0000000001297849

AUTHOR

Johanna M. Alaranta

showing 8 related works from this author

Optimizing the SYBR green related cyanine dye structure to aim for brighter nucleic acid visualization

2022

In recent years, the studies of RNA and its use for the development of RNA based vaccines have increased drastically. Although cyanine dyes are commonly used probes for studying nucleic acids, in a wide range of applications, there is still a growing need for better and brighter dyes. To meet this demand, we have systematically studied the structure of SYBR green-related cyanine dyes to gain a deeper understanding of their interactions with biomolecules especially how they interact with nucleic acids and the structural components which makes them strongly fluorescent. Herein, five new dyes were synthesized, and their photophysical properties were evaluated. Observations of photophysical cha…

kemiallinen synteesiväriaineetProcess Chemistry and TechnologyGeneral Chemical Engineeringtiheysfunktionaaliteoriafluoresenssinukleiinihapotmolecular dockingcyanine dyeX-ray crystal structureDFT calculationstestausbiomolekyylitnucleic acidfluorescent probesyaniiniväriaineetröntgenkristallografiaDyes and Pigments
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Systematic study of SYBR green chromophore reveals major improvement with one heteroatom difference

2021

Five nucleic acid binding cyanine dyes were synthesized and their photophysical properties were evaluated. Changing a single heteroatom in the chromophore causes major differences both in brightness and photostability between the dyes. With such alteration, the brightness of the chromophore increased two-fold compared to the one found in SYBR Green I.

BrightnessMolecular StructureHeteroatomBiomedical EngineeringDNAGeneral ChemistryGeneral MedicineDiaminesChromophorePhotochemistrychemistry.chemical_compoundchemistryQuinolinesSYBR Green INucleic acidRNAGeneral Materials ScienceBenzothiazolessense organsCyanineFluorescent DyesJournal of Materials Chemistry B
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Systematic study of SYBR green chromophore reveals major improvement with one heteroatom difference

2021

Five nucleic acid binding cyanine dyes were synthesized and their photophysical properties were evaluated. Changing a single heteroatom in the chromophore causes major differences both in brightness and photostability between the dyes. With such alteration, the brightness of the chromophore increased two-fold compared to the one found in SYBR Green I. peerReviewed

väriaineetsynteettiset väriaineetsense organsvalokemiamerkkiaineet
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CCDC 2194827: Experimental Crystal Structure Determination

2022

Related Article: Johanna M. Alaranta, Khai-Nghi Truong, María Francisca Matus, Sami A. Malola, Kari T. Rissanen, Sailee S. Shroff, Varpu S. Marjomäki, Hannu J. Häkkinen, Tanja M. Lahtinen|2022|Dyes Pigm.|208|110844|doi:10.1016/j.dyepig.2022.110844

4-[2-(dimethylamino)ethenyl]-2-(methylsulfanyl)-1-phenylquinolin-1-ium iodide monohydrateSpace GroupCrystallographyCrystal SystemCrystal StructureCell ParametersExperimental 3D Coordinates
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CCDC 2194825: Experimental Crystal Structure Determination

2022

Related Article: Johanna M. Alaranta, Khai-Nghi Truong, María Francisca Matus, Sami A. Malola, Kari T. Rissanen, Sailee S. Shroff, Varpu S. Marjomäki, Hannu J. Häkkinen, Tanja M. Lahtinen|2022|Dyes Pigm.|208|110844|doi:10.1016/j.dyepig.2022.110844

Space GroupCrystallographyCrystal SystemCrystal StructureCell Parameters2-{[2-(dimethylamino)-1-phenylquinolin-4(1H)-ylidene]methyl}-3-methyl-13-benzoxazol-3-ium chloride methanol unknown solvate hemihydrateExperimental 3D Coordinates
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CCDC 2194823: Experimental Crystal Structure Determination

2022

Related Article: Johanna M. Alaranta, Khai-Nghi Truong, María Francisca Matus, Sami A. Malola, Kari T. Rissanen, Sailee S. Shroff, Varpu S. Marjomäki, Hannu J. Häkkinen, Tanja M. Lahtinen|2022|Dyes Pigm.|208|110844|doi:10.1016/j.dyepig.2022.110844

2-{[2-(dimethylamino)-1-phenylpyridin-4(1H)-ylidene]methyl}-3-methyl-13-benzoxazol-3-ium chloride dihydrateSpace GroupCrystallographyCrystal SystemCrystal StructureCell ParametersExperimental 3D Coordinates
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CCDC 2194826: Experimental Crystal Structure Determination

2022

Related Article: Johanna M. Alaranta, Khai-Nghi Truong, María Francisca Matus, Sami A. Malola, Kari T. Rissanen, Sailee S. Shroff, Varpu S. Marjomäki, Hannu J. Häkkinen, Tanja M. Lahtinen|2022|Dyes Pigm.|208|110844|doi:10.1016/j.dyepig.2022.110844

2-{[2-(dimethylamino)-1-phenylquinolin-4(1H)-ylidene]methyl}-3-methyl-13-benzothiazol-3-ium tetrafluoroborateSpace GroupCrystallographyCrystal SystemCrystal StructureCell ParametersExperimental 3D Coordinates
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CCDC 2194824: Experimental Crystal Structure Determination

2022

Related Article: Johanna M. Alaranta, Khai-Nghi Truong, María Francisca Matus, Sami A. Malola, Kari T. Rissanen, Sailee S. Shroff, Varpu S. Marjomäki, Hannu J. Häkkinen, Tanja M. Lahtinen|2022|Dyes Pigm.|208|110844|doi:10.1016/j.dyepig.2022.110844

Space GroupCrystallographyCrystal System2-{[2-(dimethylamino)-1-phenylpyridin-4(1H)-ylidene]methyl}-3-methyl-13-benzothiazol-3-ium chloride methanol solvate dihydrateCrystal StructureCell ParametersExperimental 3D Coordinates
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