Abstract

A microarray analyzer was developed to obtain images and measure the fluorescence intensity of microarrays at three wavelengths from 380 nm to 850 nm. The analyzer contains lasers to excite fluorescence, barrier filters, optics to project images on an image detector, and a device for suppressing laser speckles on the microarray support. The speckle suppression device contains a fibre-optic bundle and a rotating mirror positioned in a way to change the distance between the bundle butt and mirror surface during each mirror revolution. The analyzer provides for measurements with accuracy within ± 5%. Obtaining images at several exposure times allowed a significant expansion in the range of measured fluorescence intensities. The analyzer is useful for high throughput analysis of the same type of microarrays.

© 2017 Optical Society of America

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References

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2017 (3)

N. Peng, L. Shi, Q. Zhang, Y. Hu, N. Wang, and H. Ye, “Microarray profiling of circular RNAs in human papillary thyroid carcinoma,” PLoS One 12(3), e0170287 (2017).
[PubMed]

M. Jalili, A. Salehzadeh-Yazdi, S. Mohammadi, M. Yaghmaie, A. Ghavamzadeh, and K. Alimoghaddam, “Meta-analysis of gene expression profiles in acute promyelocytic leukemia reveals involved pathways,” Int. J. Hematol. Oncol. Stem Cell Res. 11(1), 1–12 (2017).
[PubMed]

G. Feyzkhanova, S. Voloshin, O. Smoldovskaya, A. Arefieva, M. Filippova, V. Barsky, L. Pavlushkina, V. Butvilovskaya, A. Tikhonov, Y. Reznikov, and A. Rubina, “Development of a microarray-based method for allergen-specific IgE and IgG4 detection,” Clin. Proteomics 14(1), 1 (2017).
[PubMed]

2016 (1)

P. K. Janicki, G. M. Alexander, J. Eckert, M. Postula, and R. J. Schwartzman, “Analysis of common single nucleotide polymorphisms in complex regional pain syndrome: Genome wide association study approach and pooled DNA strategy,” Pain Med. 17(12), 2344–2352 (2016).
[PubMed]

2015 (2)

Z. Cui, A. Wang, Z. Wang, S. Wang, C. Gu, H. Ming, and C. Xu, “Speckle Suppression by Controlling the Coherence in Laser Based Projection Systems,” J. Disp. Technol. 11, 330–335 (2015).

V.E. Barsky, Y.P. Lysov, E.E. Yegorov, D.A. Yurasov, D.D. Mamaev, R.A. Yurasov, A.V. Cherepanov, A.V. Chudinov, O.V. Smoldovskaya, A.S. Arefieva, A.Y. Rubina, and A.S. Zasedatelev, “Methods for reducing laser speckles to achieve even illumination of the microscope field of view in biophysical studies,” Biophysics 60, 1198–1202 (2015).

2014 (1)

O. A. Zasedateleva, V. A. Vasiliskov, S. A. Surzhikov, A. Y. Sazykin, L. V. Putlyaeva, A. M. Schwarz, D. V. Kuprash, A. Y. Rubina, V. E. Barsky, and A. S. Zasedatelev, “UV fluorescence of tryptophan residues effectively measures protein binding to nucleic acid fragments immobilized in gel elements of microarrays,” Biotechnol. J. 9(8), 1074–1080 (2014).
[PubMed]

2013 (1)

R. Bumgarner, “Overview of DNA microarrays: Types, applications, and their future,” Curr. Protoc. Mol. Biol. 22(22.1), 1–22 (2013).
[PubMed]

2012 (2)

D. S. Mehta, D. N. Naik, R. K. Singh, and M. Takeda, “Laser speckle reduction by multimode optical fiber bundle with combined temporal, spatial, and angular diversity,” Appl. Opt. 51(12), 1894–1904 (2012).
[PubMed]

V. E. Barsky, E. E. Yegorov, E. I. Kreindlin, Y. P. Lysov, S. V. Pankov, D. A. Urasov, R. A. Urasov, and A. S. Zasedatelev, “Biophysical methods for biochip analysis. Use of wide-field digital fluorescence microscopy,” Biophysics (Russian Federation) 57, 387–390 (2012).

2011 (1)

D. Gryadunov, E. Dementieva, V. Mikhailovich, T. Nasedkina, A. Rubina, E. Savvateeva, E. Fesenko, A. Chudinov, D. Zimenkov, A. Kolchinsky, and A. Zasedatelev, “Gel-based microarrays in clinical diagnostics in Russia,” Expert Rev. Mol. Diagn. 11(8), 839–853 (2011).
[PubMed]

2010 (1)

M. Tilleman, “A new method for laser speckle suppression,” Proc. SPIE 7618, 76180A (2010).

2009 (3)

M. Tilleman, “Laser despeckled image,” Proc. SPIE 7429, 74290I (2009).

S. V. Pan’kov, V. R. Chechetkin, O. G. Somova, O. V. Antonova, O. V. Moiseeva, D. V. Prokopenko, R. A. Yurasov, D. A. Gryadunov, and A. V. Chudinov, “Kinetic effects on signal normalization in oligonucleotide microchips with labeled immobilized probes,” J. Biomol. Struct. Dyn. 27(2), 235–244 (2009).
[PubMed]

M. B. Miller and Y.-W. Tang, “Basic concepts of microarrays and potential applications in clinical microbiology,” Clin. Microbiol. Rev. 22(4), 611–633 (2009).
[PubMed]

2006 (2)

K. U. Mir, “Ultrasensitive RNA profiling: Counting single molecules on microarrays,” Genome Res. 16(10), 1195–1197 (2006).
[PubMed]

G. Hamilton, N. Brown, V. Oseroff, B. Huey, R. Segraves, D. Sudar, J. Kumler, D. Albertson, and D. Pinkel, “A large field CCD system for quantitative imaging of microarrays,” Nucleic Acids Res. 34(8), e58 (2006).
[PubMed]

2004 (1)

A. M. Kolchinsky, D. A. Gryadunov, Y. P. Lysov, V. M. Mikhailovich, T. V. Nasedkina, A. Y. Turygin, A. Y. Rubina, V. E. Barsky, and A. S. Zasedatelev, “Gel-based microchips: History and prospects,” Mol. Biol. (Mosk.) 38, 4–13 (2004).

2001 (1)

J. D. Cortese, “Microarray readers. Pushing the envelope,” Scientist 15, 36–40 (2001).

Albertson, D.

G. Hamilton, N. Brown, V. Oseroff, B. Huey, R. Segraves, D. Sudar, J. Kumler, D. Albertson, and D. Pinkel, “A large field CCD system for quantitative imaging of microarrays,” Nucleic Acids Res. 34(8), e58 (2006).
[PubMed]

Alexander, G. M.

P. K. Janicki, G. M. Alexander, J. Eckert, M. Postula, and R. J. Schwartzman, “Analysis of common single nucleotide polymorphisms in complex regional pain syndrome: Genome wide association study approach and pooled DNA strategy,” Pain Med. 17(12), 2344–2352 (2016).
[PubMed]

Alimoghaddam, K.

M. Jalili, A. Salehzadeh-Yazdi, S. Mohammadi, M. Yaghmaie, A. Ghavamzadeh, and K. Alimoghaddam, “Meta-analysis of gene expression profiles in acute promyelocytic leukemia reveals involved pathways,” Int. J. Hematol. Oncol. Stem Cell Res. 11(1), 1–12 (2017).
[PubMed]

Antonova, O. V.

S. V. Pan’kov, V. R. Chechetkin, O. G. Somova, O. V. Antonova, O. V. Moiseeva, D. V. Prokopenko, R. A. Yurasov, D. A. Gryadunov, and A. V. Chudinov, “Kinetic effects on signal normalization in oligonucleotide microchips with labeled immobilized probes,” J. Biomol. Struct. Dyn. 27(2), 235–244 (2009).
[PubMed]

Arefieva, A.

G. Feyzkhanova, S. Voloshin, O. Smoldovskaya, A. Arefieva, M. Filippova, V. Barsky, L. Pavlushkina, V. Butvilovskaya, A. Tikhonov, Y. Reznikov, and A. Rubina, “Development of a microarray-based method for allergen-specific IgE and IgG4 detection,” Clin. Proteomics 14(1), 1 (2017).
[PubMed]

Arefieva, A.S.

V.E. Barsky, Y.P. Lysov, E.E. Yegorov, D.A. Yurasov, D.D. Mamaev, R.A. Yurasov, A.V. Cherepanov, A.V. Chudinov, O.V. Smoldovskaya, A.S. Arefieva, A.Y. Rubina, and A.S. Zasedatelev, “Methods for reducing laser speckles to achieve even illumination of the microscope field of view in biophysical studies,” Biophysics 60, 1198–1202 (2015).

Barsky, V.

G. Feyzkhanova, S. Voloshin, O. Smoldovskaya, A. Arefieva, M. Filippova, V. Barsky, L. Pavlushkina, V. Butvilovskaya, A. Tikhonov, Y. Reznikov, and A. Rubina, “Development of a microarray-based method for allergen-specific IgE and IgG4 detection,” Clin. Proteomics 14(1), 1 (2017).
[PubMed]

Barsky, V. E.

O. A. Zasedateleva, V. A. Vasiliskov, S. A. Surzhikov, A. Y. Sazykin, L. V. Putlyaeva, A. M. Schwarz, D. V. Kuprash, A. Y. Rubina, V. E. Barsky, and A. S. Zasedatelev, “UV fluorescence of tryptophan residues effectively measures protein binding to nucleic acid fragments immobilized in gel elements of microarrays,” Biotechnol. J. 9(8), 1074–1080 (2014).
[PubMed]

V. E. Barsky, E. E. Yegorov, E. I. Kreindlin, Y. P. Lysov, S. V. Pankov, D. A. Urasov, R. A. Urasov, and A. S. Zasedatelev, “Biophysical methods for biochip analysis. Use of wide-field digital fluorescence microscopy,” Biophysics (Russian Federation) 57, 387–390 (2012).

A. M. Kolchinsky, D. A. Gryadunov, Y. P. Lysov, V. M. Mikhailovich, T. V. Nasedkina, A. Y. Turygin, A. Y. Rubina, V. E. Barsky, and A. S. Zasedatelev, “Gel-based microchips: History and prospects,” Mol. Biol. (Mosk.) 38, 4–13 (2004).

Barsky, V.E.

V.E. Barsky, Y.P. Lysov, E.E. Yegorov, D.A. Yurasov, D.D. Mamaev, R.A. Yurasov, A.V. Cherepanov, A.V. Chudinov, O.V. Smoldovskaya, A.S. Arefieva, A.Y. Rubina, and A.S. Zasedatelev, “Methods for reducing laser speckles to achieve even illumination of the microscope field of view in biophysical studies,” Biophysics 60, 1198–1202 (2015).

Brown, N.

G. Hamilton, N. Brown, V. Oseroff, B. Huey, R. Segraves, D. Sudar, J. Kumler, D. Albertson, and D. Pinkel, “A large field CCD system for quantitative imaging of microarrays,” Nucleic Acids Res. 34(8), e58 (2006).
[PubMed]

Bumgarner, R.

R. Bumgarner, “Overview of DNA microarrays: Types, applications, and their future,” Curr. Protoc. Mol. Biol. 22(22.1), 1–22 (2013).
[PubMed]

Butvilovskaya, V.

G. Feyzkhanova, S. Voloshin, O. Smoldovskaya, A. Arefieva, M. Filippova, V. Barsky, L. Pavlushkina, V. Butvilovskaya, A. Tikhonov, Y. Reznikov, and A. Rubina, “Development of a microarray-based method for allergen-specific IgE and IgG4 detection,” Clin. Proteomics 14(1), 1 (2017).
[PubMed]

Chechetkin, V. R.

S. V. Pan’kov, V. R. Chechetkin, O. G. Somova, O. V. Antonova, O. V. Moiseeva, D. V. Prokopenko, R. A. Yurasov, D. A. Gryadunov, and A. V. Chudinov, “Kinetic effects on signal normalization in oligonucleotide microchips with labeled immobilized probes,” J. Biomol. Struct. Dyn. 27(2), 235–244 (2009).
[PubMed]

Cherepanov, A.V.

V.E. Barsky, Y.P. Lysov, E.E. Yegorov, D.A. Yurasov, D.D. Mamaev, R.A. Yurasov, A.V. Cherepanov, A.V. Chudinov, O.V. Smoldovskaya, A.S. Arefieva, A.Y. Rubina, and A.S. Zasedatelev, “Methods for reducing laser speckles to achieve even illumination of the microscope field of view in biophysical studies,” Biophysics 60, 1198–1202 (2015).

Chudinov, A.

D. Gryadunov, E. Dementieva, V. Mikhailovich, T. Nasedkina, A. Rubina, E. Savvateeva, E. Fesenko, A. Chudinov, D. Zimenkov, A. Kolchinsky, and A. Zasedatelev, “Gel-based microarrays in clinical diagnostics in Russia,” Expert Rev. Mol. Diagn. 11(8), 839–853 (2011).
[PubMed]

Chudinov, A. V.

S. V. Pan’kov, V. R. Chechetkin, O. G. Somova, O. V. Antonova, O. V. Moiseeva, D. V. Prokopenko, R. A. Yurasov, D. A. Gryadunov, and A. V. Chudinov, “Kinetic effects on signal normalization in oligonucleotide microchips with labeled immobilized probes,” J. Biomol. Struct. Dyn. 27(2), 235–244 (2009).
[PubMed]

Chudinov, A.V.

V.E. Barsky, Y.P. Lysov, E.E. Yegorov, D.A. Yurasov, D.D. Mamaev, R.A. Yurasov, A.V. Cherepanov, A.V. Chudinov, O.V. Smoldovskaya, A.S. Arefieva, A.Y. Rubina, and A.S. Zasedatelev, “Methods for reducing laser speckles to achieve even illumination of the microscope field of view in biophysical studies,” Biophysics 60, 1198–1202 (2015).

Cortese, J. D.

J. D. Cortese, “Microarray readers. Pushing the envelope,” Scientist 15, 36–40 (2001).

Cui, Z.

Z. Cui, A. Wang, Z. Wang, S. Wang, C. Gu, H. Ming, and C. Xu, “Speckle Suppression by Controlling the Coherence in Laser Based Projection Systems,” J. Disp. Technol. 11, 330–335 (2015).

Dementieva, E.

D. Gryadunov, E. Dementieva, V. Mikhailovich, T. Nasedkina, A. Rubina, E. Savvateeva, E. Fesenko, A. Chudinov, D. Zimenkov, A. Kolchinsky, and A. Zasedatelev, “Gel-based microarrays in clinical diagnostics in Russia,” Expert Rev. Mol. Diagn. 11(8), 839–853 (2011).
[PubMed]

Eckert, J.

P. K. Janicki, G. M. Alexander, J. Eckert, M. Postula, and R. J. Schwartzman, “Analysis of common single nucleotide polymorphisms in complex regional pain syndrome: Genome wide association study approach and pooled DNA strategy,” Pain Med. 17(12), 2344–2352 (2016).
[PubMed]

Fesenko, E.

D. Gryadunov, E. Dementieva, V. Mikhailovich, T. Nasedkina, A. Rubina, E. Savvateeva, E. Fesenko, A. Chudinov, D. Zimenkov, A. Kolchinsky, and A. Zasedatelev, “Gel-based microarrays in clinical diagnostics in Russia,” Expert Rev. Mol. Diagn. 11(8), 839–853 (2011).
[PubMed]

Feyzkhanova, G.

G. Feyzkhanova, S. Voloshin, O. Smoldovskaya, A. Arefieva, M. Filippova, V. Barsky, L. Pavlushkina, V. Butvilovskaya, A. Tikhonov, Y. Reznikov, and A. Rubina, “Development of a microarray-based method for allergen-specific IgE and IgG4 detection,” Clin. Proteomics 14(1), 1 (2017).
[PubMed]

Filippova, M.

G. Feyzkhanova, S. Voloshin, O. Smoldovskaya, A. Arefieva, M. Filippova, V. Barsky, L. Pavlushkina, V. Butvilovskaya, A. Tikhonov, Y. Reznikov, and A. Rubina, “Development of a microarray-based method for allergen-specific IgE and IgG4 detection,” Clin. Proteomics 14(1), 1 (2017).
[PubMed]

Ghavamzadeh, A.

M. Jalili, A. Salehzadeh-Yazdi, S. Mohammadi, M. Yaghmaie, A. Ghavamzadeh, and K. Alimoghaddam, “Meta-analysis of gene expression profiles in acute promyelocytic leukemia reveals involved pathways,” Int. J. Hematol. Oncol. Stem Cell Res. 11(1), 1–12 (2017).
[PubMed]

Gryadunov, D.

D. Gryadunov, E. Dementieva, V. Mikhailovich, T. Nasedkina, A. Rubina, E. Savvateeva, E. Fesenko, A. Chudinov, D. Zimenkov, A. Kolchinsky, and A. Zasedatelev, “Gel-based microarrays in clinical diagnostics in Russia,” Expert Rev. Mol. Diagn. 11(8), 839–853 (2011).
[PubMed]

Gryadunov, D. A.

S. V. Pan’kov, V. R. Chechetkin, O. G. Somova, O. V. Antonova, O. V. Moiseeva, D. V. Prokopenko, R. A. Yurasov, D. A. Gryadunov, and A. V. Chudinov, “Kinetic effects on signal normalization in oligonucleotide microchips with labeled immobilized probes,” J. Biomol. Struct. Dyn. 27(2), 235–244 (2009).
[PubMed]

A. M. Kolchinsky, D. A. Gryadunov, Y. P. Lysov, V. M. Mikhailovich, T. V. Nasedkina, A. Y. Turygin, A. Y. Rubina, V. E. Barsky, and A. S. Zasedatelev, “Gel-based microchips: History and prospects,” Mol. Biol. (Mosk.) 38, 4–13 (2004).

Gu, C.

Z. Cui, A. Wang, Z. Wang, S. Wang, C. Gu, H. Ming, and C. Xu, “Speckle Suppression by Controlling the Coherence in Laser Based Projection Systems,” J. Disp. Technol. 11, 330–335 (2015).

Hamilton, G.

G. Hamilton, N. Brown, V. Oseroff, B. Huey, R. Segraves, D. Sudar, J. Kumler, D. Albertson, and D. Pinkel, “A large field CCD system for quantitative imaging of microarrays,” Nucleic Acids Res. 34(8), e58 (2006).
[PubMed]

Hu, Y.

N. Peng, L. Shi, Q. Zhang, Y. Hu, N. Wang, and H. Ye, “Microarray profiling of circular RNAs in human papillary thyroid carcinoma,” PLoS One 12(3), e0170287 (2017).
[PubMed]

Huey, B.

G. Hamilton, N. Brown, V. Oseroff, B. Huey, R. Segraves, D. Sudar, J. Kumler, D. Albertson, and D. Pinkel, “A large field CCD system for quantitative imaging of microarrays,” Nucleic Acids Res. 34(8), e58 (2006).
[PubMed]

Jalili, M.

M. Jalili, A. Salehzadeh-Yazdi, S. Mohammadi, M. Yaghmaie, A. Ghavamzadeh, and K. Alimoghaddam, “Meta-analysis of gene expression profiles in acute promyelocytic leukemia reveals involved pathways,” Int. J. Hematol. Oncol. Stem Cell Res. 11(1), 1–12 (2017).
[PubMed]

Janicki, P. K.

P. K. Janicki, G. M. Alexander, J. Eckert, M. Postula, and R. J. Schwartzman, “Analysis of common single nucleotide polymorphisms in complex regional pain syndrome: Genome wide association study approach and pooled DNA strategy,” Pain Med. 17(12), 2344–2352 (2016).
[PubMed]

Kolchinsky, A.

D. Gryadunov, E. Dementieva, V. Mikhailovich, T. Nasedkina, A. Rubina, E. Savvateeva, E. Fesenko, A. Chudinov, D. Zimenkov, A. Kolchinsky, and A. Zasedatelev, “Gel-based microarrays in clinical diagnostics in Russia,” Expert Rev. Mol. Diagn. 11(8), 839–853 (2011).
[PubMed]

Kolchinsky, A. M.

A. M. Kolchinsky, D. A. Gryadunov, Y. P. Lysov, V. M. Mikhailovich, T. V. Nasedkina, A. Y. Turygin, A. Y. Rubina, V. E. Barsky, and A. S. Zasedatelev, “Gel-based microchips: History and prospects,” Mol. Biol. (Mosk.) 38, 4–13 (2004).

Kreindlin, E. I.

V. E. Barsky, E. E. Yegorov, E. I. Kreindlin, Y. P. Lysov, S. V. Pankov, D. A. Urasov, R. A. Urasov, and A. S. Zasedatelev, “Biophysical methods for biochip analysis. Use of wide-field digital fluorescence microscopy,” Biophysics (Russian Federation) 57, 387–390 (2012).

Kumler, J.

G. Hamilton, N. Brown, V. Oseroff, B. Huey, R. Segraves, D. Sudar, J. Kumler, D. Albertson, and D. Pinkel, “A large field CCD system for quantitative imaging of microarrays,” Nucleic Acids Res. 34(8), e58 (2006).
[PubMed]

Kuprash, D. V.

O. A. Zasedateleva, V. A. Vasiliskov, S. A. Surzhikov, A. Y. Sazykin, L. V. Putlyaeva, A. M. Schwarz, D. V. Kuprash, A. Y. Rubina, V. E. Barsky, and A. S. Zasedatelev, “UV fluorescence of tryptophan residues effectively measures protein binding to nucleic acid fragments immobilized in gel elements of microarrays,” Biotechnol. J. 9(8), 1074–1080 (2014).
[PubMed]

Lysov, Y. P.

V. E. Barsky, E. E. Yegorov, E. I. Kreindlin, Y. P. Lysov, S. V. Pankov, D. A. Urasov, R. A. Urasov, and A. S. Zasedatelev, “Biophysical methods for biochip analysis. Use of wide-field digital fluorescence microscopy,” Biophysics (Russian Federation) 57, 387–390 (2012).

A. M. Kolchinsky, D. A. Gryadunov, Y. P. Lysov, V. M. Mikhailovich, T. V. Nasedkina, A. Y. Turygin, A. Y. Rubina, V. E. Barsky, and A. S. Zasedatelev, “Gel-based microchips: History and prospects,” Mol. Biol. (Mosk.) 38, 4–13 (2004).

Lysov, Y.P.

V.E. Barsky, Y.P. Lysov, E.E. Yegorov, D.A. Yurasov, D.D. Mamaev, R.A. Yurasov, A.V. Cherepanov, A.V. Chudinov, O.V. Smoldovskaya, A.S. Arefieva, A.Y. Rubina, and A.S. Zasedatelev, “Methods for reducing laser speckles to achieve even illumination of the microscope field of view in biophysical studies,” Biophysics 60, 1198–1202 (2015).

Mamaev, D.D.

V.E. Barsky, Y.P. Lysov, E.E. Yegorov, D.A. Yurasov, D.D. Mamaev, R.A. Yurasov, A.V. Cherepanov, A.V. Chudinov, O.V. Smoldovskaya, A.S. Arefieva, A.Y. Rubina, and A.S. Zasedatelev, “Methods for reducing laser speckles to achieve even illumination of the microscope field of view in biophysical studies,” Biophysics 60, 1198–1202 (2015).

Mehta, D. S.

Mikhailovich, V.

D. Gryadunov, E. Dementieva, V. Mikhailovich, T. Nasedkina, A. Rubina, E. Savvateeva, E. Fesenko, A. Chudinov, D. Zimenkov, A. Kolchinsky, and A. Zasedatelev, “Gel-based microarrays in clinical diagnostics in Russia,” Expert Rev. Mol. Diagn. 11(8), 839–853 (2011).
[PubMed]

Mikhailovich, V. M.

A. M. Kolchinsky, D. A. Gryadunov, Y. P. Lysov, V. M. Mikhailovich, T. V. Nasedkina, A. Y. Turygin, A. Y. Rubina, V. E. Barsky, and A. S. Zasedatelev, “Gel-based microchips: History and prospects,” Mol. Biol. (Mosk.) 38, 4–13 (2004).

Miller, M. B.

M. B. Miller and Y.-W. Tang, “Basic concepts of microarrays and potential applications in clinical microbiology,” Clin. Microbiol. Rev. 22(4), 611–633 (2009).
[PubMed]

Ming, H.

Z. Cui, A. Wang, Z. Wang, S. Wang, C. Gu, H. Ming, and C. Xu, “Speckle Suppression by Controlling the Coherence in Laser Based Projection Systems,” J. Disp. Technol. 11, 330–335 (2015).

Mir, K. U.

K. U. Mir, “Ultrasensitive RNA profiling: Counting single molecules on microarrays,” Genome Res. 16(10), 1195–1197 (2006).
[PubMed]

Mohammadi, S.

M. Jalili, A. Salehzadeh-Yazdi, S. Mohammadi, M. Yaghmaie, A. Ghavamzadeh, and K. Alimoghaddam, “Meta-analysis of gene expression profiles in acute promyelocytic leukemia reveals involved pathways,” Int. J. Hematol. Oncol. Stem Cell Res. 11(1), 1–12 (2017).
[PubMed]

Moiseeva, O. V.

S. V. Pan’kov, V. R. Chechetkin, O. G. Somova, O. V. Antonova, O. V. Moiseeva, D. V. Prokopenko, R. A. Yurasov, D. A. Gryadunov, and A. V. Chudinov, “Kinetic effects on signal normalization in oligonucleotide microchips with labeled immobilized probes,” J. Biomol. Struct. Dyn. 27(2), 235–244 (2009).
[PubMed]

Naik, D. N.

Nasedkina, T.

D. Gryadunov, E. Dementieva, V. Mikhailovich, T. Nasedkina, A. Rubina, E. Savvateeva, E. Fesenko, A. Chudinov, D. Zimenkov, A. Kolchinsky, and A. Zasedatelev, “Gel-based microarrays in clinical diagnostics in Russia,” Expert Rev. Mol. Diagn. 11(8), 839–853 (2011).
[PubMed]

Nasedkina, T. V.

A. M. Kolchinsky, D. A. Gryadunov, Y. P. Lysov, V. M. Mikhailovich, T. V. Nasedkina, A. Y. Turygin, A. Y. Rubina, V. E. Barsky, and A. S. Zasedatelev, “Gel-based microchips: History and prospects,” Mol. Biol. (Mosk.) 38, 4–13 (2004).

Oseroff, V.

G. Hamilton, N. Brown, V. Oseroff, B. Huey, R. Segraves, D. Sudar, J. Kumler, D. Albertson, and D. Pinkel, “A large field CCD system for quantitative imaging of microarrays,” Nucleic Acids Res. 34(8), e58 (2006).
[PubMed]

Pan’kov, S. V.

S. V. Pan’kov, V. R. Chechetkin, O. G. Somova, O. V. Antonova, O. V. Moiseeva, D. V. Prokopenko, R. A. Yurasov, D. A. Gryadunov, and A. V. Chudinov, “Kinetic effects on signal normalization in oligonucleotide microchips with labeled immobilized probes,” J. Biomol. Struct. Dyn. 27(2), 235–244 (2009).
[PubMed]

Pankov, S. V.

V. E. Barsky, E. E. Yegorov, E. I. Kreindlin, Y. P. Lysov, S. V. Pankov, D. A. Urasov, R. A. Urasov, and A. S. Zasedatelev, “Biophysical methods for biochip analysis. Use of wide-field digital fluorescence microscopy,” Biophysics (Russian Federation) 57, 387–390 (2012).

Pavlushkina, L.

G. Feyzkhanova, S. Voloshin, O. Smoldovskaya, A. Arefieva, M. Filippova, V. Barsky, L. Pavlushkina, V. Butvilovskaya, A. Tikhonov, Y. Reznikov, and A. Rubina, “Development of a microarray-based method for allergen-specific IgE and IgG4 detection,” Clin. Proteomics 14(1), 1 (2017).
[PubMed]

Peng, N.

N. Peng, L. Shi, Q. Zhang, Y. Hu, N. Wang, and H. Ye, “Microarray profiling of circular RNAs in human papillary thyroid carcinoma,” PLoS One 12(3), e0170287 (2017).
[PubMed]

Pinkel, D.

G. Hamilton, N. Brown, V. Oseroff, B. Huey, R. Segraves, D. Sudar, J. Kumler, D. Albertson, and D. Pinkel, “A large field CCD system for quantitative imaging of microarrays,” Nucleic Acids Res. 34(8), e58 (2006).
[PubMed]

Postula, M.

P. K. Janicki, G. M. Alexander, J. Eckert, M. Postula, and R. J. Schwartzman, “Analysis of common single nucleotide polymorphisms in complex regional pain syndrome: Genome wide association study approach and pooled DNA strategy,” Pain Med. 17(12), 2344–2352 (2016).
[PubMed]

Prokopenko, D. V.

S. V. Pan’kov, V. R. Chechetkin, O. G. Somova, O. V. Antonova, O. V. Moiseeva, D. V. Prokopenko, R. A. Yurasov, D. A. Gryadunov, and A. V. Chudinov, “Kinetic effects on signal normalization in oligonucleotide microchips with labeled immobilized probes,” J. Biomol. Struct. Dyn. 27(2), 235–244 (2009).
[PubMed]

Putlyaeva, L. V.

O. A. Zasedateleva, V. A. Vasiliskov, S. A. Surzhikov, A. Y. Sazykin, L. V. Putlyaeva, A. M. Schwarz, D. V. Kuprash, A. Y. Rubina, V. E. Barsky, and A. S. Zasedatelev, “UV fluorescence of tryptophan residues effectively measures protein binding to nucleic acid fragments immobilized in gel elements of microarrays,” Biotechnol. J. 9(8), 1074–1080 (2014).
[PubMed]

Reznikov, Y.

G. Feyzkhanova, S. Voloshin, O. Smoldovskaya, A. Arefieva, M. Filippova, V. Barsky, L. Pavlushkina, V. Butvilovskaya, A. Tikhonov, Y. Reznikov, and A. Rubina, “Development of a microarray-based method for allergen-specific IgE and IgG4 detection,” Clin. Proteomics 14(1), 1 (2017).
[PubMed]

Rubina, A.

G. Feyzkhanova, S. Voloshin, O. Smoldovskaya, A. Arefieva, M. Filippova, V. Barsky, L. Pavlushkina, V. Butvilovskaya, A. Tikhonov, Y. Reznikov, and A. Rubina, “Development of a microarray-based method for allergen-specific IgE and IgG4 detection,” Clin. Proteomics 14(1), 1 (2017).
[PubMed]

D. Gryadunov, E. Dementieva, V. Mikhailovich, T. Nasedkina, A. Rubina, E. Savvateeva, E. Fesenko, A. Chudinov, D. Zimenkov, A. Kolchinsky, and A. Zasedatelev, “Gel-based microarrays in clinical diagnostics in Russia,” Expert Rev. Mol. Diagn. 11(8), 839–853 (2011).
[PubMed]

Rubina, A. Y.

O. A. Zasedateleva, V. A. Vasiliskov, S. A. Surzhikov, A. Y. Sazykin, L. V. Putlyaeva, A. M. Schwarz, D. V. Kuprash, A. Y. Rubina, V. E. Barsky, and A. S. Zasedatelev, “UV fluorescence of tryptophan residues effectively measures protein binding to nucleic acid fragments immobilized in gel elements of microarrays,” Biotechnol. J. 9(8), 1074–1080 (2014).
[PubMed]

A. M. Kolchinsky, D. A. Gryadunov, Y. P. Lysov, V. M. Mikhailovich, T. V. Nasedkina, A. Y. Turygin, A. Y. Rubina, V. E. Barsky, and A. S. Zasedatelev, “Gel-based microchips: History and prospects,” Mol. Biol. (Mosk.) 38, 4–13 (2004).

Rubina, A.Y.

V.E. Barsky, Y.P. Lysov, E.E. Yegorov, D.A. Yurasov, D.D. Mamaev, R.A. Yurasov, A.V. Cherepanov, A.V. Chudinov, O.V. Smoldovskaya, A.S. Arefieva, A.Y. Rubina, and A.S. Zasedatelev, “Methods for reducing laser speckles to achieve even illumination of the microscope field of view in biophysical studies,” Biophysics 60, 1198–1202 (2015).

Salehzadeh-Yazdi, A.

M. Jalili, A. Salehzadeh-Yazdi, S. Mohammadi, M. Yaghmaie, A. Ghavamzadeh, and K. Alimoghaddam, “Meta-analysis of gene expression profiles in acute promyelocytic leukemia reveals involved pathways,” Int. J. Hematol. Oncol. Stem Cell Res. 11(1), 1–12 (2017).
[PubMed]

Savvateeva, E.

D. Gryadunov, E. Dementieva, V. Mikhailovich, T. Nasedkina, A. Rubina, E. Savvateeva, E. Fesenko, A. Chudinov, D. Zimenkov, A. Kolchinsky, and A. Zasedatelev, “Gel-based microarrays in clinical diagnostics in Russia,” Expert Rev. Mol. Diagn. 11(8), 839–853 (2011).
[PubMed]

Sazykin, A. Y.

O. A. Zasedateleva, V. A. Vasiliskov, S. A. Surzhikov, A. Y. Sazykin, L. V. Putlyaeva, A. M. Schwarz, D. V. Kuprash, A. Y. Rubina, V. E. Barsky, and A. S. Zasedatelev, “UV fluorescence of tryptophan residues effectively measures protein binding to nucleic acid fragments immobilized in gel elements of microarrays,” Biotechnol. J. 9(8), 1074–1080 (2014).
[PubMed]

Schwartzman, R. J.

P. K. Janicki, G. M. Alexander, J. Eckert, M. Postula, and R. J. Schwartzman, “Analysis of common single nucleotide polymorphisms in complex regional pain syndrome: Genome wide association study approach and pooled DNA strategy,” Pain Med. 17(12), 2344–2352 (2016).
[PubMed]

Schwarz, A. M.

O. A. Zasedateleva, V. A. Vasiliskov, S. A. Surzhikov, A. Y. Sazykin, L. V. Putlyaeva, A. M. Schwarz, D. V. Kuprash, A. Y. Rubina, V. E. Barsky, and A. S. Zasedatelev, “UV fluorescence of tryptophan residues effectively measures protein binding to nucleic acid fragments immobilized in gel elements of microarrays,” Biotechnol. J. 9(8), 1074–1080 (2014).
[PubMed]

Segraves, R.

G. Hamilton, N. Brown, V. Oseroff, B. Huey, R. Segraves, D. Sudar, J. Kumler, D. Albertson, and D. Pinkel, “A large field CCD system for quantitative imaging of microarrays,” Nucleic Acids Res. 34(8), e58 (2006).
[PubMed]

Shi, L.

N. Peng, L. Shi, Q. Zhang, Y. Hu, N. Wang, and H. Ye, “Microarray profiling of circular RNAs in human papillary thyroid carcinoma,” PLoS One 12(3), e0170287 (2017).
[PubMed]

Singh, R. K.

Smoldovskaya, O.

G. Feyzkhanova, S. Voloshin, O. Smoldovskaya, A. Arefieva, M. Filippova, V. Barsky, L. Pavlushkina, V. Butvilovskaya, A. Tikhonov, Y. Reznikov, and A. Rubina, “Development of a microarray-based method for allergen-specific IgE and IgG4 detection,” Clin. Proteomics 14(1), 1 (2017).
[PubMed]

Smoldovskaya, O.V.

V.E. Barsky, Y.P. Lysov, E.E. Yegorov, D.A. Yurasov, D.D. Mamaev, R.A. Yurasov, A.V. Cherepanov, A.V. Chudinov, O.V. Smoldovskaya, A.S. Arefieva, A.Y. Rubina, and A.S. Zasedatelev, “Methods for reducing laser speckles to achieve even illumination of the microscope field of view in biophysical studies,” Biophysics 60, 1198–1202 (2015).

Somova, O. G.

S. V. Pan’kov, V. R. Chechetkin, O. G. Somova, O. V. Antonova, O. V. Moiseeva, D. V. Prokopenko, R. A. Yurasov, D. A. Gryadunov, and A. V. Chudinov, “Kinetic effects on signal normalization in oligonucleotide microchips with labeled immobilized probes,” J. Biomol. Struct. Dyn. 27(2), 235–244 (2009).
[PubMed]

Sudar, D.

G. Hamilton, N. Brown, V. Oseroff, B. Huey, R. Segraves, D. Sudar, J. Kumler, D. Albertson, and D. Pinkel, “A large field CCD system for quantitative imaging of microarrays,” Nucleic Acids Res. 34(8), e58 (2006).
[PubMed]

Surzhikov, S. A.

O. A. Zasedateleva, V. A. Vasiliskov, S. A. Surzhikov, A. Y. Sazykin, L. V. Putlyaeva, A. M. Schwarz, D. V. Kuprash, A. Y. Rubina, V. E. Barsky, and A. S. Zasedatelev, “UV fluorescence of tryptophan residues effectively measures protein binding to nucleic acid fragments immobilized in gel elements of microarrays,” Biotechnol. J. 9(8), 1074–1080 (2014).
[PubMed]

Takeda, M.

Tang, Y.-W.

M. B. Miller and Y.-W. Tang, “Basic concepts of microarrays and potential applications in clinical microbiology,” Clin. Microbiol. Rev. 22(4), 611–633 (2009).
[PubMed]

Tikhonov, A.

G. Feyzkhanova, S. Voloshin, O. Smoldovskaya, A. Arefieva, M. Filippova, V. Barsky, L. Pavlushkina, V. Butvilovskaya, A. Tikhonov, Y. Reznikov, and A. Rubina, “Development of a microarray-based method for allergen-specific IgE and IgG4 detection,” Clin. Proteomics 14(1), 1 (2017).
[PubMed]

Tilleman, M.

M. Tilleman, “A new method for laser speckle suppression,” Proc. SPIE 7618, 76180A (2010).

M. Tilleman, “Laser despeckled image,” Proc. SPIE 7429, 74290I (2009).

Turygin, A. Y.

A. M. Kolchinsky, D. A. Gryadunov, Y. P. Lysov, V. M. Mikhailovich, T. V. Nasedkina, A. Y. Turygin, A. Y. Rubina, V. E. Barsky, and A. S. Zasedatelev, “Gel-based microchips: History and prospects,” Mol. Biol. (Mosk.) 38, 4–13 (2004).

Urasov, D. A.

V. E. Barsky, E. E. Yegorov, E. I. Kreindlin, Y. P. Lysov, S. V. Pankov, D. A. Urasov, R. A. Urasov, and A. S. Zasedatelev, “Biophysical methods for biochip analysis. Use of wide-field digital fluorescence microscopy,” Biophysics (Russian Federation) 57, 387–390 (2012).

Urasov, R. A.

V. E. Barsky, E. E. Yegorov, E. I. Kreindlin, Y. P. Lysov, S. V. Pankov, D. A. Urasov, R. A. Urasov, and A. S. Zasedatelev, “Biophysical methods for biochip analysis. Use of wide-field digital fluorescence microscopy,” Biophysics (Russian Federation) 57, 387–390 (2012).

Vasiliskov, V. A.

O. A. Zasedateleva, V. A. Vasiliskov, S. A. Surzhikov, A. Y. Sazykin, L. V. Putlyaeva, A. M. Schwarz, D. V. Kuprash, A. Y. Rubina, V. E. Barsky, and A. S. Zasedatelev, “UV fluorescence of tryptophan residues effectively measures protein binding to nucleic acid fragments immobilized in gel elements of microarrays,” Biotechnol. J. 9(8), 1074–1080 (2014).
[PubMed]

Voloshin, S.

G. Feyzkhanova, S. Voloshin, O. Smoldovskaya, A. Arefieva, M. Filippova, V. Barsky, L. Pavlushkina, V. Butvilovskaya, A. Tikhonov, Y. Reznikov, and A. Rubina, “Development of a microarray-based method for allergen-specific IgE and IgG4 detection,” Clin. Proteomics 14(1), 1 (2017).
[PubMed]

Wang, A.

Z. Cui, A. Wang, Z. Wang, S. Wang, C. Gu, H. Ming, and C. Xu, “Speckle Suppression by Controlling the Coherence in Laser Based Projection Systems,” J. Disp. Technol. 11, 330–335 (2015).

Wang, N.

N. Peng, L. Shi, Q. Zhang, Y. Hu, N. Wang, and H. Ye, “Microarray profiling of circular RNAs in human papillary thyroid carcinoma,” PLoS One 12(3), e0170287 (2017).
[PubMed]

Wang, S.

Z. Cui, A. Wang, Z. Wang, S. Wang, C. Gu, H. Ming, and C. Xu, “Speckle Suppression by Controlling the Coherence in Laser Based Projection Systems,” J. Disp. Technol. 11, 330–335 (2015).

Wang, Z.

Z. Cui, A. Wang, Z. Wang, S. Wang, C. Gu, H. Ming, and C. Xu, “Speckle Suppression by Controlling the Coherence in Laser Based Projection Systems,” J. Disp. Technol. 11, 330–335 (2015).

Xu, C.

Z. Cui, A. Wang, Z. Wang, S. Wang, C. Gu, H. Ming, and C. Xu, “Speckle Suppression by Controlling the Coherence in Laser Based Projection Systems,” J. Disp. Technol. 11, 330–335 (2015).

Yaghmaie, M.

M. Jalili, A. Salehzadeh-Yazdi, S. Mohammadi, M. Yaghmaie, A. Ghavamzadeh, and K. Alimoghaddam, “Meta-analysis of gene expression profiles in acute promyelocytic leukemia reveals involved pathways,” Int. J. Hematol. Oncol. Stem Cell Res. 11(1), 1–12 (2017).
[PubMed]

Ye, H.

N. Peng, L. Shi, Q. Zhang, Y. Hu, N. Wang, and H. Ye, “Microarray profiling of circular RNAs in human papillary thyroid carcinoma,” PLoS One 12(3), e0170287 (2017).
[PubMed]

Yegorov, E. E.

V. E. Barsky, E. E. Yegorov, E. I. Kreindlin, Y. P. Lysov, S. V. Pankov, D. A. Urasov, R. A. Urasov, and A. S. Zasedatelev, “Biophysical methods for biochip analysis. Use of wide-field digital fluorescence microscopy,” Biophysics (Russian Federation) 57, 387–390 (2012).

Yegorov, E.E.

V.E. Barsky, Y.P. Lysov, E.E. Yegorov, D.A. Yurasov, D.D. Mamaev, R.A. Yurasov, A.V. Cherepanov, A.V. Chudinov, O.V. Smoldovskaya, A.S. Arefieva, A.Y. Rubina, and A.S. Zasedatelev, “Methods for reducing laser speckles to achieve even illumination of the microscope field of view in biophysical studies,” Biophysics 60, 1198–1202 (2015).

Yurasov, D.A.

V.E. Barsky, Y.P. Lysov, E.E. Yegorov, D.A. Yurasov, D.D. Mamaev, R.A. Yurasov, A.V. Cherepanov, A.V. Chudinov, O.V. Smoldovskaya, A.S. Arefieva, A.Y. Rubina, and A.S. Zasedatelev, “Methods for reducing laser speckles to achieve even illumination of the microscope field of view in biophysical studies,” Biophysics 60, 1198–1202 (2015).

Yurasov, R. A.

S. V. Pan’kov, V. R. Chechetkin, O. G. Somova, O. V. Antonova, O. V. Moiseeva, D. V. Prokopenko, R. A. Yurasov, D. A. Gryadunov, and A. V. Chudinov, “Kinetic effects on signal normalization in oligonucleotide microchips with labeled immobilized probes,” J. Biomol. Struct. Dyn. 27(2), 235–244 (2009).
[PubMed]

Yurasov, R.A.

V.E. Barsky, Y.P. Lysov, E.E. Yegorov, D.A. Yurasov, D.D. Mamaev, R.A. Yurasov, A.V. Cherepanov, A.V. Chudinov, O.V. Smoldovskaya, A.S. Arefieva, A.Y. Rubina, and A.S. Zasedatelev, “Methods for reducing laser speckles to achieve even illumination of the microscope field of view in biophysical studies,” Biophysics 60, 1198–1202 (2015).

Zasedatelev, A.

D. Gryadunov, E. Dementieva, V. Mikhailovich, T. Nasedkina, A. Rubina, E. Savvateeva, E. Fesenko, A. Chudinov, D. Zimenkov, A. Kolchinsky, and A. Zasedatelev, “Gel-based microarrays in clinical diagnostics in Russia,” Expert Rev. Mol. Diagn. 11(8), 839–853 (2011).
[PubMed]

Zasedatelev, A. S.

O. A. Zasedateleva, V. A. Vasiliskov, S. A. Surzhikov, A. Y. Sazykin, L. V. Putlyaeva, A. M. Schwarz, D. V. Kuprash, A. Y. Rubina, V. E. Barsky, and A. S. Zasedatelev, “UV fluorescence of tryptophan residues effectively measures protein binding to nucleic acid fragments immobilized in gel elements of microarrays,” Biotechnol. J. 9(8), 1074–1080 (2014).
[PubMed]

V. E. Barsky, E. E. Yegorov, E. I. Kreindlin, Y. P. Lysov, S. V. Pankov, D. A. Urasov, R. A. Urasov, and A. S. Zasedatelev, “Biophysical methods for biochip analysis. Use of wide-field digital fluorescence microscopy,” Biophysics (Russian Federation) 57, 387–390 (2012).

A. M. Kolchinsky, D. A. Gryadunov, Y. P. Lysov, V. M. Mikhailovich, T. V. Nasedkina, A. Y. Turygin, A. Y. Rubina, V. E. Barsky, and A. S. Zasedatelev, “Gel-based microchips: History and prospects,” Mol. Biol. (Mosk.) 38, 4–13 (2004).

Zasedatelev, A.S.

V.E. Barsky, Y.P. Lysov, E.E. Yegorov, D.A. Yurasov, D.D. Mamaev, R.A. Yurasov, A.V. Cherepanov, A.V. Chudinov, O.V. Smoldovskaya, A.S. Arefieva, A.Y. Rubina, and A.S. Zasedatelev, “Methods for reducing laser speckles to achieve even illumination of the microscope field of view in biophysical studies,” Biophysics 60, 1198–1202 (2015).

Zasedateleva, O. A.

O. A. Zasedateleva, V. A. Vasiliskov, S. A. Surzhikov, A. Y. Sazykin, L. V. Putlyaeva, A. M. Schwarz, D. V. Kuprash, A. Y. Rubina, V. E. Barsky, and A. S. Zasedatelev, “UV fluorescence of tryptophan residues effectively measures protein binding to nucleic acid fragments immobilized in gel elements of microarrays,” Biotechnol. J. 9(8), 1074–1080 (2014).
[PubMed]

Zhang, Q.

N. Peng, L. Shi, Q. Zhang, Y. Hu, N. Wang, and H. Ye, “Microarray profiling of circular RNAs in human papillary thyroid carcinoma,” PLoS One 12(3), e0170287 (2017).
[PubMed]

Zimenkov, D.

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Figures (4)

Fig. 1
Fig. 1 Photo of the analyzer without front and sidewalls and an upper lid (A), and schematic representation of the analyzer (B). The drawing shows three illuminating devices for three wavelengths, a microarray holder, an upper objective, a focusing device and a CCD camera.
Fig. 2
Fig. 2 (A). A scheme of a device for speckle suppression. (B). Image and calculations of I of a gelatine film surface that was stained with Cy5 and measured in spectral region specific to the dye. a. Image of the film surface fluorescence that was obtained when excited with a defocused laser beam and a motionless mirror. The speckles caused local variations in the illumination brightness, which significantly decreased the accuracy of the fluorescent measurements. c. Image of the same fluorescent film surface area that was obtained with a rotated mirror. b and d – Distributions of I of the film surface area along the rectangular frames in Fig. 2(B) a and c. The areas inside the dotted frames in a and c represent the rectangles with a width that was equal to the diameter of one microarray cell (100 μm). The measurements were conducted in a circular surface area with a diameter of 100 μm, which was moved along the frame. I was expressed in arbitrary units (a.u.) as the sum of the signal values from all the pixels that covered the measured area divided by the number of pixels. The X-axis shows the distance from the left edge of the frame; the Y-axis shows I in a.u.
Fig. 3
Fig. 3 Images of a microarray containing different concentrations of the dyes Cy3, Cy5 and Cy7 and measurements of I in the cells shown in c. A. A scheme of the microarray containing rows of cells with different concentrations of the dyes Cy3, Cy5 and Cy7. b, c, d – Fluorescent images of the microarray that were obtained at the spectral regions that were specific for the dyes: Cy3 (b), Cy5 (c), Cy7 (d). e – Molar concentration of the dyes in the microarray cells.B. I of the microarray cells shown in c at different exposure times. Concentrations of the dye in the cells are shown in Fig. 3(A) (e). The X-axis shows number of the cell, the Y-axis shows I of the corresponding cell. The values at Y axe are plotted on a logarithmic scale. The white bars show I of cells Nº 1–5 obtained at a 250-msec exposure time, Nº 6 and 7 at a 1000 msec exposure time, and Nº 8 and 9 at a 4000-msec exposure time. The black bars show the calculation results according to the algorithm for expanding the linear measurement range.
Fig. 4
Fig. 4 A microarray containing cells with mixtures of the dyes Cy5 and Cy7. A scheme of the microarray is shown on a. The reference cell shown in the left corner, designated R1, contained only Cy5 at a concentration of 10−7 M. The reference cell shown in the right corner, designated R2, contained only Cy7 at a concentration of 5x10−6 M. Cells designated as 1, 2, 3 contained mixtures of Cy5 and Cy7 at different ratios. b An image of the microarray obtained in the spectral regions specific to Cy5. c An image of the microarray obtained in spectral regions specific to Cy7. Measurement results are presented in Tables 4.

Tables (5)

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Table 1 Normalized values of I for the cells of one row of a microarray at different locations in the analyzer’s FOV*

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Table 2 Coefficient of variation and coefficient of speckle suppression within FOV at different wavelengths. Measuring area was 3x3 pixels.

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Table 3 Values of I for microarray cells containing different concentrations of Cy5 at different exposure time. Image of the microarray is shown in Fig. 8c, graphic representation in Fig. 3(B). The values used for calculation of the results according to the expanding algorithm and the expanded values are given in bold. Grey cells in the columns demonstrate proportionality between I and exposure time, grey cells in the lines – between I and the dye concentration. Lower line shows the values of I calculated according to the dye dilutions (higher value corresponds to higher dye concentration in the upper Table cell; other values are obtained by repeated division by two); t – exposure time

Tables Icon

Table 4 Measured values of I of the microarray cells shown in Fig. 3

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Table 5 Deposited and calculated concentrations of the dyes Cy5 and Cy7 in the cells shown in Fig. 3.

Equations (4)

Equations on this page are rendered with MathJax. Learn more.

V= 1 n (I I ¯ ) 2 n / I ¯
А=( 1 V 1 / V 0 ) x 100%
К Cy5 ( R1 )= I Cy5 ( R1 )/ C Cy5 ( R1 ), К Cy5 ( R2 )= I Cy5 ( R2 )/ C Cy7 ( R2 ) К Cy7 ( R1 )= I Cy7 ( R1 )/ C Cy5 ( R1 ), К Cy7 ( R2 )= I Cy7 ( R2 )/ C Cy7 ( R2 )
I Cy5 ( j ) = К Cy5 ( R1 ) x C Cy5 ( j ) +  К Cy5 ( R2 ) x C Cy7 ( j ) I Cy7 ( j ) = К Cy7 ( R1 ) x C Cy5 ( j ) +  К Cy7 ( R2 ) x C Cy7 ( j )

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