• Journal of the Korean Institute of Electrical and Electronic Material Engineers
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• v.28 no.5
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• pp.314-319
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• 2015

In this research, we focused on the development of cy3 dye with high thermal stability and good solubility for LCD color filter. Cy3 dyes were prepared through the synthetic procedure of two steps. The synthesized cy3 dyes were characterized by using NMR, FT-IR, UV/Vis spectroscopy, and TGA. These cy3 dyes showed maximum absorption wave length (${\lambda}_{max}$) in the range of 549~555 nm in UV/Vis spectrum. And we confirmed that solubility characteristics and thermal stability of cy3 dyes were dependent on the structure of counter cation. Cy3 dyes with methyl counter cation and ethyl counter cation have good solubility in organic solvents such as chloroform, ethanol, and PGME. Moreover, Cy3 dye with ethyl counter cation gave excellent thermal stability in TGA thermograms. And Cy3 dye with ethyl counter cation showed good result in photoresist film test.

• Journal of the Korean Institute of Electrical and Electronic Material Engineers
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• v.29 no.1
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• pp.35-39
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• 2016

In this research, we focused on the improvement of cy3 dye's characteristics for LCD color filter. Solubility and thermal stability are main characteristics of dyes for LCD color filter. We performed experiment to change counter cation of cy3 dyes with alkoxy substituent for these purposes. These cy3 dyes (1b~5b) were prepared through the synthetic procedure of three steps. The synthesized new cy3 dyes were charaterized by using NMR, FT-IR, UV/Vis spectroscopy, and TGA. These cy3 dyes showed purple color and maximum absorption wavelength (${\lambda}_{max}$) in the range of 578~590 nm in UV/Vis spectrum. We confirmed that solubility and thermal stability of cy3 dyes were dependent on the structure of counter cation. Cy3 dyes with alkoxy substituent have good solubility in organic solvents such as dichloromethane, methanol, and acetone. Especially, Cy3 dye with 4-nitrobenzyl counter cation (5b) gave excellent solubility characteristics.

• Journal of Microbiology and Biotechnology
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• v.15 no.6
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• pp.1377-1383
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• 2005

In a cDNA microarray experiment using Cy3 and Cy5 as labeling agents, particularly for the direct design, cDNAs from some genes incorporate one dye more efficiently than the other, which is referred to as the gene-specific dye bias. Dye-swaps, in which two dyes are switched on replicate arrays, are commonly used to control the gene-specific dye bias. We developed a simple procedure to extract the gene-specific dye bias information from a partial dye swap experiment. We detected gene-specific dye bias by identifying outliers in an X-Y plane, where the X axis represents the average log-ratio from two sets of dye swap pairs and the Y axis exhibits the average log ratio of four forward labeled arrays. We used this information for detecting differentially expressed genes, of which the additionally detected genes were validated by real-time RT-PCR.

• Asian-Australasian Journal of Animal Sciences
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• v.28 no.6
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• pp.788-795
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• 2015

Two dimensional-fluorescence difference gel electrophoresis (2D DIGE) is an emerging technique for comparative proteomics, which improves the reproducibility and reliability of differential protein expression analysis between samples. The purpose of this study was to investigate bovine pregnancy-specific proteins in the proteome between bovine pregnant and non-pregnant serum using DIGE technique. Serums of 2 pregnant Holstein dairy cattle at day 21 after artificial insemination and those of 2 non-pregnant were used in this study. The pre-electrophoretic labeling of pregnant and non-pregnant serum proteins were mixed with Cy3 and Cy5 fluorescent dyes, respectively, and an internal standard was labeled with Cy2. Labeled proteins with Cy2, Cy3, and Cy5 were separated together in a single gel, and then were detected by fluorescence image analyzer. The 2D DIGE method using fluorescence CyDye DIGE flour had higher sensitivity than conventional 2D gel electrophoresis, and showed reproducible results. Approximately 1,500 protein spots were detected by 2D DIGE. Several proteins showed a more than 1.5-fold up and down regulation between non-pregnant and pregnant serum proteins. The differentially expressed proteins were identified by MALDI-TOF mass spectrometer. A total 16 protein spots were detected to regulate differentially in the pregnant serum, among which 7 spots were up-regulated proteins such as conglutinin precursor, modified bovine fibrinogen and IgG1, and 6 spots were down-regulated proteins such as hemoglobin, complement component 3, bovine fibrinogen and IgG2a three spots were not identified. The identified proteins demonstrate that early pregnant bovine serum may have several pregnancy-specific proteins, and these could be a valuable information for the development of pregnancy-diagnostic markers in early pregnancy bovine serum.

• Journal of Korean Neurosurgical Society
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• v.61 no.4
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• pp.434-440
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• 2018

Objective : The purpose of this study was to find an optimal delivery route for clinical trials of intrathecal cell therapy for spinal cord injury in preclinical stage. Methods : We compared in vivo distribution of Cy5.5 fluorescent dye in the spinal cord region at various time points utilizing in vivo optical imaging techniques, which was injected into the lateral ventricle (LV) or cisterna magna (CM) of rats. Results : Although CM locates nearer to the spinal cord than the LV, significantly higher signal of Cy5.5 was detected in the thoracic and lumbar spinal cord region at all time points tested when Cy5.5 was injected into the LV. In the LV injection Cy5.5 signal in the thoracic and lumbar spinal cord was observed within 12 hours after injection, which was maintained until 72 hours after injection. In contrast, Cy5.5 signal was concentrated at the injection site in the CM injection at all time points. Conclusion : These data suggested that the LV might be suitable for preclinical injection route of therapeutics targeting the spinal cord to test their treatment efficacy and biosafety for spinal cord diseases in small animal models.

• Bulletin of the Korean Chemical Society
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• v.32 no.10
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• pp.3610-3613
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• 2011

CdS nanoparticles (NPs) were synthesized in an aqueous phase in order to investigate their spectral behaviors as efficient fluorescence resonance energy transfer (FRET) donors for various organic dye acceptors. Our prepared CdS NPs exhibiting strong and broad emission spectra between 480-520 nm were able to transfer energy in a wide wavelength region from green to red fluorescence dyes. Rhodamine 6G (Rh6G), rhodamine B (RhB), and sulforhodamine 101 acid (Texas red) were tested as acceptors of the energy transfer from the CdS NPs. The three dyes and synthesized CdS NPs exhibited good FRET behaviors as acceptors and donors, respectively. Energy transfers from the CdS NPs and organic Cy3 dye were compared to the same acceptor Texas red dye at different concentrations. Our prepared CdS NPs appeared to exhibit better FRET behaviors comparable to those of the Cy3 dye. These CdS NPs in an aqueous solution may be efficient FRET donors for various organic dyes in a wide wavelength range between green and red colors.

• Genomics & Informatics
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• v.5 no.3
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• pp.113-117
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• 2007

The development of microarray technology has facilitated the understanding of gene expression profiles. Despite its convenience, the cause of dye-bias that confounds data interpretation in dual-color DNA microarray experiments is not well known. In order to economize time and money, it is necessary to identify the cause of dye bias, since designing dye-swaps to reduce the dye-specific bias tends to be very expensive. Hence, we sought to determine the reliable cause of systematic dye bias after treating murine macrophage RAW 264.7 cells with 2-keto-3-deoxyoctonate (KDO), interferon-beta $(IFN-{\beta})$, and 8-bromoadenosine (8-BR). To find the cause of systematic dye bias from the point of view of fluorescence quenching, we examined the correlation between systematic dye bias and the proportion of each nucleotide in mRNA and oligonucleotide probe sequence. Cy3-dye bias was highly correlated with the proportion of adenines. Our results support the fact that systematic dye bias is affected by fluorescence quenching of each feature. In addition, we also found that the strength of fluorescence quenching is based on not only dye-dye interactions but also dye-nucleotide interactions as well.

• Molecular & Cellular Toxicology
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• v.1 no.2
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• pp.92-98
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• 2005

DNA microarray analysis of gene expression in toxicogenomics typically requires relatively large amounts of total RNA. This limits the use of DNA microarray when the sample available is small. To confront this limitation, different methods of linear RNA amplification that generate antisense RNA (aRNA) have been optimized for microarray use. The target preparation strategy using amplified RNA in DNA microarray protocol can be divided into direct-incorporation labeling which resulted in cDNA targets (Cy-dye labeled cDNA from aRNA) and indirect-labeling which resulted in cRNA targets (i.e. Cy-dye labeled aRNA), respectively. However, despite the common use of amplified targets (cDNA or cRNA) from aRNAs, no systemic assessment for the use of amplified targets and bias in terms of hybridization performance has been reported. In this investigation, we have compared the hybridization performance of cRNA targets with cDNA targets from aRNA on a 10 K cDNA microarrays. Under optimized hybridization conditions, we found that 43% of outliers from cDNA technique and 86% from the outlier genes were reproducibly detected by both targets hybridization onto cDNA microarray. This suggests that the cRNA labeling method may have a reduced capacity for detecting the differential gene expression when compared to the cDNA target preparation. However, further validation of this discordant result should be pursued to determine which techniques possesses better accuracy in identifying truly differential genes.

• Fisheries and Aquatic Sciences
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• v.8 no.3
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• pp.185-187
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• 2005

We tested the in vivo ability of a DNA chip to detect virus-specific genes from virus-infected olive flounder Paralichthys olivaceus and rainbow trout Oncorhynchus mykiss. Target cDNA was obtained from total RNA of virus infected cell lines by reverse transcription (RT) and was labeled with fluorescent dye (Cy5-dUTP). The results show the successful detection of infectious hematopoietic necrosis virus (IHNV) and viral hemorrhagic septicaemia virus (VHSV) genes in the virus-infected fishes.

• Journal of the Institute of Electronics Engineers of Korea SC
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• v.48 no.3
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• pp.53-59
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• 2011

Charge transfer through DNA oligonucleotides has been investigated for potential applications of DNA into molecular electrooptic switching devices. Electrons were injected using gold electrode probes where DNA oligomers were adsorbed that are separated in medium. The results show that increased adsorption of DNA reduces the ionization current due to the combined effect of charge transfer through DNA and surface-limited charge transport. The probe-based charge injection was extended to examine the capability of extinguishing fluorescence of Cy3 dye molecules attached to DNA. It is expected that the results may be employed to implementing a novel electrooptic switching device based on DNA molecules.