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Wangngae S, Ngivprom U, Khrootkaew T, Worakaensai S, Lai RY, Kamkaew A. Cationic styryl dyes for DNA labelling and selectivity toward cancer cells and Gram-negative bacteria. RSC Adv 2023; 13:2115-2122. [PMID: 36712646 PMCID: PMC9832362 DOI: 10.1039/d2ra07601b] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 11/29/2022] [Accepted: 12/16/2022] [Indexed: 01/12/2023] Open
Abstract
Fluorescence-based methods are important tools for the analysis of nucleic acids in vitro and in cells. In this study, two cationic cyanine-styryl derivatives were produced using a two-step synthesis. Their optical properties were evaluated in different solvents, and frontier molecular orbital theory was utilized to interpret the findings. The DNA binding of these molecules was investigated to show fluorescence intensification. The molecular docking of both dyes in DNA illustrated the relevance of the electrostatic interaction between the quaternary ammonium of both dyes and the phosphate of the DNA backbone. Last but not least, applications of the synthesized styryl dyes were demonstrated to be selective towards cancer cells and particular kinds of bacteria.
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Affiliation(s)
- Sirilak Wangngae
- School of Chemistry, Institute of Science, Suranaree University of TechnologyNakhon Ratchasima30000Thailand
| | - Utumporn Ngivprom
- School of Chemistry, Institute of Science, Suranaree University of TechnologyNakhon Ratchasima30000Thailand,Center for Biomolecular Structure, Function and Application, Suranaree University of TechnologyNakhon Ratchasima30000Thailand
| | - Tunyawat Khrootkaew
- School of Chemistry, Institute of Science, Suranaree University of TechnologyNakhon Ratchasima30000Thailand
| | - Suphanida Worakaensai
- School of Chemistry, Institute of Science, Suranaree University of TechnologyNakhon Ratchasima30000Thailand,Center for Biomolecular Structure, Function and Application, Suranaree University of TechnologyNakhon Ratchasima30000Thailand
| | - Rung-Yi Lai
- School of Chemistry, Institute of Science, Suranaree University of TechnologyNakhon Ratchasima30000Thailand,Center for Biomolecular Structure, Function and Application, Suranaree University of TechnologyNakhon Ratchasima30000Thailand
| | - Anyanee Kamkaew
- School of Chemistry, Institute of Science, Suranaree University of TechnologyNakhon Ratchasima30000Thailand
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2
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8-Aminoquinoline-containing squaric acid congeners as polarity and viscosity probes. J Photochem Photobiol A Chem 2022. [DOI: 10.1016/j.jphotochem.2022.114498] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/16/2022]
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3
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A Near Infra-red Emitting Supramolecular Dye-Polymer Assembly as Promising Platform for Protamine Sensing. J Mol Liq 2022. [DOI: 10.1016/j.molliq.2022.120928] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/03/2022]
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4
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Chakraborty G. Red emitting fluorogenic dye as an efficient turn-on probe for milk allergen. Int J Biol Macromol 2022; 221:1527-1535. [PMID: 36122782 DOI: 10.1016/j.ijbiomac.2022.09.130] [Citation(s) in RCA: 3] [Impact Index Per Article: 1.5] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 04/08/2022] [Revised: 09/14/2022] [Accepted: 09/14/2022] [Indexed: 11/24/2022]
Abstract
Development of simple, fast and non-destructive technique such as fluorescence based method for the quantification of milk allergens in various dairy products is a highly rewarding task. In this contribution, a red emitting fluorogenic dye, quinaldine red (QR) is reported for the detection and quantification of a milk allergen, beta lactoglobulin (β-LG) in milk and whey matrices, utilizing its high selectivity and sensitivity towards β-LG. Detail spectroscopic investigation reveals that binding of QR to the hydrophobic calyx site of β-LG protein substantially reduces the torsional agility and propensity of TICT state formation of QR, rendering the dye highly fluorescent in nature. This enables estimation of β-LG with LOD 52.1(±0.9) nM in buffer solution and 0.21(±0.01) μM in 5 % bovine milk matrix respectively. Additionally, high selectivity and sensitivity, excellent repeatability, quick response, and emission in the biologically favorable red spectral region make QR based fluorometric quantification of β-LG a highly attractive choice. Finally, the estimated β-LG concentrations in milk and whey matrices from fluorometric titration and densitometry methods are found to match excellently with each other, suggesting potential of QR as an efficient turn-on fluorescent probe for the quantification of β-LG (milk allergen) in various dairy products.
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Affiliation(s)
- Goutam Chakraborty
- Laser and Plasma Technology Division, Bhabha Atomic Research Centre, Mumbai 400085, India.
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5
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Mikhaylov A, Wilson RN, Parzuchowski KM, Mazurek MD, Camp CH, Stevens MJ, Jimenez R. Hot-Band Absorption Can Mimic Entangled Two-Photon Absorption. J Phys Chem Lett 2022; 13:1489-1493. [PMID: 35129354 DOI: 10.1021/acs.jpclett.1c03751] [Citation(s) in RCA: 4] [Impact Index Per Article: 2.0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 06/14/2023]
Abstract
It has been proposed that entangled two-photon absorption (E2PA) can be observed with up to 1010 lower photon flux than its classical counterpart, therefore enabling ultralow-power two-photon fluorescence microscopy. However, there is a significant controversy regarding the magnitude of this quantum enhancement in excitation efficiency. We investigated the fluorescence signals from Rhodamine 6G and LDS798 excited with a CW laser or an entangled photon pair source at ∼1060 nm. We observed a signal that originates from hot-band absorption (HBA), which is one-photon absorption from thermally populated vibrational levels of the ground electronic state. This mechanism, which has not been previously discussed in the context of E2PA, produces a signal with a linear power dependence, as would be expected for E2PA. For the typical conditions under which E2PA measurements are performed, contributions from the HBA process could lead to a several orders of magnitude overestimate of the quantum advantage.
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Affiliation(s)
- Alexander Mikhaylov
- JILA, 440 UCB, University of Colorado, Boulder, Colorado 80309, United States
| | - Ryan N Wilson
- JILA, 440 UCB, University of Colorado, Boulder, Colorado 80309, United States
- Department of Physics, 390 UCB, University of Colorado, Boulder, Colorado 80309, United States
| | - Kristen M Parzuchowski
- JILA, 440 UCB, University of Colorado, Boulder, Colorado 80309, United States
- Department of Physics, 390 UCB, University of Colorado, Boulder, Colorado 80309, United States
| | - Michael D Mazurek
- Department of Physics, 390 UCB, University of Colorado, Boulder, Colorado 80309, United States
- National Institute of Standards and Technology, 325 Broadway, Boulder, Colorado 80305, United States
| | - Charles H Camp
- National Institute of Standards and Technology, 100 Bureau Dr., Gaithersburg, Maryland 20899, United States
| | - Martin J Stevens
- National Institute of Standards and Technology, 325 Broadway, Boulder, Colorado 80305, United States
| | - Ralph Jimenez
- JILA, 440 UCB, University of Colorado, Boulder, Colorado 80309, United States
- Department of Chemistry, 215 UCB, University of Colorado, Boulder, Colorado 80309, United States
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6
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Photophysical Study of Styryl Derivatives with Macrocyclic Host and the Effect of Addition of Cholesterol and Neurotransmitter. J Photochem Photobiol A Chem 2022. [DOI: 10.1016/j.jphotochem.2022.113842] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/22/2022]
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7
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Ali R. Tunable Anomalous Scattering and Negative Asymmetry Parameter in a Gain-Functionalized Low Refractive Index Sphere. ACS OMEGA 2022; 7:2170-2176. [PMID: 35071905 PMCID: PMC8771953 DOI: 10.1021/acsomega.1c05662] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Grants] [Track Full Text] [Download PDF] [Figures] [Subscribe] [Scholar Register] [Received: 10/12/2021] [Accepted: 12/21/2021] [Indexed: 06/14/2023]
Abstract
Usually, low refractive index passive spheres exhibit strong forward scattering and a positive asymmetry parameter due to weak interference between the electric and magnetic scattering channels. In this work, we investigate, analytically and numerically, the forward scattering of light by a gain-functionalized low refractive index dielectric sphere. It is shown that by tuning the optical gain one can optimize the interference, which provides a novel paradigm to achieve the zero forward scattering and negative asymmetry parameter even for a low refractive index sphere. As a result, a low-density collection of such identical back scatterers provides an anomalous regime, where the scattering mean free path and extinction mean free path are greater than the transport mean free path. Furthermore, we also provide the numerical guideline to achieve the larger extinction mean free path without achieving preferential back-scattering.
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8
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Warerkar OD, Mudliar NH, Singh PK. A hemicyanine based fluorescence turn-on sensor for amyloid fibril detection in the far-red region. J Mol Liq 2021. [DOI: 10.1016/j.molliq.2021.115322] [Citation(s) in RCA: 2] [Impact Index Per Article: 0.7] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/24/2022]
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9
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Udayan S, Sherin DR, Vijaykumar S, Manojkumar TK, Nampoori VPN, Thomas S. Exploring the LDS 821 dye as a potential NIR probe for the two photon imaging of amyloid fibrils. Biomater Sci 2020; 8:6082-6092. [PMID: 33000782 DOI: 10.1039/d0bm00548g] [Citation(s) in RCA: 2] [Impact Index Per Article: 0.5] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/04/2023]
Abstract
We report a commercially available benzothiazolium based dye LDS 821 (Styryl 9M) as a near infrared fluorescent probe for the detection of lysozyme amyloid fibrils. Change in the photophysical properties of the dye with respect to the change in viscosity of the environment is investigated. Increment in fluorescence lifetime and quantum yield with increment in viscosity proves the dye as a molecular rotor. The dye, upon binding with lysozyme fibrils, exhibits a red shift in the absorption spectrum with increased quantum yield. Strong fluorescence emission near the biological window as compared with Thioflavin T makes the LDS 821 dye a potential probe for imaging amyloid fibrils in vivo. Molecular docking studies were carried out to understand the mode of interaction between the dye and amyloid fibrils. Nonlinear optical properties of the dye upon incorporation with amyloid fibrils were explored, and they show a sizeable enhancement in two photon absorption with an increase in the concentration of amyloid fibrils. The findings suggest that the nonlinear optical absorption of the LDS 821 dye can be used as an alternative marker for amyloid fibrils.
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Affiliation(s)
- Sony Udayan
- International School of photonics, Cochin University of Science and Technology, Cochin, Kerala, India.
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Pal K, Kumar P, Koner AL. Deciphering interior polarity of lysosome in live cancer and normal cells using spectral scanning microscopy. JOURNAL OF PHOTOCHEMISTRY AND PHOTOBIOLOGY. B, BIOLOGY 2020; 206:111848. [PMID: 32203725 DOI: 10.1016/j.jphotobiol.2020.111848] [Citation(s) in RCA: 12] [Impact Index Per Article: 3.0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Subscribe] [Scholar Register] [Received: 09/23/2019] [Revised: 02/24/2020] [Accepted: 03/03/2020] [Indexed: 10/24/2022]
Abstract
A lysosome specific, pH tolerant, and polarity-sensitive fluorescent probe (LyPol) is designed and synthesized for the determination of lysosomal polarity in live cells. LyPol possesses an intramolecular charge transfer (ICT) properties with high quantum yield in water and in other polar solvents such as methanol, ethanol, dimethyl sulfoxide, acetonitrile, etc. The fluorescence maxima and lifetime increase linearly with a non-specific manner with an increase in the polarity of its surrounding environment. A morpholine group connected with an alkyl linker acts as a lysosome directing moiety, which is attached to the fluorescent core of LyPol. The selective localization of LyPol inside the lysosome was confirmed with live-cell confocal imaging. Further, the spectral scanning confocal technique was utilized to determine the emission spectrum of LyPol inside lysosome, and the polarity turns out to be quite lower as compared to water. Moreover, the combined spectroscopic and live-cell microscopy confirms that the interior of the lysosome is significantly non-polar in cancer cells compared to normal cells. We believe that this report on the measuring polarity inside the biological system with a solvatofluorochromic probe will be of immense interest to researchers working in the multidisciplinary area of biophysics, microscopy, chemical biology, and organelle biology.
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Affiliation(s)
- Kaushik Pal
- Bionanotechnology Laboratory, Department of Chemistry, Indian Institute of Science Education and Research Bhopal, Bhopal Bypass Road, Bhauri, Bhopal 462066, Madhya Pradesh, India
| | - Prashant Kumar
- Bionanotechnology Laboratory, Department of Chemistry, Indian Institute of Science Education and Research Bhopal, Bhopal Bypass Road, Bhauri, Bhopal 462066, Madhya Pradesh, India
| | - Apurba Lal Koner
- Bionanotechnology Laboratory, Department of Chemistry, Indian Institute of Science Education and Research Bhopal, Bhopal Bypass Road, Bhauri, Bhopal 462066, Madhya Pradesh, India.
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11
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Chakraborty G, Ray AK, Singh PK, Pal H. Does the degree of substitution on the cyclodextrin hosts impact their affinity towards guest binding? Photochem Photobiol Sci 2020; 19:956-965. [DOI: 10.1039/d0pp00103a] [Citation(s) in RCA: 4] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/16/2023]
Abstract
The degree of substitution on βCD rims by sulfobutylether groups significantly modulates the binding affinity of the SBEnβCD hosts for the studied cationic guest molecule.
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Affiliation(s)
- Goutam Chakraborty
- Laser and Plasma Technology Division
- Bhabha Atomic Research Centre
- Mumbai-400085
- India
| | - Alok K. Ray
- Laser and Plasma Technology Division
- Bhabha Atomic Research Centre
- Mumbai-400085
- India
- Homi Bhabha National Institute
| | - Prabhat K. Singh
- Homi Bhabha National Institute
- Mumbai-400094
- India
- Radiation & Photochemistry Division
- Bhabha Atomic Research Centre
| | - Haridas Pal
- Homi Bhabha National Institute
- Mumbai-400094
- India
- Radiation & Photochemistry Division
- Bhabha Atomic Research Centre
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12
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Ditmangklo B, Taechalertpaisarn J, Siriwong K, Vilaivan T. Clickable styryl dyes for fluorescence labeling of pyrrolidinyl PNA probes for the detection of base mutations in DNA. Org Biomol Chem 2019; 17:9712-9725. [PMID: 31531484 DOI: 10.1039/c9ob01492f] [Citation(s) in RCA: 14] [Impact Index Per Article: 2.8] [Reference Citation Analysis] [Abstract] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/20/2022]
Abstract
Fluorescent hybridization probes are important tools for rapid, specific and sensitive analysis of genetic mutations. In this work, we synthesized novel alkyne-modified styryl dyes for conjugation with pyrrolidinyl peptide nucleic acid (acpcPNA) by click chemistry for the development of hybridization responsive fluorescent PNA probes. The free styryl dyes generally exhibited weak fluorescence in aqueous media, and the fluorescence was significantly enhanced (up to 125-fold) upon binding with DNA duplexes. Selected styryl dyes that showed good responses with DNA were conjugated with PNA via sequential reductive alkylation-click chemistry. Although these probes showed little fluorescence change when hybridized to complementary DNA, significant fluorescence enhancements were observed in the presence of structural defects including mismatched, abasic and base-inserted DNA targets. The largest increase in fluorescence quantum yield (up to 14.5-fold) was achieved with DNA carrying base insertion. Although a number of probes were designed to give fluorescence response to complementary DNA targets, probes that are responsive to mutations such as single nucleotide polymorphism (SNP), base insertion/deletion and abasic site are less common. Therefore, styryl-dye-labeled acpcPNA is a unique probe that is responsive to structural defects in the duplexes that may be further applied for diagnostic purposes.
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Affiliation(s)
- Boonsong Ditmangklo
- Organic Synthesis Research Unit, Department of Chemistry, Faculty of Science, Chulalongkorn University, Phayathai Road, Patumwan, Bangkok 10330, Thailand.
| | - Jaru Taechalertpaisarn
- Organic Synthesis Research Unit, Department of Chemistry, Faculty of Science, Chulalongkorn University, Phayathai Road, Patumwan, Bangkok 10330, Thailand. and National Center for Genetic Engineering and Biotechnology (BIOTEC), National Science and Technology Development Agency, Pathumthani 12120, Thailand
| | - Khatcharin Siriwong
- Materials Chemistry Research Center, Department of Chemistry and Center of Excellence for Innovation in Chemistry, Faculty of Science, Khon Kaen University, Khon Kaen 40002, Thailand
| | - Tirayut Vilaivan
- Organic Synthesis Research Unit, Department of Chemistry, Faculty of Science, Chulalongkorn University, Phayathai Road, Patumwan, Bangkok 10330, Thailand.
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13
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Mudliar NH, Singh PK. A molecular rotor-based turn-on sensor probe for amyloid fibrils in the extreme near-infrared region. Chem Commun (Camb) 2019; 55:3907-3910. [DOI: 10.1039/c9cc01262a] [Citation(s) in RCA: 17] [Impact Index Per Article: 3.4] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/21/2022]
Abstract
An efficient fluorescence turn-on probe for amyloid detection in the extreme near-infrared region (>750 nm) with an exceptional red-shift in the absorption maxima is reported.
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Affiliation(s)
| | - Prabhat K. Singh
- Homi Bhabha National Institute
- Training School Complex
- Mumbai 400094
- India
- Radiation & Photochemistry Division
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14
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Chakraborty G, Ray AK, Singh PK, Pal H. A styryl based fluorogenic probe with high affinity for a cyclodextrin derivative. Org Biomol Chem 2019; 17:6895-6904. [DOI: 10.1039/c9ob01349k] [Citation(s) in RCA: 15] [Impact Index Per Article: 3.0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/26/2022]
Abstract
A styryl-based fluorogenic near-IR probe registers a very high association constant with sulfobutylether substituted β-cyclodextrin host, having prospects as biological marker and improved pH and temperature sensor.
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Affiliation(s)
- Goutam Chakraborty
- Laser and Plasma Technology Division
- Bhabha Atomic Research Centre
- Mumbai 400085
- India
- Homi Bhabha National Institute
| | - Alok K. Ray
- Laser and Plasma Technology Division
- Bhabha Atomic Research Centre
- Mumbai 400085
- India
- Homi Bhabha National Institute
| | - Prabhat K. Singh
- Homi Bhabha National Institute
- Mumbai 400094
- India
- Radiation & Photochemistry Division
- Bhabha Atomic Research Centre
| | - Haridas Pal
- Homi Bhabha National Institute
- Mumbai 400094
- India
- Analytical Chemistry Division
- Bhabha Atomic Research Centre
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15
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Abstract
Chemiluminescence imaging offers a low background and high sensitivity approach to imaging analytes in living cells and animals. Intensity-based measurements have been developed, but require careful consideration of kinetics, probe localization, and fluctuations in quantum yield, all of which complicate quantification. Here, we report a ratiometric strategy for quantitative chemiluminescence imaging of pH. The strategy relies on an energy transfer cascade of chemiluminescence emission from a spiroadamantane 1,2-dioxetane to a ratiometric pH indicator via fluorescent dyes in Enhancer solutions. Monitoring the pH-dependent changes in chemiluminescence emission at multiple wavelengths enables ratiometric imaging and quantification of pH independent from variations due to kinetics and probe concentration.
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Affiliation(s)
- Weiwei An
- Department of Chemistry, Southern Methodist University, Dallas, TX 75275-0314, USA.
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16
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Chakraborty G, Ray AK, Singh PK, Pal H. A highly fluorescent turn-on probe in the near-infrared region for albumin quantification in serum matrix. Chem Commun (Camb) 2018; 54:8383-8386. [DOI: 10.1039/c8cc05058a] [Citation(s) in RCA: 55] [Impact Index Per Article: 9.2] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 02/04/2023]
Abstract
A commercially available styryl based fluorophore in the near-IR region shows exceptional turn-on emission for serum albumins.
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Affiliation(s)
- Goutam Chakraborty
- Laser & Plasma Technology Division
- Bhabha Atomic Research Centre
- Mumbai 400085
- India
- Homi Bhabha National Institute
| | - Alok K. Ray
- Laser & Plasma Technology Division
- Bhabha Atomic Research Centre
- Mumbai 400085
- India
- Homi Bhabha National Institute
| | - Prabhat K. Singh
- Homi Bhabha National Institute
- Training School Complex
- Anushaktinagar
- Mumbai 400094
- India
| | - Haridas Pal
- Homi Bhabha National Institute
- Training School Complex
- Anushaktinagar
- Mumbai 400094
- India
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