-cell microfluidics: opportunity for bioprocess development. Curr. Opin. Biotechnol. 2014, 29:15-23.
105. Guillemot G., et al. Evaluating the adhesion force between Saccharomyces cerevisiae yeast cells and polystyrene from shear-flow induced detachment experiments. Chem. Eng. Res. Des. 2007, 85(A6):800-807.
106. Guo M.T., et al. Droplet microfluidics for high-throughput biological assays. Lab on a Chip 2012, 12(12):2146-2155.
107. Gustafsson M.G.L. Nonlinear structured-illumination microscopy: wide-field fluorescence imaging with theoretically unlimited resolution. Proc. Natl. Acad. Sci. USA 2005, 102(37):13081-13086.
108. Hafi N., et al. Fluorescence nanoscopy by polarization modulation and polarization angle narrowing. Nat. Methods 2014, 11(5):579-584.
109. He B., Tan L., Regnier F. Microfabricated filters for microfluidic analytical systems. Anal. Chem. 1999, 71(7):1464-1468.
110. He M.Y., et al. Selective encapsulation of single cells and subcellular organelles into picoliter- and femtoliter-volume droplets. Anal. Chem. 2005, 77(6):1539-1544.
111. Heinemann M., Zenobi R. Single cell metabolomics. Curr. Opin. Biotechnol. 2011, 22(1):26-31.
112. Hellerer T., et al. Monitoring of lipid storage in Caenorhabditis elegans using coherent anti-Stokes Raman scattering (CARS) microscopy. Proc. Natl. Acad. Sci. USA 2007, 104(37):14658-14663.
113. Helmstetter C.E. Description of a baby machine for Saccharomyces-cervisiae. New Biol. 1991, 3(11):1089-1096.
114. Helmstetter C.E., et al. Improved bacterial baby machine - applications to Escherichia-coli K12. J. Bacteriol. 1992, 174(11):3445-3449.
115. Heo J., et al. A microfluidic bioreactor based on hydrogel-entrapped E. coli: cell viability, lysis, and intracellular enzyme reactions. Anal. Chem. 2003, 75(1):22-26.
116. Herms A., et al. Cell-to-cell heterogeneity in lipid droplets suggests a mechanism to reduce lipotoxicity. Curr. Biol. 2013, 23(15):1489-1496.
117. Hildebrand E.M. Infectivity of the fire-blight organism. Phytopathology 1937, 27:850-852.
118. Hildebrand E.M. Techniques for the isolation of single microorganisms II. Bot. Rev. 1950, 16(4):181-207.
119. Hitchcock A.P., et al. Soft X-ray spectromicroscopy of biological and synthetic polymer systems. J. Electron Spectrosc. Relat. Phenom. 2005, 144:259-269.
120. Holman H.-Y.N., et al. Real-time chemical imaging of bacterial activity in biofilms using open-channel microfluidics and synchrotron FTIR spectromicroscopy. Anal. Chem. 2009, 81(20):8564-8570.
121. Hong J., Edel J.B., deMello A.J. Micro- and nanofluidic systems for high-throughput biological screening. Drug Discov. Today 2009, 14(3-4):134-146.
122. Hong S., Pan Q., Lee L.P. Single-cell level co-culture platform for intercellular communication. Integr. Biol. 2012, 4(4):374-380.
123. Hua S.Z., Pennell T. A microfluidic chip for real-time studies of the volume of single cells. Lab on a Chip 2009, 9(2):251-256.
124. Huang B., Bates M., Zhuang X. Super-resolution fluorescence microscopy. Annu. Rev. Biochem. 2009, 78:993-1016.
125. Huang K.-W., et al. Microfluidic integrated optoelectronic tweezers for single-cell preparation and analysis. Lab on a Chip 2013, 13(18):3721-3727.
126. Huang N.-T., et al. Recent advancements in optofluidics-based single-cell analysis: optical on-chip cellular manipulation, treatment, and property detection. Lab on a Chip 2014, 14(7):1230-1245.
127. Hubbell J.A. Biomaterials in tissue engineering. Bio-Technology 1995, 13(6):565-576.
128. Huberts D.H.E.W., et al. Construction and use of a microfluidic dissection platform for long-term imaging of cellular processes in budding yeast. Nat. Protoc. 2013, 8(6):1019-1027.
129. Huebner A., et al. Quantitative detection of protein expression in single cells using droplet microfluidics. Chem. Commun. 2007, 12:1218-1220.
130. Hughes M.P. Strategies for dielectrophoretic separation in laboratory-on-a-chip systems. Electrophoresis 2002, 23(16):2569-2582.
131. Huh D., et al. Microfluidics for flow cytometric analysis of cells and particles. Physiol. Meas. 2005, 26(3):R73-R98.
132. Hunt N.C., Grover L.M. Cell encapsulation using biopolymer gels for regenerative medicine. Biotechnol. Lett. 2010, 32(6):733-742.
133. Hunt T.P., Issadore D., Westervelt R.M. Integrated circuit/microfluidic chip to programmably trap and move cells and droplets with dielectrophoresis. Lab on a Chip 2008, 8(1):81-87.
134. Ibanez A.J., et al. Mass spectrometry-based metabolomics of single yeast cells. Proc. National Acad. Sci. USA 2013, 110(22):8790-8794.
135. Ino K., et al. Cell culture arrays using magnetic force-based cell patterning for dynamic single cell analysis. Lab on a Chip 2008, 8(1):134-142.
136. Jang K., et al. Surface modification by 2-methacryloyloxyethyl phosphorylcholine coupled to a photolabile linker for cell micropatterning. Biomaterials 2009, 30(7):1413-1420.
137. Jang K., et al. Single-cell attachment and culture method using a photochemical reaction in a closed microfluidic system. Biomicrofluidics 2010, 4(3):1-8.
138. Jeorrett A.H., et al. Optoelectronic tweezers system for single cell manipulation and fluorescence imaging of live immune cells. Opt. Express 2014, 22(2):1372-1380.
139. Jiang X.Y., et al. Electrochemical desorption of self-assembled monolayers noninvasively releases patterned cells from geometrical confinements. J. Am. Chem. Soc. 2003, 125(9):2366-2367.
140. Kalisky T., Quake S.R. Single-cell genomics. Nat. Methods 2011, 8(4):311-314.
141. Kalyuzhnaya M.G., Lidstrom M.E., Chistoserdova L. Real-time detection of actively metabolizing microbes by redox sensing as applied to methylotroph populations in Lake Washington. ISME J. 2008, 2(7):696-706.
142. Kamei K.-I., et al. Microfluidic image cytometry for quantitative single-cell profiling of human pluripotent stem cells in chemically defined conditions. Lab on a Chip 2010, 10(9):1113-1119.
143. Kang A., et al. Cell encapsulation via microtechnologies. Biomaterials 2014, 35(9):2651-2663.
144. Karimi A., Yazdi S., Ardekani A.M. Hydrodynamic mechanisms of cell and particle trapping in microfluidics. Biomicrofluidics 2013, 7(2):1-23.
145. Kaufmann B.B., et al. Heritable stochastic switching revealed by single-cell genealogy. PLoS Biol. 2007, 5(9):1973-1980.
146. Kaya T., et al. Monitoring the cellular activity of a cultured single cell by scanning electrochemical microscopy (SECM). A comparison with fluorescence viability monitoring. Biosens. Bioelectron. 2003, 18(11):1379-1383.
147. Kazarian S.G., Chan K.L.A. ATR-FTIR spectroscopic imaging: recent advances and applications to biological systems. Analyst 2013, 138(7):1940-1951.
148. Keller P.J., et al. Fast, high-contrast imaging of animal development with scanned light sheet-based structured-illumination microscopy. Nat. Methods 2010, 7(8):637-642.
149. Kentner, D., Sourjik, V., 2010. Use of fluorescence microscopy to study intracellular signaling in bacteria. In: Gottesman, S., Harwood, C.S. (Eds.), Annual Review of Microbiology, vol. 64, pp. 373-390.
150. Khademhosseini A., et al. Molded polyethylene glycol microstructures for capturing cells within microfluidic channels. Lab on a Chip 2004, 4(5):425-430.
151. Khorshidi M.A., et al. Automated analysis of dynamic behavior of single cells in picoliter droplets. Lab on a Chip 2014, 14(5):931-937.
152. Khoshmanesh K., et al. Dielectrophoretic platforms for bio-microfluidic systems. Biosens. Bioelectron. 2011, 26(5):1800-1814.
153. Kim D., et al. Electroanalytical eavesdropping on single cell communication. Anal. Chem. 2011, 83(19):7242-7249.
154. Kim H., Lee S., Kim J. Hydrodynamic trap-and-release of single particles using dual-function elastomeric valves: design, fabrication, and characterization. Microfluid. Nanofluid. 2012, 13(5):835-844.
155. Kim M.-C., et al. Programmed trapping of individual bacteria using micrometre-size sieves. Lab on a Chip 2011, 11(6):1089-1095.
156. Kim M.J., et al. High-content screening of drug-induced cardiotoxicity using quantitative single cell imaging cytometry on microfluidic device. Lab on a Chip 2011, 11(1):104-114.
157. Kintses B., et al. Microfluidic droplets: new integrated workflows for biological experiments. Curr. Opin. Chem. Biol. 2010, 14(5):548-555.
158. Kobel S.A., et al. Automated analysis of single stem cells in microfluidic traps. Lab on a Chip 2012, 12(16):2843-2849.
159. Koester S., et al. Drop-based microfluidic devices for encapsulation of single cells. Lab on a Chip 2008, 8(7):1110-1115.
160. Kohlwein S.D. The beauty of the yeast: live cell microscopy at the limits of optical resolution. Microsc. Res. Tech. 2000, 51(6):511-529.
161. Koide M., et al. An electrochemical device with microwells for determining the photosynthetic activity of a single Cyanobacterium. Sens. Actuators B - Chem. 2011, 153(2):474-478.
162. Koide M., et al. Microfluidic devices for electrochemical measurement of photosynthetic activity of Cyanobacteria microcystis cells. Anal. Sci. 2012, 28(1):69-72.
163. Konopka M.C., et al. Single cell methods for methane oxidation analysis. Methods Enzymol. 2011, 495:149-166.
164. Kovac J.R., Voldman J. Intuitive, image-based cell sorting using optofluidic cell sorting. Anal. Chem. 2007, 79(24):9321-9330.
165. Krafft C., et al. Studies on stress-induced changes at the subcellular level by Raman microspectroscopic mapping. Anal. Chem. 2006, 78(13):4424-4429.
166. Kraft M.L., et al. Phase separation of lipid membranes analyzed with high-resolution secondary ion mass spectrometry. Science 2006, 313(5795):1948-1951.
167. Kuhn P., et al. A facile protocol for the immobilisation of vesicles, virus particles, bacteria, and yeast cells. Integr. Biol. 2012, 4(12):1550-1555.
168. Kuimova M.K., Chan K.L.A., Kazarian S.G. Chemical imaging of live cancer cells in the natural aqueous environment. Appl. Spectrosc. 2009, 63(2):164-171.
169. Kamentsk L.A., Melamed M.R., Derman H. Spectrophotometer - new instrument for ultrarapid cell analysis. Science 1965, 150(3696):630.
170. Labhsetwar P., et al. Heterogeneity in protein expression induces metabolic variability in a modeled Escherichia coli population. Proc. Natl. Acad. Sci. USA 2013, 110(34):14006-14011.
171. Lagus T.P., Edd J.F. A review of the theory, methods and recent applications of high-throughput single-cell droplet microfluidics. J. Phys. D - Appl. Phys. 2013, 46(11):1-21.
172. Lakowicz J.R. Principles of Fluorescence Spectroscopy 2006, Springer Science, New York. 3rd ed.
173. Lakowicz J.R., et al. Fluorescence lifetime imaging. Anal. Biochem. 1992, 202(2):316-330.
174. Lama R.D., et al. Ultrafast detection and quantification of brain signaling molecules with carbon fiber microelectrodes. Anal. Chem. 2012, 84(19):8096-8101.
175. Lau A.Y., Lee L.P., Chan J.W. An integrated optofluidic platform for Raman-activated cell sorting. Lab on a Chip 2008, 8(7):1116-1120.
176. Lecault V., et al. High-throughput analysis of single hematopoietic stem cell proliferation in microfluidic cell culture arrays. Nat. Methods 2011, 8(7):581-586.
177. Lecault V., et al. Microfluidic single cell analysis: from promise to practice. Curr. Opin. Chem. Biol. 2012, 16(3-4):381-390.
178. Lechene C.P., et al. Quantitative imaging of nitrogen fixation by individual bacteria within animal cells. Science 2007, 317(5844):1563-1566.
179. Lee P.J., et al. A microfluidic system for dynamic yeast cell imaging. Biotechniques 2008, 44(1):91-95.
180. Lee S.C., et al. Subcellular in vivo H-1MR spectroscopy of Xenopus laevis oocytes. Biophys. J. 2006, 90(5):1797-1803.
181. Lee S.S., et al. Whole lifespan microscopic observation of budding yeast aging through a microfluidic dissection platform. Proc. Natl. Acad. Sci. USA 2012, 109(13):4916-4920.
182. Leung K., et al. A programmable droplet-based microfluidic device applied to multiparameter analysis of single microbes and microbial communities. Proc. Natl. Acad. Sci. USA 2012, 109(20):7665-7670.
183. Li M., et al. Rapid resonance Raman microspectroscopy to probe carbon dioxide fixation by single cells in microbial communities. ISME J. 2012, 6(4):875-885.
184. Lichtman J.W., Conchello J.A. Fluorescence microscopy. Nat. Methods 2005, 2(12):910-919.
185. Lieu V.H., House T.A., Schwartz D.T. Hydrodynamic tweezers: impact of design geometry on flow and microparticle trapping. Anal. Chem. 2012, 84(4):1963-1968.
186. Lincoln B., et al. Reconfigurable microfluidic integration of a dual-beam laser trap with biomedical applications. Biomed. Microdevices 2007, 9(5):703-710.
187. Liu K., et al. Cell culture chip using low-shear mass transport. Langmuir 2008, 24(11):5955-5960.
188. Liu T.-Y., et al. Functionalized arrays of Raman-enhancing nanoparticles for capture and culture-free analysis of bacteria in human blood. Nature Communications 2011, 2.
189. Long T., Ford R.M. Enhanced transverse migration of bacteria by chemotaxis in a porous T-sensor. Environ. Sci. Technol. 2009, 43(5):1546-1552.
190. Long Z., et al. Microfluidic chemostat for measuring single cell dynamics in bacteria. Lab on a Chip 2013, 13(5):947-954.
191. Lutolf M.P., et al. Perturbation of single hematopoietic stem cell fates in artificial niches. Integr. Biol. 2009, 1(1):59-69.
192. Lutz B.R., Chen J., Schwartz D.T. Hydrodynamic tweezers: 1. Noncontact trapping of single cells using steady streaming microeddies. Anal. Chem. 2006, 78(15):5429-5435.
193. Maguire Y., et al. Ultra-small-sample molecular structure detection using microslot waveguide nuclear spin resonance. Proc. Natl. Acad. Sci. USA 2007, 104(22):9198-9203.
194. Manaresi N., et al. A CMOS chip for individual cell manipulation and detection. IEEE J. Solid-State Circuits 2003, 38(12):2297-2305.
195. Mather W., et al. Streaming instability in growing cell populations. Phys. Rev. Lett. 2010, 104(20):1-4.
196. Mazutis L., et al. Single-cell analysis and sorting using droplet-based microfluidics. Nat. Protoc. 2013, 8(5):870-891.
197. Mettetal J.T., et al. Predicting stochastic gene expression dynamics in single cells. Proc. Natl. Acad. Sci. USA 2006, 103(19):7304-7309.
198. Mettetal J.T., et al. The frequency dependence of osmo-adaptation in Saccharomyces cerevisiae. Science 2008, 319(5862):482-484.
199. Mir M., et al. Optical measurement of cycle-dependent cell growth. Proc. Natl. Acad. Sci. USA 2011, 108(32):13124-13129.
200. Mizuno H., et al. Live single-cell video-mass spectrometry for cellular and subcellular molecular detection and cell classification. J. Mass Spectrom. 2008, 43(12):1692-1700.
201. Moffitt J.R., Lee J.B., Cluzel P. The single-cell chemostat: an agarose-based, microfluidic device for high-throughput, single-cell studies of bacteria and bacterial communities. Lab on a Chip 2012, 12(8):1487-1494.
202. Molter T.W., et al. A microwell array device capable of measuring single-cell oxygen consumption rates. Sens. Actuators B - Chem. 2009, 135(2):678-686.
203. Moolman M.C., et al. Electron beam fabrication of a microfluidic device for studying submicron-scale bacteria. J. Nanobiotechnol. 2013, 11:1-10.
204. Mortimer R.K., Johnston J.R. Life span of individual yeast cells. Nature 1959, 183(4677):1751-1752.
205. Mrksich M., Whitesides G.M. Patterning self-assembled monolayers using microcontact printing - a new technology for biosensors. Trends Biotechnol. 1995, 13(6):228-235.
206. Mu X., et al. Microfluidics for manipulating cells. Small 2013, 9(1):9-21.
207. Mustafi N., et al. Application of a genetically encoded biosensor for live cell imaging of l-valine production in pyruvate dehydrogenase complex-deficient Corynebacterium glutamicum strains. PLoS One 2014, 9(1):1-11.
208. Nakano A. Spinning-disk confocal microscopy - a cutting-edge tool for imaging of membrane traffic. Cell Struct. Funct. 2002, 27(5):349-355.
209. Nan X.L., Cheng J.X., Xie X.S. Vibrational imaging of lipid droplets in live fibroblast cells with coherent anti-Stokes Raman scattering microscopy. J. Lipid Res. 2003, 44(11):2202-2208.
210. Nasse M.J., et al. Demountable liquid/flow cell for in vivo infrared microspectroscopy of biological specimens. Appl. Spectrosc. 2009, 63(10):1181-1186.
211. Nebel M., et al. Visualization of oxygen consumption of single living cells by scanning electrochemical microscopy: the influence of the Faradaic tip reaction. Angew. Chem.-Int. Ed. 2013, 52(24):6335-6338.
212. Nebel M., et al. Microelectrochemical visualization of oxygen consumption of single living cells. Faraday Discuss. 2013, 164:19-32.
213. Neuman K.C., et al. Characterization of photodamage to Escherichia coli in optical traps. Biophys. J. 1999, 77(5):2856-2863.
214. Newman J.R.S., et al. Single-cell proteomic analysis of S. cerevisiae reveals the architecture of biological noise. Nature 2006, 441(7095):840-846.
215. Nicoletti I., et al. A rapid and simple method for measuring thymocyte apoptosis by propidium iodide staining and flow cytometry. J. Immunol. Methods 1991, 139(2):271-279.
216. Nie S.M., Emery S.R. Probing single molecules and single nanoparticles by surface-enhanced Raman scattering. Science 1997, 275(5303):1102-1106.
217. Nilsson J., et al. Review of cell and particle trapping in microfluidic systems. Anal. Chim. Acta 2009, 649(2):141-157.
218. Nisisako T., Torii T., Higuchi T. Droplet formation in a microchannel network. Lab on a Chip 2002, 2(1):24-26.
219. Niu X., et al. A microdroplet dilutor for high-throughput screening. Nat. Chem. 2011, 3(6):437-442.
220. Nobs J.-B., Maerkl S.J. Long-term single cell analysis of S. pombe on a microfluidic microchemostat array. PLoS One 2014, 9(4):1-11.
221. Norman T.M., et al. Memory and modularity in cell-fate decision making. Nature 2013, 503(7477):481.
222. Novak R., et al. Single-cell multiplex gene detection and sequencing with microfluidically generated agarose emulsions. Angew. Chem.-Int. Ed. 2011, 50(2):390-395.
223. Ntziachristos V. Fluorescence molecular imaging. Annu. Rev. Biomed. Eng. 2006, 8:1-33.
224. Ochsner M., et al. Micro-well arrays for 3D shape control and high resolution analysis of single cells. Lab on a Chip 2007, 7(8):1074-1077.
225. Okada M., et al. Label-free Raman observation of cytochrome c dynamics during apoptosis. Proc. Natl. Acad. Sci. USA 2012, 109(1):28-32.
226. Okumoto S., Jones A., Frommer W.B. Quantitative imaging with fluorescent biosensors. Annu. Rev. Plant Biol. 2012, 63:663-706.
227. Olsen M.J., et al. Function-based isolation of novel enzymes from a large library. Nat. Biotechnol. 2000, 18(10):1071-1074.
228. Otto K., Hermansson M. Inactivation of ompX causes increased interactions of type 1 fimbriated Escherichia coli with abiotic surfaces. J. Bacteriol. 2004, 186(1):226-234.
229. Ozbudak E.M., et al. Regulation of noise in the expression of a single gene. Nat. Genet. 2002, 31(1):69-73.
230. O'Brien J., et al. Investigation of the Alamar Blue (resazurin) fluorescent dye for the assessment of mammalian cell cytotoxicity. Eur. J. Biochem. 2000, 267(17):5421-5426.
231. Pan J., et al. Quantitative tracking of the growth of individual algal cells in microdroplet compartments. Integr. Biol. 2011, 3(10):1043-1051.
232. Parce J.W., et al. Detection of cell-affecting agents with a silicon biosensor. Science 1989, 246(4927):243-247.
233. Park K., et al. Measurement of adherent cell mass and growth. Proc. Natl. Acad. Sci. USA 2010, 107(48):20691-20696.
234. Parkinson D.Y., et al. Quantitative 3-D imaging of eukaryotic cells using soft X-ray tomography. J. Struct. Biol. 2008, 162(3):380-386.
235. Peng L., et al. Intracellular ethanol accumulation in yeast cells during aerobic fermentation: a Raman spectroscopic exploration. Lett. Appl. Microbiol. 2010, 51(6):632-638.
236. Perkins T.T., Smith D.E., Chu S. Single polymer dynamics in an elongational flow. Science 1997, 276(5321):2016-2021.
237. Petit T., et al. Selective trapping and manipulation of microscale objects using mobile microvortices. Nano Lett. 2012, 12(1):156-160.
238. Petrov G.I., et al. Comparison of coherent and spontaneous Raman microspectroscopies for noninvasive detection of single bacterial endospores. Proc. Natl. Acad. Sci. USA 2007, 104(19):7776-7779.
239. Pezacki J.P., et al. Chemical contrast for imaging living systems: molecular vibrations drive CARS microscopy. Nat. Chem. Biol. 2011, 7(3):137-145.
240. Popescu G., et al. New technologies for measuring single cell mass. Lab on a Chip 2014, 14(4):646-652.
241. Pozarowski P., Holden E., Darzynkiewicz Z. Laser scanning cytometry: principles and applications. Methods Mol. Biol. 2006, 319:165-192.
242. Pozarowski P., Holden E., Darzynkiewicz Z. Laser scanning cytometry: principles and applications-an update. Methods Mol. Biol. 2013, 931:187-212.
243. Probst C., et al. Microfluidic growth chambers with optical tweezers for full spatial single-cell control and analysis of evolving microbes. J. Microbiol. Methods 2013, 95(3):470-476.
244. Probst C., et al. Polydimethylsiloxane (PDMS) sub-micron traps for single-cell analysis of bacteria. Micromachines 2013, 4(4):357-369.
245. Puppels G.J., et al. Studying single living cells and chromosomes by confocal Raman microspectroscopy. Nature 1990, 347(6290):301-303.
246. Puppels G.J., et al. Laser irradiation and Raman spectroscopy of single living cells and chromosomes - sample degradation occurs with 514.5nm but not 660nm laser light. Exp. Cell Res. 1991, 195(2):361-367.
247. Quake S.R., Scherer A. From micro- to nanofabrication with soft materials. Science 2000, 290(5496):1536-1540.
248. Quaroni L., Zlateva T. Infrared spectromicroscopy of biochemistry in functional single cells. Analyst 2011, 136(16):3219-3232.
249. Radulovic M., et al. The emergence of lipid droplets in yeast: current status and experimental approaches. Curr. Genet. 2013, 59(4):231-242.
250. Rafelski S.M., et al. Mitochondrial network size scaling in budding yeast. Science 2012, 338(6108):822-824.
251. Reits E.A.J., Neefjes J.J. From fixed to FRAP: measuring protein mobility and activity in living cells. Nat. Cell Biol. 2001, 3(6):E145-E147.
252. Rettig J.R., Folch A. Large-scale single-cell trapping and imaging using microwell arrays. Anal. Chem. 2005, 77(17):5628-5634.
253. Reymond J.-L., Fluxa V.S., Maillard N. Enzyme assays. Chem. Commun. 2009, (1):34-46.
254. Riordon J., Mirzaei M., Godin M. Microfluidic cell volume sensor with tunable sensitivity. Lab on a Chip 2012, 12(17):3016-3019.
255. Robert L., et al. Pre-dispositions and epigenetic inheritance in the Escherichia coli lactose operon bistable switch. Mol. Syst. Biol. 2010, 6:1-12.
256. Romeo M., et al. Infrared microspectroscopy of individual human cervical cancer (HeLa) cells. Biopolymers 2004, 74(1-2):168-171.
257. Rosch P., et al. Raman spectroscopic identification of single yeast cells. J. Raman Spectrosc. 2005, 36(5):377-379.
258. Rosenfeld N., et al. Gene regulation at the single-cell level. Science 2005, 307(5717):1962-1965.
259. Rowat A.C., et al. Tracking lineages of single cells in lines using a microfluidic device. Proc. Natl. Acad. Sci. USA 2009, 106(43):18149-18154.
260. Rubakhin S.S., et al. Profiling metabolites and peptides in single cells. Nat. Methods 2011, 8(4):S20-S29.
261. Rubakhin S.S., Lanni E.J., Sweedler J.V. Progress toward single cell metabolomics. Curr. Opin. Biotechnol. 2013, 24(1):95-104.
262. Rudolf R., et al. Looking forward to seeing calcium. Nat. Rev. Mol. Cell Biol. 2003, 4(7):579-586.
263. Rust M.J., Bates M., Zhuang X. Sub-diffraction-limit imaging by stochastic optical reconstruction microscopy (STORM). Nat. Methods 2006, 3(10):793-795.
264. Ryley J., Pereira-Smith O.M. Microfluidics device for single cell gene expression analysis in Saccharomyces cerevisiae. Yeast 2006, 23(14-15):1065-1073.
265. Saka S.K., et al. Correlated optical and isotopic nanoscopy. Nat. Commun. 2014, 5:1-8.
266. Sakdinawat A., Attwood D. Nanoscale X-ray imaging. Nat. Photon. 2010, 4(12):840-848.
267. Sala-Newby G.B., et al. Bioluminescent and chemiluminescent indicators for molecular signalling and function in living cells. Fluorescent and Luminescent Probes for Biological Activity 1999, Elsevier, London. 2nd ed. W.T. Mason (Ed.).
268. Sasuga Y., et al. Single-cell chemical lysis method for analyses of intracellular molecules using an array of picoliter-scale microwells. Anal. Chem. 2008, 80(23):9141-9149.
269. Schallmey M., et al. Looking for the pick of the bunch: high-throughput screening of producing microorganisms with biosensors. Curr. Opin. Biotechnol. 2014, 26:148-154.
270. Schendzielorz G., et al. Taking control over control: use of product sensing in single cells to remove flux control at key enzymes in biosynthesis pathways. ACS Synth. Biol. 2014, 3(1):21-29.
271. Schmid A., et al. Chemical and biological single cell analysis. Curr. Opin. Biotechnol. 2010, 21(1):12-20.
272. Schmid T., et al. Nanoscale chemical imaging using tip-enhanced Raman spectroscopy: a critical review. Angew. Chem.-Int. Ed. 2013, 52(23):5940-5954.
273. Schmitz C.H.J., et al. Dropspots: a picoliter array in a microfluidic device. Lab on a Chip 2009, 9(1):44-49.
274. Schnelle T., et al. 3-dimensional electric-field traps for manipulation of cells - calculation and experimental verification. Biochim. Biophys. Acta 1993, 1157(2):127-140.
275. Schrum D.P., et al. Microchip flow cytometry using electrokinetic focusing. Anal. Chem. 1999, 71(19):4173-4177.
276. Schuster K.C., et al. Multidimensional information on the chemical composition of single bacterial cells by confocal Raman microspectroscopy. Anal. Chem. 2000, 72(22):5529-5534.
277. Seger U., et al. Temperature measurements in microfluidic systems: heat dissipation of negative dielectrophoresis barriers. Electrophoresis 2005, 26(11):2239-2246.
278. Shaker M., et al. An impedance-based flow microcytometer for single cell morphology discrimination. Lab on a Chip 2014, 14:2548-2555. 10.1039/c4lc00221k.
279. Shapiro H.M. Practical Flow Cytometry 2003, John Wiley & Sons Inc., Hoboken, New Jersey.
280. Shroff H., et al. Live-cell photoactivated localization microscopy of nanoscale adhesion dynamics. Nat. Methods 2008, 5(5):417-423.
281. Siegal-Gaskins D., Crosson S. Tightly regulated and heritable division control in single bacterial cells. Biophys. J. 2008, 95(4):2063-2072.
282. Singhvi R., et al. Engineering cell shape and function. Science 1994, 264(5159):696-698.
283. Smith C. Two microscopes are better than one. Nature 2012, 492(7428):293-297.
284. Sohn L.L., et al. Capacitance cytometry: measuring biological cells one by one. Proc. Natl. Acad. Sci. USA 2000, 97(20):10687-10690.
285. Song H., Ismagilov R.F. Millisecond kinetics on a microfluidic chip using nanoliters of reagents. J. Am. Chem. Soc. 2003, 125(47):14613-14619.
286. Song H., Chen D.L., Ismagilov R.F. Reactions in droplets in microflulidic channels. Angew. Chem.-Int. Ed. 2006, 45(44):7336-7356.
287. Song W.Z., et al. Refractive index measurement of single living cells using on-chip Fabry-Perot cavity. Appl. Phys. Lett. 2006, 89(20):1-3.
288. Stender A.S., et al. Single cell optical imaging and spectroscopy. Chem. Rev. 2013, 113(4):2469-2527.
289. Stojkovic G., Znidarsic-Plazl P. Immobilization of yeast cells within microchannels of different materials. Acta Chim. Slov. 2010, 57(1):144-149.
290. Streets A.M., et al. Microfluidic single-cell whole-transcriptome sequencing. Proc. Natl. Acad. Sci. USA 2014, 111(19):7048-7053.
291. Stringari C., et al. Phasor approach to fluorescence lifetime microscopy distinguishes different metabolic states of germ cells in a live tissue. Proc. Natl. Acad. Sci. USA 2011, 108(33):13582-13587.
292. Strohmeier R., Bereiterhahn J. Hydrostatic pressure in epidermal cells is dependent on Ca-mediated contractions. J. Cell Sci. 1987, 88:631-640.
293. Su T.-W., Xue L., Ozcan A. High-throughput lensfree 3D tracking of human sperms reveals rare statistics of helical trajectories. Proc. Natl. Acad. Sci. USA 2012, 109(40):16018-16022.
294. Sun J., et al. Technique of surface modification of a cell-adhesion-resistant hydrogel by a cell-adhesion-available inorganic microarray. Biomacromolecules 2008, 9(10):2569-2572.
295. Sun T., Kovac J., Voldman J. Image-based single-cell sorting via dual-photopolymerized microwell arrays. Anal. Chem. 2014, 86(2):977-981.
296. Tamura M., et al. Optical cell separation from three-dimensional environment in photodegradable hydrogels for pure culture techniques. Sci. Rep. 2014, 4:1-6.
297. Tan W.-H., Takeuchi S. A trap-and-release integrated microfluidic system for dynamic microarray applications. Proc. Natl. Acad. Sci. USA 2007, 104(4):1146-1151.
298. Taniguchi Y., et al. Quantifying E. coli proteome and transcriptome with single-molecule sensitivity in single cells. Science 2010, 329(5991):533-538.
299. Tanyeri M., Johnson-Chavarria E.M., Schroeder C.M. Hydrodynamic trap for single particles and cells. Appl. Phys. Lett. 2010, 96(22):1-3.
300. Tanyeri M., et al. A microfluidic-based hydrodynamic trap: design and implementation. Lab on a Chip 2011, 11(10):1786-1794.
301. Taylor L.D. High Content Screening. Methods in Molecular Biology 2007, Humana Press Inc., Totowa, New Jersey 07512. L.D. Taylor, J.R. Haskins, K.A. Giuliano. (Eds.).
302. Teh S.-Y., et al. Droplet microfluidics. Lab on a Chip 2008, 8(2):198-220.
303. Thomas R.S., Morgan H., Green N.G. Negative DEP traps for single cell immobilisation. Lab on a Chip 2009, 9(11):1534-1540.
304. Thorsen T., et al. Dynamic pattern formation in a vesicle-generating microfluidic device. Phys. Rev. Lett. 2001, 86(18):4163-4166.
305. Tice J.D., et al. Formation of droplets and mixing in multiphase microfluidics at low values of the Reynolds and the capillary numbers. Langmuir 2003, 19(22):9127-9133.
306. Tracy B.P., Gaida S.M., Papoutsakis E.T. Flow cytometry for bacteria: enabling metabolic engineering, synthetic biology and the elucidation of complex phenotypes. Curr. Opin. Biotechnol. 2010, 21(1):85-99.
307. Trouillon R., et al. Chemical analysis of single cells. Anal. Chem. 2013, 85(2):522-542.
308. Tuson H.H., Weibel D.B. Bacteria-surface interactions. Soft Matter 2013, 9(17):4368-4380.
309. Twining B.S., et al. Quantifying trace elements in individual aquatic protist cells with a synchrotron X-ray fluorescence microprobe. Anal. Chem. 2003, 75(15):3806-3816.
310. Ullman G., et al. High-throughput gene expression analysis at the level of single proteins using a microfluidic turbidostat and automated cell tracking. Philos. Trans. R. Soc. B - Biol. Sci. 2013, 368(1611):1-8.
311. Unger M.A., et al. Monolithic microfabricated valves and pumps by multilayer soft lithography. Science 2000, 288(5463):113-116.
312. Ungerboeck B., et al. Microfluidic oxygen imaging using integrated optical sensor layers and a color camera. Lab on a Chip 2013, 13(8):1593-1601.
313. Urban P.L., et al. High-density micro-arrays for mass spectrometry. Lab on a Chip 2010, 10(23):3206-3209.
314. van Heerden J.H., et al. Lost in transition: start-up of glycolysis yields subpopulations of nongrowing cells. Science 2014, 343(6174):987.
315. Vanaelst L., et al. Molecular cloning of a gene involved in glucose sensing in the yeast Saccharomyces cerevisiae. Mol. Microbiol. 1993, 8(5):927-943.
316. Vasdekis A.E. Single microbe trap and release in sub-microfluidics. RSC Adv. 2013, 3(18):6343-6346.
317. Vasdekis A.E., et al. Precision intracellular delivery based on optofluidic polymersome rupture. ACS Nano 2012, 6(9):7850-7857.
318. Vasdekis A.E., et al. Solvent immersion imprint lithography. Lab on a Chip 2014, 14(12):2072-2080.
319. Verveer P.J., et al. High-resolution three-dimensional imaging of large specimens with light sheet-based microscopy. Nat. Methods 2007, 4(4):311-313.
320. Vitol E.A., et al. Nanoprobes for intracellular and single cell surface-enhanced Raman spectroscopy (SERS). J. Raman Spectrosc. 2012, 43(7):817-827.
321. Voldman J. Electrical forces for microscale cell manipulation. Annu. Rev. Biomed. Eng. 2006, 8:425-454.
322. Wagner M. Single-cell ecophysiology of microbes as revealed by Raman microspectroscopy or secondary ion mass spectrometry imaging. Annu. Rev. Microbiol. 2009, 63:411-429.
323. Walker B.N., et al. Metabolic differences in microbial cell populations revealed by nanophotonic ionization. Angew. Chem.-Int. Ed. 2013, 52(13):3650-3653.
324. Wang B.L., et al. Microfluidic high-throughput culturing of single cells for selection based on extracellular metabolite production or consumption. Nat. Biotechnol. 2014, 32(5):473-478.
325. Wang D., Bodovitz S. Single cell analysis: the new frontier in 'omics'. Trends Biotechnol. 2010, 28(6):281-920.
326. Wang P., et al. Robust growth of Escherichia coli. Curr. Biol. 2010, 20(12):1099-1103.
327. Wang Z., et al. Spatial light interference microscopy (SLIM). Opt. Express 2011, 19(2):1016-1026.
328. Ward J.H., Bashir R., Peppas N.A. Micropatterning of biomedical polymer surfaces by novel UV polymerization techniques. J. Biomed. Mate. Res. 2001, 56(3):351-360.
329. Warrick J.W., et al. High-content adhesion assay to address limited cell samples. Integr. Biol. 2013, 5(4):720-727.
330. Webb D.J., Brown C.M. Epi-fluorescence microscopy. Methods Mol. Biol. 2013, 931:29-59.
331. Weibel D.B., DiLuzio W.R., Whitesides G.M. Microfabrication meets microbiology. Nat. Rev. Microbiol. 2007, 5(3):209-218.
332. Weinstein J.A., et al. High-throughput sequencing of the zebrafish antibody repertoire. Science 2009, 324(5928):807-810.
333. Weng Y., et al. Mass sensors with mechanical traps for weighing single cells in different fluids. Lab on a Chip 2011, 11(24):4174-4180.
334. Werner M., et al. Microfluidic array cytometer based on refractive optical tweezers for parallel trapping, imaging and sorting of individual cells. Lab on a Chip 2011, 11(14):2432-2439.
335. Wheeler A.R., et al. Microfluidic device for single-cell analysis. Anal. Chem. 2003, 75(14):3581-3586.
336. Whelan D.R., et al. Monitoring the reversible B to A-like transition of DNA in eukaryotic cells using Fourier transform infrared spectroscopy. Nucleic Acids Res. 2011, 39(13):5439-5448.
337. Whitaker, M., 2010. Genetically encoded probes for measurement of intracellular calcium. In: Whitaker, M. (Ed.), Calcium in Living Cells, pp. 153-182.
338. White J.G., Amos W.B., Fordham M. An evaluation of confocal versus conventional imaging of biological structures by fluorescence light microscopy. J. Cell Biol. 1987, 105(1):41-48.
339. Whitesides G.M., et al. Soft lithography in biology and biochemistry. Annu. Rev. Biomed. Eng. 2001, 3:335-373.
340. Wilfling F., et al. Triacylglycerol synthesis enzymes mediate lipid droplet growth by relocalizing from the ER to lipid droplets. Dev. Cell 2013, 24(4):384-399.
341. Willig K.I., et al. STED microscopy reveals that synaptotagmin remains clustered after synaptic vesicle exocytosis. Nature 2006, 440(7086):935-939.
342. Winkleman A., et al. A magnetic trap for living cells suspended in a paramagnetic buffer. Appl. Phys. Lett. 2004, 85(12):2411-2413.
343. Wolff A., et al. Integrating advanced functionality in a microfabricated high-throughput fluorescent-activated cell sorter. Lab on a Chip 2003, 3(1):22-27.
344. Wood D.K., et al. Single cell trapping and DNA damage analysis using microwell arrays. Proc. Natl. Acad. Sci. USA 2010, 107(22):10008-10013.
345. Wu H., et al. In vivo lipidomics using single-cell Raman spectroscopy. Proc. Natl. Acad. Sci. USA 2011, 108(9):3809-3814.
346. Xia Y.N., Whitesides G.M. Soft lithography. Annu. Rev. Mater. Sci. 1998, 28:153-184.
347. Xie C.G., et al. Study of dynamical process of heat denaturation in optically trapped single microorganisms by near-infrared Raman spectroscopy. J. Appl. Phys. 2003, 94(9):6138-6142.
348. Xie C.G., Chen D., Li Y.Q. Raman sorting and identification of single living micro-organisms with optical tweezers. Opt. Lett. 2005, 30(14):1800-1802.
349. Yakovlev V.V. Advanced instrumentation for non-linear Raman microscopy. J. Raman Spectrosc. 2003, 34(12):957-964.
350. Yang A.H.J., et al. Optical manipulation of nanoparticles and biomolecules in sub-wavelength slot waveguides. Nature 2009, 457(7225):71-75.
351. Ye Z., Sitti M. Dynamic trapping and two-dimensional transport of swimming microorganisms using a rotating magnetic microrobot. Lab on a Chip 2014, 14(13):2177-2182.
352. Young J.W., et al. Measuring single-cell gene expression dynamics in bacteria using fluorescence time-lapse microscopy. Nat. Protoc. 2012, 7(1):80-88.
353. Yuan H., et al. Plasmonic nanoprobes for intracellular sensing and imaging. Anal. Bioanal. Chem. 2013, 405(19):6165-6180.
354. Yun W., et al. X-ray imaging and microspectroscopy of plants and fungi. J. Synchrotron Radiat. 1998, 5:1390-1395.
355. Zelle M.R. A simple single-cell technique for genetic studies of bacteria. J. Bacteriol. 1951, 61(3):345-349.
356. Zeng Y., et al. High-performance single cell genetic analysis using microfluidic emulsion generator arrays. Anal. Chem. 2010, 82(8):3183-3190.
357. Zenobi R. Single-cell metabolomics: analytical and biological perspectives. Science 2013, 342(6163):1201.
358. Zhang C., et al. Effects of pore-scale heterogeneity and transverse mixing on bacterial growth in porous media. Environ. Sci. Technol. 2010, 44(8):3085-3092.
359. Zheng Y., et al. Recent advances in microfluidic techniques for single-cell biophysical characterization. Lab on a Chip 2013, 13(13):2464-2483.
360. Zhu A., Romero R., Petty H.R. Amplex UltraRed enhances the sensitivity of fluorimetric pyruvate detection. Anal. Biochem. 2010, 403(1-2):123-125.
361. Zhu Z., et al. Microfluidic single-cell cultivation chip with controllable immobilization and selective release of yeast cells. Lab on a Chip 2012, 12(5):906-915.
362. Zimmerman T.A., Rubakhin S.S., Sweedler J.V. MALDI mass spectrometry imaging of neuronal cell cultures. J. Am. Soc. Mass Spectrom. 2011, 22(5):828-836.
363. Zurgil N., et al. Donut-shaped chambers for analysis of biochemical processes at the cellular and subcellular levels. Lab on a Chip 2014, 14:2226-2239. 10.1039/C3LC51426A.