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★★★★★
☆☆☆☆☆
USD 200 /hr
Hire Dr. Kira G.
Denmark
USD 200 /hr

Freelance CMC and in vitro diagnostics consultancy/15+ years experience R&D and academia

Profile Summary
Subject Matter Expertise
Services
Writing Technical Writing
Research User Research, Feasibility Study, Technology Scouting
Consulting Manufacturing Consulting
Data & AI Data Mining
Product Development Formulation, Stability/Shelf Life Testing, Concept Development
Work Experience

Technical University of Denmark

- Present

Associate Professor

Technical University of Denmark

August 2017 - Present

Associate Professor

University of Southern Denmark

2012 - 2017

Visiting Scholar

Stanford University

2013 - 2014

Visiting Professor

University of California Santa Barbara

2012 - 2013

Postdoctoral Fellow

University of Southern Denmark

2009 - 2012

Education

Data Structures

University of California San Diego

March 2017 - Present

Strategical Management

Copenhagen Business School

February 2017 - Present

trainee/FELASA C course animal science (Experimental Medicine)

University of Copenhagen

April 2018 - July 2018

Infectious Diseases

Stanford University

September 2017 - November 2017

Data Analysis and Statistical Inference course

Duke University

June 2015 - July 2015

Project Management course

University of California Irvine

January 2015 - May 2015

Lecturer Training Programme

University of Southern Denmark

2013 - 2014

MSc, reasearch assistant, 2009: PhD (Nucleic Acid Lab)

Institute of Bioorganic Chemistry

January 2003 - December 2009

PhD in Bioorganic Chemistry - “Modified nucleosides containing perylene or (phenylethynyl)pyrenes in the 2'-position: synthesis and spectral properties within fluorescent oligonucleotide probes” (Shemyakin-Ovchinnikov Institute of Bioorganic Chemistry)

Russian Academy of Sciences

2006 - 2009

PhD Project - The Sixth Framework Program Marie Curie Host Fellowship for Early Stage Research Training (Nucleic Acid Center)

University of Southern Denmark

2006 - 2008

M.Sc Degree in Chemistry - “Phenylethynylpyrene-2′-arabino-uridine carbamates as novel fluorescent labels for DNA” (Chemistry)

IBCH RAS and Higher Chemical College of the Russian Academy of Sciences

2001 - 2006

Certifications

  • FELASA ABD

    UCPH Denmark

    July 2018 - Present

Publications
JOURNAL ARTICLE
Kira Gerber Astakhova, Nathalie Abbrederis, Despoina Paloglou (2025). Smart lipid nanoparticles: the chemistry driving targeted therapeutics . Trends in Chemistry.
Astakhova, K.(2025). Kira Astakhova . Angewandte Chemie International Ed in English. 64. (25). p. e202508695.
Song, M.-S., Bustos, A.H., Bastue, L., Mikutavicius, J., Swiderski, P., Clemens, K.J., Habib, N., Rossi, J., Astakhova, K.(2025). New Transferrin Receptor-Targeting Conjugate Effectively Delivers DNA to Mouse Brain . Angewandte Chemie International Edition. 64. (24).
Min sun Song, Adrian H. Bustos, Lise Bastue, Justas Mikutavicius, Piotr Swiderski, Kelly J. Clemens, Nagy Habib, John Rossi, Kira Astakhova(2025). New Transferrin Receptor-Targeting Conjugate Effectively Delivers DNA to Mouse Brain . Angewandte Chemie - International Edition. 64. (24). John Wiley and Sons Ltd
Jin, W., Li, X., Argandona, S.M., Ray, R.M., Lin, M.K.T.H., Melle, F., Clergeaud, G., Lars Andresen, T., Nielsen, M., Fairen‐Jimenez, D., et al.(2025). Surface engineering of metal-organic framework nanoparticles-based miRNA carrier: Boosting RNA stability, intracellular delivery and synergistic therapy . Journal of Colloid and Interface Science. 677. p. 429-440.
Surface engineering of metal-organic framework nanoparticles-based miRNA carrier @article{65e052cc781043d3aaa475d68ecc398b, title = "Surface engineering of metal-organic framework nanoparticles-based miRNA carrier: Boosting RNA stability, intracellular delivery and synergistic therapy", abstract = "MicroRNAs (miRNAs) are small noncoding RNAs that are critical for the regulation of multiple physiological and pathological processes, thus holding great clinical potential. However, the therapeutic applications of miRNAs are severely limited by their biological instability and poor intracellular delivery. Herein, we describe a dual-layers surface engineering strategy to design an efficient miRNA delivery nanosystem based on metal–organic frameworks (MOFs) incorporating lipid coating. The resulting nanoparticle system was demonstrated to protect miRNA from ribonuclease degradation, enhance cellular uptake and facilitate lysosomal escape. These ensured effective miRNA mediated gene therapy, which synergized with MOF-specific photodynamic therapy and pre-encapsulated doxorubicin (Dox) chemotherapy to provide a multifunctional with therapeutic effectiveness against cencer cells The mechanisms of miRNA binding and Dox loading were revealed, demonstrating the potential of the present MOFs surface-engineered strategy to overcome their inherent pore-size restriction for macromolecular miRNA carrying, enableefficient co-delivery. In vitro studies revealed the potential of our multifunctional system for miRNA delivery and the demonstrated the therapeutic effectiveness against cancer cells, thereby providing a versatile all-in-one MOFs strategy for delivery of nucleic acids and diverse therapeutic molecules in synergistic therapy.", keywords = "Co-carrying, Intracellular delivery, Metal–organic frameworks, miRNA stabilization, Surface engineering, Synergistic treatment", author = "Weiguang Jin and Xin Li and Argandona, \{Sergio Mercado\} and Ray, \{Roslyn M.\} and Lin, \{Marie Karen Tracy Hong\} and Francesca Melle and Gael Clergeaud and \{Lars Andresen\}, Thomas and Martin Nielsen and David Fairen‐Jimenez and Kira Astakhova and Katrine Qvortrup", note = "Publisher Copyright: {\textcopyright} 2024 Elsevier Inc.", year = "2025", doi = "10.1016/j.jcis.2024.08.074", language = "English", volume = "677", pages = "429--440", journal = "Journal of Colloid and Interface Science", issn = "0021-9797", publisher = "Academic Press", } . Journal of Colloid and Interface Science.
Adrián Hernández-Bustos, Begona Bolos, Kira Astakhova (2024). Biomarkers in Skin Autoimmunity—An Update on Localised Scleroderma . Skin Health and Disease.
Ferreira, I., Miranda, P., Astakhova, K., Weber, G.(2024). Improved melting temperature predictions for single LNA modifications in synthetic DNA oligonucleotides . Chemical Physics. 579.
Biomarkers in skin autoimmunity—An update on localised scleroderma @article{999d5239ab324be6b34b0f059d5f4b7a, title = "Biomarkers in skin autoimmunity—An update on localised scleroderma", abstract = "Human autoimmune diseases are complex and highly diverse conditions that can be of localised or systemic nature. Understanding the basic biology of autoimmune diseases goes hand in hand with providing the clinics with valuable biomarkers for managing these diseases. The focus of this review is paid to localised scleroderma, an autoimmune disease affecting skin and subcutaneous tissue. Localised scleroderma has very few serological biomarkers for clinical analyses distinguishing it from main differentials, and yet noneffective prognostic biomarkers. With this regard, the review covers well-established and new biomarkers such as cell surface proteins, autoantibodies and cytokines. In recent few years, several new biomarkers have been suggested, many provided with modern genomic studies. This includes epigenetic regulation of DNA, RNA transcriptomics and regulatory RNA such as microRNA and long non-coding RNA. These findings can for the first time shed light on the genetic mechanisms behind the disease and contribute to improved diagnosis and treatment.", author = "Adri{\'a}n Hern{\'a}ndez-Bustos and Begona Bolos and Kira Astakhova", note = "Publisher Copyright: {\textcopyright} 2024 The Authors. Skin Health and Disease published by John Wiley \& Sons Ltd on behalf of British Association of Dermatologists.", year = "2024", doi = "10.1002/ski2.335", language = "English", volume = "4", journal = "Skin Health and Disease", issn = "2690-442X", publisher = "Oxford University Press", number = "2", } . Skin Health and Disease.
Ho, L.L.Y., Schiess, G.H.A., Miranda, P., Weber, G., Astakhova, K.(2024). Pseudouridine and N1-methylpseudouridine as potent nucleotide analogues for RNA therapy and vaccine development . RSC Chemical Biology. 5. (5). p. 418-425.
Improved melting temperature predictions for single LNA modifications in synthetic DNA oligonucleotides @article{091663bbd1f945e091f943d5b3e05949, title = "Improved melting temperature predictions for single LNA modifications in synthetic DNA oligonucleotides", abstract = "Locked nucleic acids (LNA) is a modification to DNA that generally increases the melting temperature in double strands. The nearest-neighbour (NN) provides one of the best prediction accuracies and is attractive for its simplicity. Here, we revise the NN parametrization for single LNA modifications with a very large set of published melting temperatures and using a parameter optimization method especially aimed at accurate melting temperature predictions. We show that the new set of LNA-NN parameters achieves an improved prediction of 0.88 ◦C over older parameter sets that achieve 1.7 °C for this data. We also tested if the existing salt corrections for DNA could be used for LNA as well. Using a small set of low salt melting temperatures we show that by applying the usual DNA salt corrections one may obtain predictions within an average uncertainty of 3.0 °C. ", keywords = "DNA melting temperatures, Locked nucleic acids (LNA), Nearest-neighbour model", author = "Izabela Ferreira and P{\^a}mella Miranda and Kira Astakhova and Gerald Weber", year = "2024", doi = "10.1016/j.chemphys.2024.112204", language = "English", volume = "579", journal = "Chemical Physics", issn = "0301-0104", publisher = "Elsevier", } . Chemical Physics.
Lyana L. Y. Ho, Gabriel H. A. Schiess, Pâmella Miranda, Gerald Weber, Kira Astakhova (2024). Pseudouridine and N1-methylpseudouridine as potent nucleotide analogues for RNA therapy and vaccine development . RSC Chemical Biology.
Lyana L.Y. Ho, Gabriel H.A. Schiess, Pâmella Miranda, Gerald Weber, Kira Astakhova(2024). Pseudouridine and N1-methylpseudouridine as potent nucleotide analogues for RNA therapy and vaccine development . RSC Chemical Biology. 5. p. 418–425. Royal Society of Chemistry
Hernández-Bustos, A., Bolos, B., Astakhova, K.(2024). Biomarkers in skin autoimmunity—An update on localised scleroderma . Skin Health and Disease. 4. (2).
Sangita Khatri, Adrian H. Bustos, Christian Damsgaard Jørgensen, Kathryn S. Torok, Lise-Mette Rahbek Gjerdrum, Kira Astakhova (2023). Synthetic Nucleic Acid Antigens in Localized Scleroderma . International Journal of Molecular Sciences.
Sangita Khatri, Adrian H. Bustos, Christian Damsgaard Jørgensen, Kathryn S. Torok, Lise-Mette Rahbek Gjerdrum, Kira Astakhova (2023). Synthetic Nucleic Acid Antigens in Localized Scleroderma . International Journal of Molecular Sciences.
Sofie Slott, Ruslan Kalendar, Cecilie Schiøth Krüger-Jensen, Izabela Ferreira da Silva, Nadia Bom Pedersen, Kira Astakhova (2023). Mutations in microRNA-128-2-3p identified with amplification-free hybridization assay . PLOS ONE.
Sofie Slott, Kira Astakhova (2023). MicroRNA Pools Synthesized Using Tandem Solid-Phase Oligonucleotide Synthesis . The Journal of Organic Chemistry.
Adrián Hernández Bustos, Elisa Martiny, Nadia Bom Pedersen, Rohith Pavan Parvathaneni, Jonas Hansen, Hanlee P. Ji, Kira Astakhova (2023). Short Tandem Repeat DNA Profiling Using Perylene-Oligonucleotide Fluorescence Assay . Analytical Chemistry.
Khatri, S., Bustos, A.H., Jørgensen, C.D., Torok, K.S., Gjerdrum, L.-M.R., Astakhova, K.(2023). Synthetic Nucleic Acid Antigens in Localized Scleroderma . International Journal of Molecular Sciences. 24. (24).
Short Tandem Repeat DNA Profiling Using Perylene-Oligonucleotide Fluorescence Assay @article{2bf554dd9ccd45e0af791613128ca52a, title = "Short Tandem Repeat DNA Profiling Using Perylene-Oligonucleotide Fluorescence Assay", abstract = "We report an amplification-free genotyping method to determine the number of human short tandem repeats (STRs). DNA-based STR profiling is a robust method for genetic identification purposes such as forensics and biobanking and for identifying specific molecular subtypes of cancer. STR detection requires polymerase amplification, which introduces errors that obscure the correct genotype. We developed a new method that requires no polymerase. First, we synthesized perylene-nucleoside reagents and incorporated them into oligonucleotide probes that recognize five common human STRs. Using these probes and a bead-based hybridization approach, accurate STR detection was achieved in only 1.5 h, including DNA preparation steps, with up to a 1000-fold target DNA enrichment. This method was comparable to PCR-based assays. Using standard fluorometry, the limit of detection was 2.00 ± 0.07 pM for a given target. We used this assay to accurately identify STRs from 50 human subjects, achieving >98\% consensus with sequencing data for STR genotyping.", author = "\{Hern{\'a}ndez Bustos\}, Adri{\'a}n and Elisa Martiny and \{Bom Pedersen\}, Nadia and Parvathaneni, \{Rohith Pavan\} and Jonas Hansen and Ji, \{Hanlee P.\} and Kira Astakhova", note = "Publisher Copyright: {\textcopyright} 2023 American Chemical Society. All rights reserved.", year = "2023", doi = "10.1021/acs.analchem.3c00063", language = "English", volume = "95", pages = "7872--7879", journal = "Analytical Chemistry", issn = "0003-2700", publisher = "American Chemical Society", number = "20", } . Analytical Chemistry.
Sangita Khatri, Adrian H Bustos, Christian Damsgaard Jørgensen, Kathryn S. Torok, Lise-Mette Rahbek Gjerdrum, Kira Astakhova(2023). Synthetic Nucleic Acid Antigens in Localized Scleroderma . International Journal of Molecular Sciences. 24. (24). MDPI AG
Slott, S., Krüger-Jensen, C.S., Ferreira da Silva, I., Pedersen, N.B., Astakhova, K.(2023). Mutations in microRNA-128-2-3p identified with amplification-free hybridization assay . PLoS ONE. 18. (8 August).
MicroRNA Pools Synthesized Using Tandem Solid-Phase Oligonucleotide Synthesis @article{2665ee59b2574b00a4e7ea4a650c0a3b, title = "MicroRNA Pools Synthesized Using Tandem Solid-Phase Oligonucleotide Synthesis", abstract = "Herein, we describe a new approach to make pools of microRNA targeting breast cancer cells. The microRNA pools were synthesized at once on the same solid support using the “Tandem Oligonucleotide Synthesis” strategy. We make up to four consecutive microRNAs (miR129-1-5p, miR31, miR206, and miR27b-3p) using 2′/3′OAc nucleotide phosphoramidites, with the total length of the pool reaching 88 nucleotides. The developed phosphoramidites, when combined, give a cleavable moiety that separates the microRNAs and is cleaved using standard post-RNA synthesis cleavage conditions. Furthermore, we investigate making branched pools (microRNA dendrimers) versus linear pools as a strategy to further improve the product yields. Our approach provides with microRNA pools in high yields, which is of relevance to the growing demand on synthetic RNA oligomers for nucleic acid research and technology.", author = "Sofie Slott and Kira Astakhova", note = "Publisher Copyright: {\textcopyright} 2023 American Chemical Society.", year = "2023", doi = "10.1021/acs.joc.3c00376", language = "English", volume = "88", pages = "9760--9768", journal = "Journal of organic chemistry", issn = "0022-3263", publisher = "American Chemical Society", number = "14", } . Journal of organic chemistry.
Sofie Slott, Cecilie Schiøth Krüger-Jensen, Izabela Ferreira da Silva, Nadia Bom Pedersen, Kira Astakhova(2023). Mutations in microRNA-128-2-3p identified with amplification-free hybridization assay . PLOS ONE. 18. Public Library of Science
Hernández Bustos, A., Martiny, E., Bom Pedersen, N., Parvathaneni, R.P., Hansen, J., Ji, H.P., Astakhova, K.(2023). Short Tandem Repeat DNA Profiling Using Perylene-Oligonucleotide Fluorescence Assay . Analytical Chemistry. 95. (20). p. 7872-7879.
Muniz, M.I., Bustos, A.H., Slott, S., Astakhova, K., Weber, G.(2023). Cation valence dependence of hydrogen bond and stacking potentials in DNA mesoscopic models . Biophysical Chemistry. 294.
Cation valence dependence of hydrogen bond and stacking potentials in DNA mesoscopic models @article{629015725e434f4a802fbeb78284d7c4, title = "Cation valence dependence of hydrogen bond and stacking potentials in DNA mesoscopic models", abstract = "Monovalent and divalent cations play a crucial role in living cells and for molecular techniques such as PCR. Here we evaluate DNA melting temperatures in magnesium (Mg2+) and magnesium‑potassium (Mg2++ K+) buffers with a mesoscopic model that allows us to estimate hydrogen bonds and stacking interaction potentials. The Mg2+ and Mg2++ K+ results are compared to previous calculations for sodium ions (Na+), in terms of equivalent sodium concentration and ionic strength. Morse potentials, related to hydrogen bonding, were found to be essentially constant and unaffected by cation conditions. However, for stacking interactions we find a clear dependence with ionic strength and cation valence. The highest ionic strength variations, for both hydrogen bonds and stacking interactions, was found at the sequence terminals. This suggests that end-to-end interactions in DNA will be strongly dependent on cation valence and ionic strength.", keywords = "DNA Mg2 +, DNA ion competition, Mesoscopic model, Peyrard-Bishop model", author = "Muniz, \{Maria Izabel\} and Bustos, \{Adrian H.\} and Sofie Slott and Kira Astakhova and Gerald Weber", year = "2023", doi = "10.1016/j.bpc.2022.106949", language = "English", volume = "294", journal = "Biophysical Chemistry", issn = "0301-4622", publisher = "Elsevier", } . Biophysical Chemistry.
Slott, S., Astakhova, K.(2023). MicroRNA Pools Synthesized Using Tandem Solid-Phase Oligonucleotide Synthesis . Journal of Organic Chemistry. 88. (14). p. 9760-9768.
Fajardo P, Taskova M, Martín-Serrano MA, Hansen J, Slott S, Jakobsen AK, Wibom ML, Salegi B, Muñoz A, Barbachano A, et al.(2022). p38γ and p38δ as biomarkers in the interplay of colon cancer and inflammatory bowel diseases . Cancer communications (London, England).
Khatri S, Hansen J, Pedersen NB, Brandt-Clausen IP, Gram-Nielsen S, Mendes AC, Chronakis IS, Keiding UB, Catrina AI, Rethi B, et al.(2022). Cyclic Citrullinated Peptide Aptamer Treatment Attenuates Collagen-Induced Arthritis . Biomacromolecules.
Sangita Khatri, Jonas Hansen, Nadia Bom Pedersen, Idamarie Palsbom Brandt-Clausen, Sanne Gram-Nielsen, Ana C. Mendes, Ioannis S. Chronakis, Ulrik Bering Keiding, Anca I. Catrina, Bence Rethi, et al.(2022). Cyclic Citrullinated Peptide Aptamer Treatment Attenuates Collagen-Induced Arthritis . Biomacromolecules. 23. (5). p. 2126--2137. American Chemical Society
Khatri, S., Hansen, J., Pedersen, N.B., Brandt-Clausen, I.P., Gram-Nielsen, S., Mendes, A.C., Chronakis, I.S., Keiding, U.B., Catrina, A.I., Rethi, B., et al.(2022). Cyclic Citrullinated Peptide Aptamer Treatment Attenuates Collagen-Induced Arthritis . Biomacromolecules. 23. (5). p. 2126-2137.
van Hees, M., Slott, S., Hansen, A.H., Kim, H.S., Ji, H.P., Astakhova, K.(2022). New approaches to moderate CRISPR-Cas9 activity: Addressing issues of cellular uptake and endosomal escape . Molecular Therapy. 30. (1). p. 32-46.
Maja van Hees, Sofie Slott, Anders Højgaard Hansen, Heon Seok Kim, Hanlee P Ji, Kira Astakhova(2022). New Approaches to Moderate CRISPR-Cas9 Activity . Molecular Therapy. 30. (1). p. 32--46. Cell Press
Jin, W., Li, X., Clergeaud, G., Ray, R.M., Hong Lin, M.K.T., Andresen, T.L., Gotfredsen, C.H., Nielsen, M., Astakhova, K., Qvortrup, K.(2022). Small RNA stabilization via non-covalent binding with a metalloporphyrin nanocage to accomplish synergistic gene and photodynamic therapy . Cell Reports Physical Science. 3. (12).
Weiguang Jin, Li Xin, Gael Clergeaud Veiga, Roslyn M. Ray, Marie Karen Tracy Hong Lin, Thomas Lars Andresen, Charlotte Held Gotfredsen, Martin Nielsen, Kira Astakhova, Katrine Qvortrup(2022). Small RNA stabilization via non-covalent binding with a metalloporphyrin nanocage to accomplish synergistic gene and photodynamic therapy . Cell Reports Physical Science. 3. (12). Cell Press
Fajardo, P., Taskova, M., Martín-Serrano, M.A., Hansen, J., Slott, S., Jakobsen, A.K., Wibom, M.-L., Salegi, B., Muñoz, A., Barbachano, A., et al.(2022). p38γ and p38δ as biomarkers in the interplay of colon cancer and inflammatory bowel diseases . Cancer Communications. 42. (9). p. 897-901.
Pilar Fajardo, Maria Taskova, Miguel A. Martín-Serrano, Jonas Hansen, Sofie Slott, Anna K. Jakobsen, Marie-Louise Wibom, Beñat Salegi, Alberto Muñoz, Antonio Barbachano, et al.(2022). p38γ and p38δ as biomarkers in the interplay of colon cancer and inflammatory bowel diseases . Cancer Communications. 42. p. 897--901. John Wiley \& Sons Inc.
Izabela Ferreira, Sofie Slott, Kira Astakhova, Gerald Weber(2021). Complete Mesoscopic Parameterization of Single LNA Modifications in DNA Applied to Oncogene Probe Design . Journal of Chemical Information and Modeling. 61. (7). p. 3615--3624. American Chemical Society ({ACS})
van Hees M, Slott S, Hansen AH, Kim HS, Ji HP, Astakhova K(2021). New approaches to moderate CRISPR-Cas9 activity: Addressing issues of cellular uptake and endosomal escape . Molecular therapy : the journal of the American Society of Gene Therapy.
Roslyn M Ray, Anders Højgaard Hansen, Maria Taskova, Bernhard Jandl, Jonas Hansen, Citra Soemardy, Kevin V Morris, Kira Astakhova(2021). Enhanced target cell specificity and uptake of lipid nanoparticles using RNA aptamers and peptides . Beilstein Journal of Organic Chemistry. 17. p. 891--907. Beilstein Institut
Kofoed Andersen C, Khatri S, Hansen J, Slott S, Pavan Parvathaneni R, Mendes AC, Chronakis IS, Hung SC, Rajasekaran N, Ma Z, et al.(2021). Carbon Nanotubes-Potent Carriers for Targeted Drug Delivery in Rheumatoid Arthritis . Pharmaceutics.
Andersen, C.K., Khatri, S., Hansen, J., Slott, S., Parvathaneni, R.P., Mendes, A.C., Chronakis, I.S., Hung, S.-C., Rajasekaran, N., Ma, Z., et al.(2021). Carbon nanotubes—potent carriers for targeted drug delivery in rheumatoid arthritis . Pharmaceutics. 13. (4).
Camilla Kofoed Andersen, Sangita Khatri, Jonas Hansen, Sofie Slott, Rohith Pavan Parvathaneni, Ana C Mendes, Ioannis S Chronakis, Shu-Chen Hung, Narendiran Rajasekaran, Zhuoran Ma, et al.(2021). Carbon Nanotubes-Potent Carriers for Targeted Drug Delivery in Rheumatoid Arthritis . Pharmaceutics. 13. (4). MDPI AG
Ferreira, I., Slott, S., Astakhova, K., Weber, G.(2021). Complete Mesoscopic Parameterization of Single LNA Modifications in DNA Applied to Oncogene Probe Design . Journal of Chemical Information and Modeling. 61. (7). p. 3615-3624.
Ray, R.M., Hansen, A.H., Taskova, M., Jandl, B., Hansen, J., Soemardy, C., Morris, K.V., Astakhova, K.(2021). Enhanced target cell specificity and uptake of lipid nanoparticles using RNA aptamers and peptides . Beilstein Journal of Organic Chemistry. 17. p. 891-907.
Roslyn M. Ray, Anders Højgaard Hansen, Maria Taskova, Bernhard Jandl, Jonas Hansen, Citra Soemardy, Kevin V. Morris, Kira Astakhova(2021). Enhanced target cell specificity and uptake of lipid nanoparticles using RNA aptamers and peptides . Beilstein Journal of Organic Chemistry. 17. p. 891--907. Beilstein - Institut zur Foerderung der Chemischen Wissenschaften
Complete Mesoscopic Parameterization of Single LNA Modifications in DNA Applied to Oncogene Probe Design @article{94a3a80405ba4c9bb0528ddc2f44a686, title = "Complete Mesoscopic Parameterization of Single LNA Modifications in DNA Applied to Oncogene Probe Design", abstract = "The use of mesoscopic models to describe the thermodynamic properties of locked nucleic acid (LNA)-modified nucleotides can provide useful insights into their properties, such as hydrogen-bonding and stacking interactions. In addition, the mesoscopic parameters can be used to optimize LNA insertion in probes, to achieve accurate melting temperature predictions, and to obtain duplex opening profiles at the base-pair level. Here, we applied this type of model to parameterize a large set of melting temperatures for LNA-modified sequences, from published sources, covering all possible nearest-neighbor configurations. We have found a very large increase in Morse potentials, which indicates very strong hydrogen bonding as the main cause of improved LNA thermodynamic stability. LNA-modified adenine-thymine (AT) was found to have similar hydrogen bonding to unmodified cytosine-guanine (CG) base pairs, while for LNA CG, we found exceptionally large hydrogen bonding. In contrast, stacking interactions, which were thought to be behind the stability of LNA, were similar to unmodified DNA in most cases. We applied the new LNA parameters to the design of BRAF, KRAS, and EGFR oncogene variants by testing all possible LNA modifications. Selected sequences were then synthesized and had their hybridization temperatures measured, achieving a prediction accuracy within 1 °C. We performed a detailed base-pair opening analysis to discuss specific aspects of these probe hybridizations that may be relevant for probe design.", author = "Izabela Ferreira and Sofie Slott and Kira Astakhova and Gerald Weber", year = "2021", doi = "10.1021/acs.jcim.1c00470", language = "English", volume = "61", pages = "3615--3624", journal = "Journal of Chemical Information and Modeling", issn = "1549-9596", publisher = "American Chemical Society", number = "7", } . Journal of Chemical Information and Modeling.
Ivana Domljanovic, Maria Taskova, Pâmella Miranda, Gerald Weber, Kira Astakhova (2020). Optical and theoretical study of strand recognition by nucleic acid probes . Communications Chemistry.
Sangita Khatri, Salvatore V Pizzo, Jonas Hansen, Kira Astakhova (2020). Antibodies to synthetic citrullinated peptide epitope correlate with disease activity and flares in rheumatoid arthritis . PLOS ONE.
Khatri, S., Hansen, J., Astakhova, K.(2020). Antibodies to synthetic citrullinated peptide epitope correlate with disease activity and flares in rheumatoid arthritis . PLoS ONE. 15. (4).
Sangita Khatri, Jonas Hansen, Kira Astakhova(2020). Antibodies to synthetic citrullinated peptide epitope correlate with disease activity and flares in rheumatoid arthritis . PLOS ONE. 15. (4). Public Library of Science
Domljanovic, I., Taskova, M., Miranda, P., Weber, G., Astakhova, K.(2020). Optical and theoretical study of strand recognition by nucleic acid probes . Communications Chemistry. 3. (1).
Ivana Domljanovic, Maria Taskova, Pâmella Miranda, Gerald Weber, Kira Astakhova(2020). Optical and theoretical study of strand recognition by nucleic acid probes . Communications Chemistry. 3. (1). Springer Nature
Sangita Khatri, Nikos Psaraftis, Alessia Funaro, Yoshiyuki Arinuma, Yuichiro Fujieda, Simone Mader, Dr., Christian Damsgaard Jørgensen, Kira Astakhova (2020). Serological comparison of systemic lupus erythematosus with neuropsychiatric lupus using synthetic nucleic acid antigens . Journal of Translational Autoimmunity.
Khatri, S., Psaraftis, N., Funaro, A., Arinuma, Y., Fujieda, Y., Mader, S., Jørgensen, C.D., Astakhova, K.(2020). Serological comparison of systemic lupus erythematosus with neuropsychiatric lupus using synthetic nucleic acid antigens . Journal of Translational Autoimmunity. 3.
Sangita Khatri, Nikos Psaraftis, Alessia Funaro, Yoshiyuki Arinuma, Yuichiro Fujieda, Simone Mader, Christian Damsgaard Jørgensen, Kira Astakhova(2020). Serological comparison of systemic lupus erythematosus with neuropsychiatric lupus using synthetic nucleic acid antigens . Journal of Translational Autoimmunity. 3. Elsevier
Uhd, J., Miotke, L., Ji, H.P., Dunaeva, M., Pruijn, G.J.M., Jørgensen, C.D., Kristoffersen, E.L., Birkedal, V., Yde, C.W., Nielsen, F.C., et al.(2020). Ultra-fast detection and quantification of nucleic acids by amplification-free fluorescence assay . Analyst. 145. (17). p. 5836-5844.
Jesper Uhd, Laura Miotke, Hanlee P Ji, Marina Dunaeva, Ger J M Pruijn, Christian Damsgaard Jørgensen, Emil Laust Kristoffersen, Victoria Birkedal, Christina Westmose Yde, Finn Cilius Nielsen, et al.(2020). Ultra-fast detection and quantification of nucleic acids by amplification-free fluorescence assay . The Analyst. 145. p. 5836--5844. Royal Society of Chemistry
Maria Taskova, Kira Astakhova(2019). Fluorescent Oligonucleotides with Bis(prop-2-yn-1-yloxy)butane-1,3-diol Scaffold Rapidly Detect Disease-Associated Nucleic Acids . Bioconjugate Chemistry. 30. (12). p. 3007--3012. American Chemical Society ({ACS})
Sangita Khatri, Jonas Hansen, Ana C. Mendes, Ioannis S. Chronakis, Shu-Chen Hung, Elizabeth D. Mellins, Kira Astakhova(2019). Citrullinated Peptide Epitope Targets Therapeutic Nanoparticles to Human Neutrophils . Bioconjugate Chemistry. 30. (10). p. 2584--2593. American Chemical Society ({ACS})
Bernhard Jandl, Sima Sedghiniya, Annika Carstens, Kira Astakhova(2019). Peptide–Fluorophore Hydrogel as a Signal Boosting Approach in Rapid Detection of Cancer DNA . ACS Omega. 4. (9). p. 13889--13895. American Chemical Society ({ACS})
Keith Henry Moss, Petya Popova, Sine R. Hadrup, Kira Astakhova, Maria Taskova(2019). Lipid Nanoparticles for Delivery of Therapeutic RNA Oligonucleotides . Molecular Pharmaceutics. 16. (6). p. 2265--2277. American Chemical Society ({ACS})
Ray RM, Hansen AH, Slott S, Taskova M, Astakhova K, Morris KV(2019). Control of LDL Uptake in Human Cells by Targeting the LDLR Regulatory Long Non-coding RNA BM450697 . Molecular therapy. Nucleic acids.
Moss KH, Popova P, Hadrup SR, Astakhova K, Taskova M(2019). Lipid Nanoparticles for Delivery of Therapeutic RNA Oligonucleotides . Molecular pharmaceutics.
Ilaria Furlan, Ivana Domljanovic, Jesper Uhd, Kira Astakhova(2019). Improving the Design of Synthetic Oligonucleotide Probes by Fluorescence Melting Assay . ChemBioChem. 20. (4). p. 587--594. Wiley
Furlan, I., Domljanovic, I., Uhd, J., Astakhova, K.(2019). Improving the Design of Synthetic Oligonucleotide Probes by Fluorescence Melting Assay . ChemBioChem. 20. (4). p. 587-594.
Ilaria Furlan, Ivana Domljanovic, Jesper Uhd, Kira Astakhova(2019). Improving the Design of Synthetic Oligonucleotide Probes by Fluorescence Melting Assay . ChemBioChem. 20. (4). p. 587--594. Wiley - V C H Verlag GmbH \& Co. KGaA
Moss, K.H., Popova, P., Hadrup, S.R., Astakhova, K., Taskova, M.(2019). Lipid Nanoparticles for Delivery of Therapeutic RNA Oligonucleotides . Molecular Pharmaceutics. 16. (6). p. 2265-2277.
Keith Henry Moss, Petya Popova, Sine Reker Hadrup, Kira Astakhova, Maria Taskova(2019). Lipid Nanoparticles for Delivery of Therapeutic RNA Oligonucleotides . Molecular Pharmaceutics. 16. (6). p. 2265--2277. American Chemical Society
Khatri, S., Torok, K.S., Mirizio, E., Liu, C., Astakhova, K.(2019). Autoantibodies in Morphea: An update . Frontiers in Immunology. 10. (JULY).
Sangita Khatri, Kathryn S. Torok, Emily Mirizio, Christopher Liu, Kira Astakhova(2019). Autoantibodies in Morphea: An Update . Frontiers in Immunology. 10. Frontiers Media S.A.
Jandl, B., Sedghiniya, S., Carstens, A., Astakhova, K.(2019). Peptide-Fluorophore Hydrogel as a Signal Boosting Approach in Rapid Detection of Cancer DNA . ACS Omega. 4. (9). p. 13889-13895.
Bernhard Jandl, Sima Sedghiniya, Annika Carstens, Kira Astakhova(2019). Peptide–Fluorophore Hydrogel as a Signal Boosting Approach in Rapid Detection of Cancer DNA . ACS Omega. 4. (9). p. 13889--13895. ACS Publications
Ray, R.M., Hansen, A.H., Slott, S., Taskova, M., Astakhova, K., Morris, K.V.(2019). Control of LDL Uptake in Human Cells by Targeting the LDLR Regulatory Long Non-coding RNA BM450697 . Molecular Therapy - Nucleic Acids. 17. p. 264-276.
Roslyn M. Ray, Anders Højgaard Hansen, Sofie Slott, Maria Taskova, Kira Astakhova, Kevin V. Morris(2019). Control of LDL Uptake in Human Cells by Targeting the LDLR Regulatory Long Non-coding RNA BM450697 . Molecular Therapy - Nucleic Acids. 17. p. 264--276. Nature Publishing Group
Khatri, S., Hansen, J., Mendes, A.C., Chronakis, I.S., Hung, S.-C., Mellins, E.D., Astakhova, K.(2019). Citrullinated Peptide Epitope Targets Therapeutic Nanoparticles to Human Neutrophils . Bioconjugate Chemistry. 30. (10). p. 2584-2593.
Sangita Khatri, Jonas Hansen, Ana Carina Loureiro Mendes, Ioannis S. Chronakis, Shu-Chen Hung, Elizabeth Mellins, Kira Astakhova(2019). Citrullinated peptide epitope targets therapeutic nanoparticles to human neutrophils . Bioconjugate Chemistry. 30. (10). p. 2584--2593. American Chemical Society
Taskova, M., Astakhova, K.(2019). Fluorescent Oligonucleotides with Bis(prop-2-yn-1-yloxy)butane-1,3-diol Scaffold Rapidly Detect Disease-Associated Nucleic Acids . Bioconjugate Chemistry. 30. (12). p. 3007-3012.
Fluorescent Oligonucleotides with Bis(prop-2-yn-1-yloxy)butane-1,3-diol Scaffold Rapidly Detect Disease-Associated Nucleic Acids @article{9d43560fa7fb4dc5bddaa2cb3cf3da05, title = "Fluorescent Oligonucleotides with Bis(prop-2-yn-1-yloxy)butane-1,3-diol Scaffold Rapidly Detect Disease-Associated Nucleic Acids", abstract = "Biomedical research and clinical work demand rapid and reliable detection of disease-associated nucleic acids. Fluorescent oligonucleotides that bind precisely, and sense target DNA or RNA, are useful tools for simple hybridization-based assays. Although a plethora of oligonucleotide modifications are reported in the literature, they often result in poor coupling yields and are very expensive. We describe the synthesis of a new bisalkyne butane-1,3-diol scaffold and its efficient coupling into oligonucleotide sequences. We hypothesized that covalent attachment of multiple (2/4) fluorescent groups to the scaffold within oncogene-specific oligonucleotides could lead to beneficial detection of target DNA. To test this, we post-synthetically conjugated the oligonucleotides with azide-derivative dyes (2/4 per sequence): perylene, 5JOE, and (phenylethynyl)pyrene. We investigated the biophysical and photophysical properties of the oligonucleotide-dye conjugates and confirmed a {"}light up{"} fluorescent sensing mechanism of the probes upon target binding. However, fluorescence of the probes was not sensitive to mismatches. Nevertheless, {"}clicked{"} probes showed a high specificity of binding to complementary target, with the difference in Tm over 10 °C for matched vs mismatched duplex. When applied together, the mismatch-induced difference in temperature melting and fluorescence-based discrimination of the target-bound vs single-stranded probe state allowed us to apply the perylene conjugates to detect mutations in human oncogenes. Due to the beneficial target binding properties of the perylene labeled probes, along with the high fluorescence intensity of probe:target duplexes, human oncogenes could be detected in a convenient and fast (2.5 h) bead-based assay.", author = "Maria Taskova and Kira Astakhova", year = "2019", doi = "10.1021/acs.bioconjchem.9b00746", language = "English", volume = "30", pages = "3007--3012", journal = "Bioconjugate Chemistry", issn = "1043-1802", publisher = "American Chemical Society", number = "12", } . Bioconjugate Chemistry.
Furlan I, Domljanovic I, Uhd J, Astakhova K(2018). Improving the Design of Synthetic Oligonucleotide Probes by Fluorescence Melting Assay . Chembiochem : a European journal of chemical biology.
Domljanovic I, Hansen AH, Hansen LH, Klitgaard JK, Taskova M, Astakhova K(2018). Studies of Impending Oligonucleotide Therapeutics in Simulated Biofluids . Nucleic acid therapeutics.
Ivana Domljanovic, Elisabeth Rexen Ulven, Trond Ulven, Rasmus P. Thomsen, Anders H. Okholm, Jørgen Kjems, Anne Voss, Maria Taskova, Kira Astakhova(2018). Dihydropyridine Fluorophores Allow for Specific Detection of Human Antibodies in Serum . ACS Omega. 3. (7). p. 7580--7586. American Chemical Society ({ACS})
Domljanovic I, Rexen Ulven E, Ulven T, Thomsen RP, Okholm AH, Kjems J, Voss A, Taskova M, Astakhova K(2018). Dihydropyridine Fluorophores Allow for Specific Detection of Human Antibodies in Serum . ACS omega.
Simone Samuelsen, Christian Damsgaard Jørgensen, Elizabeth D. Mellins, Kathryn S. Torok, Kira Astakhova, Jose C. Crispin(2018). Detection of autoimmune antibodies in localized scleroderma by synthetic oligonucleotide antigens . PLOS ONE. 13. (4). p. e0195381. Public Library of Science ({PLoS})
Simone Samuelsen, Jose C. Crispin, Christian Damsgaard Jørgensen, Elizabeth D. Mellins, Kathryn S. Torok, Kira Astakhova(2018). Detection of autoimmune antibodies in localized scleroderma by synthetic oligonucleotide antigens . PLOS ONE. 13. (4). p. e0195381. Public Library of Science ({PLoS})
Martin Klecka, Christina Thybo, Claudia Macaubas, Ilia Solov’yov, Julia Simard, Imelda Maria Balboni, Emily Fox, Anne Voss, Elizabeth D. Mellins, Kira Astakhova(2018). Autoantibody Profiling in Lupus Patients using Synthetic Nucleic Acids . Scientific Reports. 8. (1). Springer Nature
Martin Klecka, Christina Thybo, Claudia Macaubas, Ilia Solov’yov, Julia Simard, Imelda Maria Balboni, Emily Fox, Anne Voss, Elizabeth D. Mellins, Kira Astakhova (2018). Autoantibody Profiling in Lupus Patients using Synthetic Nucleic Acids . Scientific Reports.
Kira Astakhova, Roslyn Ray, Maria Taskova, Jesper Uhd, Annika Carstens, Kevin Morris(2018). “Clicking” Gene Therapeutics: A Successful Union of Chemistry and Biomedicine for New Solutions . Molecular Pharmaceutics. American Chemical Society ({ACS})
Astakhova, K., Ray, R., Taskova, M., Uhd, J., Carstens, A., Morris, K.(2018). "clicking" Gene Therapeutics: A Successful Union of Chemistry and Biomedicine for New Solutions . Molecular Pharmaceutics. 15. (8). p. 2892-2899.
Kira Astakhova, Roslyn Ray, Maria Taskova, Jesper Uhd, Annika Carstens, Kevin Morris(2018). "Clicking" Gene Therapeutics: A Successful Union of Chemistry and Biomedicine for New Solutions . Molecular Pharmaceutics. 15. (8). p. 2892--2899. American Chemical Society
Klecka, M., Thybo, C., Macaubas, C., Solov'yov, I., Simard, J., Balboni, I.M., Fox, E., Voss, A., Mellins, E.D., Astakhova, K.(2018). Autoantibody profiling in lupus patients using synthetic nucleic acids . Scientific Reports. 8. (1).
Martin Klecka, Christina Thybo, Claudia Macaubas, Ilia Solov'yov, Julia Simard, Imelda Maria Balboni, Emily Fox, Anne Voss, Elizabeth D Mellins, Kira Astakhova(2018). Autoantibody Profiling in Lupus Patients using Synthetic Nucleic Acids . Scientific Reports. 8. Nature Publishing Group
Samuelsen, S., Jørgensen, C.D., Mellins, E.D., Torok, K.S., Astakhova, K.(2018). Detection of autoimmune antibodies in localized scleroderma by synthetic oligonucleotide antigens . PLoS ONE. 13. (4).
Simone Samuelsen, Christian Damsgaard Jørgensen, Elizabeth D Mellins, Kathryn S Torok, Kira Astakhova(2018). Detection of autoimmune antibodies in localized scleroderma by synthetic oligonucleotide antigens . P L o S One. 13. (4). Public Library of Science
Domljanovic, I., Rexen Ulven, E., Ulven, T., Thomsen, R.P., Okholm, A.H., Kjems, Jø., Voss, A., Taskova, M., Astakhova, K.(2018). Dihydropyridine Fluorophores Allow for Specific Detection of Human Antibodies in Serum . ACS Omega. 3. (7). p. 7580-7586.
Ivana Domljanovic, Elisabeth Rexen Ulven, Trond Ulven, Rasmus P. Thomsen, Anders H. Okholm, Jørgen Kjems, Anne Voss, Maria Taskova, Kira Astakhova(2018). Dihydropyridine Fluorophores Allow for Specific Detection of Human Antibodies in Serum . ACS Omega. 3. (7). p. 7580--7586. ACS Publications
Domljanovic, I., Hansen, A.H., Hansen, L.H., Klitgaard, J.K., Taskova, M., Astakhova, K.(2018). Studies of impending oligonucleotide therapeutics in simulated biofluids . Nucleic Acid Therapeutics. 28. (6). p. 348-356.
Ivana Domljanovic, Anders Højgaard Hansen, Lykke Haastrup Hansen, Janne Kudsk Klitgaard, Maria Taskova, Kira Astakhova(2018). Studies of impending oligonucleotide therapeutics in simulated biofluids . Nucleic Acid Therapeutics. 28. (6). p. 348--356. Mary AnnLiebert, Inc. Publishers
Maria Taskova, Anna Mantsiou, Kira Astakhova (2017). Synthetic Nucleic Acid Analogues in Gene Therapy: An Update for Peptide–Oligonucleotide Conjugates . ChemBioChem.
Mads Westergaard Mulberg, Maria Taskova, Rasmus P. Thomsen, Anders H. Okholm, Jørgen Kjems, Kira Astakhova(2017). New Fluorescent Nanoparticles for Ultrasensitive Detection of Nucleic Acids by Optical Methods . ChemBioChem. 18. (16). p. 1599--1603. Wiley
(2017). Environmentally sensitive molecular probes reveal mutations and epigenetic 5-methyl cytosine in human oncogenes .
Mads Westergaard Mulberg, Maria Taskova, Rasmus P. Thomsen, Anders H. Okholm, Jørgen Kjems, Kira Astakhova(2017). New Fluorescent Nanoparticles for Ultrasensitive Detection of Nucleic Acids by Optical Methods . ChemBioChem. 18. (16). p. 1599--1603. Wiley
Maria Taskova, Anna Mantsiou, Kira Astakhova(2017). Synthetic Nucleic Acid Analogues in Gene Therapy: An Update for Peptide-Oligonucleotide Conjugates . ChemBioChem. 18. (17). p. 1671--1682. Wiley
Taskova M, Barducci MC, Astakhova K(2017). Environmentally sensitive molecular probes reveal mutations and epigenetic 5-methyl cytosine in human oncogenes . Organic & biomolecular chemistry.
Ivana Domljanovic, Annika Carstens, Anders Okholm, Jørgen Kjems, Christoffer Tandrup Nielsen, Niels H. H. Heegaard, Kira Astakhova(2017). Complexes of DNA with fluorescent dyes are effective reagents for detection of autoimmune antibodies . Scientific Reports. 7. (1). Springer Nature
Maria Taskova, Jesper Uhd, Laura Miotke, Matthew Kubit, John Bell, Hanlee P. Ji, Kira Astakhova(2017). Tandem Oligonucleotide Probe Annealing and Elongation To Discriminate Viral Sequence . Analytical Chemistry. 89. (8). p. 4363--4366. American Chemical Society ({ACS})
Maria Taskova, Jesper Uhd, Laura Miotke, Matthew Kubit, John Bell, Hanlee P. Ji, Kira Astakhova(2017). Tandem Oligonucleotide Probe Annealing and Elongation To Discriminate Viral Sequence . Analytical Chemistry. 89. (8). p. 4363--4366. American Chemical Society ({ACS})
Taskova, M., Uhd, J., Miotke, L., Kubit, M., Bell, J., Ji, H.P., Astakhova, K.(2017). Tandem Oligonucleotide Probe Annealing and Elongation to Discriminate Viral Sequence . Analytical Chemistry. 89. (8). p. 4363-4366.
Maria Taskova, Jesper Uhd, Laura Miotke, Matthew Kubit, John Bell, Hanlee P. Ji, Kira Astakhova(2017). Tandem Oligonucleotide Probe Annealing and Elongation To Discriminate Viral Sequence . Analytical Chemistry. 89. (8). p. 4363--4366. American Chemical Society
Astakhova, K., Golovin, A.V., Prokhorenko, I.A., Ustinov, A.V., Stepanova, I.A., Zatsepin, T.S., Korshun, V.A.(2017). Design of 2′-phenylethynylpyrene excimer forming DNA/RNA probes for homogeneous SNP detection: The attachment manner matters . Tetrahedron. 73. (23). p. 3220-3230.
Kira Astakhova, V. Korshun(2017). 2'-O-Me RNA probes modified with pyrene fluorophores: Attachment point matters . Tetrahedron. 73. p. 3220--3230. Elsevier
Mads Westergaard Mulberg, Maria Taskova, Rasmus P. Thomsen, Anders H. Okholm, Jørgen Kjems, Kira Astakhova(2017). New Fluorescent Nanoparticles for Ultrasensitive Detection of Nucleic Acids by Optical Methods . ChemBioChem. 18. (16). p. 1599--1603. Wiley - V C H Verlag GmbH \& Co. KGaA
Taskova, M., Mantsiou, A., Astakhova, K.(2017). Synthetic Nucleic Acid Analogues in Gene Therapy: An Update for Peptide–Oligonucleotide Conjugates . ChemBioChem. 18. (17). p. 1671-1682.
Domljanovic, I., Carstens, A., Okholm, A., Kjems, Jø., Nielsen, C.T., Heegaard, N.H.H., Astakhova, K.(2017). Complexes of DNA with fluorescent dyes are effective reagents for detection of autoimmune antibodies . Scientific Reports. 7. (1).
Ivana Domljanovic, Annika Carstens, Anders Okholm, Jørgen Kjems, Christoffer Tandrup Nielsen, Niels H. H. Heegaard, Kira Astakhova(2017). Complexes of DNA with fluorescent dyes are effective reagents for detection of autoimmune antibodies . Scientific Reports. 7. (1). Nature Publishing Group
Maria Taskova, Anna Mantsiou, Kira Astakhova(2017). Synthetic Nucleic Acid Analogues in Gene Therapy: An Update for Peptide–Oligonucleotide Conjugates . ChemBioChem. 18. (17). p. 1671--1682. Wiley - V C H Verlag GmbH \& Co. KGaA
Taskova, M., Madsen, C.S., Jensen, K.J., Hansen, L.H., Vester, B., Astakhova, K.(2017). Antisense Oligonucleotides Internally Labeled with Peptides Show Improved Target Recognition and Stability to Enzymatic Degradation . Bioconjugate Chemistry. 28. (3). p. 768-774.
Maria Taskova, Charlotte S. Madsen, Knud Jørgen Jensen, Lykke Haastrup Hansen, Birte Vester, Kira Astakhova(2017). Antisense Oligonucleotides Internally Labeled with Peptides Show Improved Target Recognition and Stability to Enzymatic Degradation . Bioconjugate Chemistry. 28. (3). p. 768--774. American Chemical Society
M. Taskova, M. C. Barducci, K. Astakhova(2017). Environmentally sensitive molecular probes reveal mutations and epigenetic 5-methyl cytosine in human oncogenes . Organic & Biomolecular Chemistry. 15. (27). p. 5680--5684. Royal Society of Chemistry ({RSC})
Taskova, M., Barducci, M.C., Astakhova, K.(2017). Environmentally sensitive molecular probes reveal mutations and epigenetic 5-methyl cytosine in human oncogenes . Organic and Biomolecular Chemistry. 15. (27). p. 5680-5684.
Maria Taskova, M. C. Barducci, Kira Astakhova(2017). Environmentally sensitive molecular probes reveal mutations and epigenetic 5-methyl cytosine in human oncogenes . Organic and Biomolecular Chemistry. 15. (27). p. 5680--5684. Royal Society of Chemistry
Westergaard Mulberg, M., Taskova, M., Thomsen, R.P., Okholm, A.H., Kjems, J., Astakhova, K.(2017). New Fluorescent Nanoparticles for Ultrasensitive Detection of Nucleic Acids by Optical Methods . ChemBioChem. 18. (16). p. 1599-1603.
Simone V. Samuelsen, Ilia A. Solov’yov, Imelda M. Balboni, Elizabeth Mellins, Christoffer Tandrup Nielsen, Niels H. H. Heegaard, Kira Astakhova(2016). Synthetic oligonucleotide antigens modified with locked nucleic acids detect disease specific antibodies . Scientific Reports. 6. (1). Springer Nature
Nina Junager, Jacob Kongsted, Kira Astakhova(2016). Revealing Nucleic Acid Mutations Using Förster Resonance Energy Transfer-Based Probes . Sensors. 16. (8). p. 1173. {MDPI} {AG}
Simone V. Samuelsen, Arindam Maity, Mads Nybo, Claudia Macaubas, Lars Lønstrup, Imelda M. Balboni, Elizabeth D. Mellins, Kira Astakhova, Xu-jie Zhou(2016). Novel Phospholipid-Protein Conjugates Allow Improved Detection of Antibodies in Patients with Autoimmune Diseases . PLOS ONE. 11. (6). p. e0156125. Public Library of Science ({PLoS})
Samuelsen, S.V., Maity, A., Nybo, M., Macaubas, C., Lønstrup, L., Balboni, I.M., Mellins, E.D., Astakhova, K.(2016). Novel phospholipid-protein conjugates allow improved detection of antibodies in patients with autoimmune diseases . PLoS ONE. 11. (6).
Simone V. Samuelsen, Arindam Maity, Mads Nybo, Claudia Macaubas, Lars Lonstrup, Imelda M. Balboni, Elizabeth D. Mellins, Kira Astakhova(2016). Novel Phospholipid-Protein Conjugates Allow Improved Detection of Antibodies in Patients with Autoimmune Diseases . P L o S One. 11. (6). Public Library of Science
Maria Taskova, Charlotte S. Madsen, Knud J. Jensen, Lykke Haastrup Hansen, Birte Vester, Kira Astakhova(2016). Antisense Oligonucleotides Internally Labeled with Peptides Show Improved Target Recognition and Stability to Enzymatic Degradation . Bioconjugate Chemistry. 28. (3). p. 768--774. American Chemical Society ({ACS})
Junager, N.P.L., Kongsted, J., Astakhova, K.(2016). Revealing nucleic acid mutations using förster resonance energy transfer-based probes . Sensors (Switzerland). 16. (8).
Nina P. L. Junager, Jacob Kongsted, Kira Astakhova(2016). Revealing Nucleic Acid Mutations Using Forster Resonance Energy Transfer-Based Probes . Sensors. 16. (8). Multidisciplinary Digital Publishing Institute (MDPI)
Samuelsen, S.V., Solov'yov, I.A., Balboni, I.M., Mellins, E., Nielsen, C.T., Heegaard, N.H.H., Astakhova, K.(2016). Synthetic oligonucleotide antigens modified with locked nucleic acids detect disease specific antibodies . Scientific Reports. 6.
Simone V. Samuelsen, Ilia A. Solov'yov, Imelda M. Balboni, Elizabeth Mellins, Christoffer Tandrup Nielsen, Niels H. H. Heegaard, Kira Astakhova(2016). Synthetic oligonucleotide antigens modified with locked nucleic acids detect disease specific antibodies . Scientific Reports. 6. (1). Nature Publishing Group
Laura Miotke, Maria Barducci, Kira Astakhova(2015). Novel Signal-Enhancing Approaches for Optical Detection of Nucleic Acids—Going beyond Target Amplification . Chemosensors. 3. (3). p. 224--240. {MDPI} {AG}
Laura Miotke, Arindam Maity, Hanlee Ji, Jonathan Brewer, Kira Astakhova, Thomas Abraham(2015). Enzyme-Free Detection of Mutations in Cancer DNA Using Synthetic Oligonucleotide Probes and Fluorescence Microscopy . PLOS ONE. 10. (8). p. e0136720. Public Library of Science ({PLoS})
Arindam Maity, Claudia Macaubas, Elizabeth Mellins, Kira Astakhova(2015). Synthesis of Phospholipid-Protein Conjugates as New Antigens for Autoimmune Antibodies . Molecules. 20. (6). p. 10253--10263. {MDPI} {AG}
Lina J. Nåbo, Charlotte S. Madsen, Knud J. Jensen, Jacob Kongsted, Kira Astakhova(2015). Ultramild Protein-Mediated Click Chemistry Creates Efficient Oligonucleotide Probes for Targeting and Detecting Nucleic Acids . ChemBioChem. 16. (8). p. 1163--1167. Wiley
Lina J. Nåbo, Charlotte S. Madsen, Knud J. Jensen, Jacob Kongsted, Kira Astakhova(2015). Corrigendum: Ultramild Protein-Mediated Click Chemistry Creates Efficient Oligonucleotide Probes for Targeting and Detecting Nucleic Acids . ChemBioChem. 16. (8). p. 1132--1132. Wiley
Madsen, C.S., Jensen, K.J., Kongsted, J., Astakhova, K.(2015). Corrigendum: Ultramild protein-mediated click chemistry creates efficient oligonucleotide probes for targeting and detecting nucleic acids (ChemBioChem (2015) 16 (1163-1167)) . ChemBioChem. 16. (8). p. 1132.
Madsen, C.S., Jensen, K.J., Kongsted, J., Astakhova, K.(2015). Ultramild protein-mediated click chemistry creates efficient oligonucleotide probes for targeting and detecting nucleic acids . ChemBioChem. 16. (8). p. 1163-1167.
Lina J. Nabo, Charlotte S. Madsen, Knud Jørgen Jensen, Jacob Kongsted, Kira Astakhova(2015). Ultramild Protein-Mediated Click Chemistry Creates Efficient Oligonucleotide Probes for Targeting and Detecting Nucleic Acids . ChemBioChem. 16. (8). p. 1163--1167. Wiley - V C H Verlag GmbH \& Co. KGaA
Maity, A., Macaubas, C., Mellins, E., Astakhova, K.(2015). Synthesis of phospholipid-protein conjugates as new antigens for autoimmune antibodies . Molecules. 20. (6). p. 10253-10263.
Arindam Maity, Claudia Macaubas, Elizabeth Mellins, Kira Astakhova(2015). Synthesis of Phospholipid-Protein Conjugates as New Antigens for Autoimmune Antibodies . Molecules. 20. (6). p. 10253--10263. M D P I AG
Miotke, L., Maity, A., Ji, H., Brewer, J., Astakhova, K.(2015). Enzyme-free detection of mutations in cancer DNA using synthetic oligonucleotide probes and fluorescence microscopy . PLoS ONE. 10. (8).
L. Miotke, H.P. Ji, Kira Astakhova(2015). Amplification-Free LNA/DNA Assay for Rapid Genotyping of Cancer DNA . P L o S One. 10. (8). Public Library of Science
Miotke, L., Barducci, M.C., Astakhova, K.(2015). Novel signal-enhancing approaches for optical detection of nucleic acids-going beyond target amplification . Chemosensors. 3. (3). p. 224-240.
Kira Astakhova(2014). Toward Non-Enzymatic Ultrasensitive Identification of Single Nucleotide Polymorphisms by Optical Methods . Chemosensors. 2. (3). p. 193--206. {MDPI} {AG}
I. Kira Astakhova, Jesper Wengel(2014). Scaffolding along Nucleic Acid Duplexes Using 2′-Amino-Locked Nucleic Acids . Accounts of Chemical Research. 47. (6). p. 1768--1777. American Chemical Society ({ACS})
Astakhova, I.K., Wengel, J.(2014). Scaffolding along nucleic acid duplexes using 2'-amino-locked nucleic acids . Accounts of Chemical Research. 47. (6). p. 1768-1777.
Astakhova, K.(2014). Toward non-enzymatic ultrasensitive identification of single nucleotide polymorphisms by optical methods . Chemosensors. 2. (3). p. 193-206.
Kira Astakhova(2014). Toward non-enzymatic ultrasensitive identification of single nucleotide polymorphisms by optical methods . Chemosensors. 2. (3). p. 193--206. M D P I AG
Kira Astakhova, Jesper Wengel(2014). Scaffolding along Nucleic Acid Duplexes Using 2 '-Amino-Locked Nucleic Acids . Accounts of Chemical Research. 47. (6). p. 1768--1777. American Chemical Society
Anders Okholm, Jørgen Kjems, Kira Astakhova(2014). Fluorescence detection of natural RNA using rationally designed “clickable” oligonucleotide probes . RSC Adv. 4. (86). p. 45653--45656. Royal Society of Chemistry ({RSC})
Okholm, A., Kjems, Jø., Astakhova, K.(2014). Fluorescence detection of natural RNA using rationally designed "clickable" oligonucleotide probes . RSC Advances. 4. (86). p. 45653-45656.
Anders Okholm, Jørgen Kjems, Kira Astakhova(2014). Fluorescence detection of natural RNA using rationally designed "clickable" oligonucleotide probes . R S C Advances. 4. (86). p. 45653--45656. RSC Publishing
Kira Astakhova(2014). Synthetic Oligonucleotide Probes for Detection of Autoimmune Antibodies . Journal of Clinical & Cellular Immunology. 05. (02). {OMICS} Publishing Group
Kira Astakhova I, Nucleic Acid Center, Department of Physics, Chemistry and Pharmacy, University of Southern Denmark, Campusvej 55 DK-5230 Odense M, Denmark.(2013). Interface of Chemistry and Biology . International Journal of Bioorganic Chemistry & Molecular Biology. p. 1. {SciDoc} Publishers {LLC}
T. Santhosh Kumar, Anna Myznikova, Evgeniya Samokhina, Irina Kira Astakhova(2013). Rapid genotyping using pyrene−perylene locked nucleic acid complexes . Artificial DNA: PNA & XNA. 4. (2). p. 58--68. Informa {UK} Limited
I. Kira Astakhova, Jesper Wengel(2013). Corrigendum: Interfacing Click Chemistry with Automated Oligonucleotide Synthesis for the Preparation of Fluorescent DNA Probes Containing Internal Xanthene and Cyanine Dyes . Chemistry - A European Journal. 19. (11). p. 3528--3528. Wiley
I. Kira Astakhova, Karol Pasternak, Meghan A. Campbell, Pankaj Gupta, Jesper Wengel(2013). A Locked Nucleic Acid-Based Nanocrawler: Designed and Reversible Movement Detected by Multicolor Fluorescence . Journal of the American Chemical Society. 135. (7). p. 2423--2426. American Chemical Society ({ACS})
Astakhova, I.K., Pasternak, K., Campbell, M.A., Gupta, P., Wengel, J.(2013). A locked nucleic acid-based nanocrawler: Designed and reversible movement detected by multicolor fluorescence . Journal of the American Chemical Society. 135. (7). p. 2423-2426.
Kira Astakhova, Karol Pasternak, Meghan A. Campbell, Pankaj Gupta, Jesper Wengel(2013). A Locked Nucleic Acid-Based Nanocrawler: Designed and Reversible Movement Detected by Multicolor Fluorescence . Journal of the American Chemical Society. 135. (7). p. 2423--2426. ACS Publications
Astakhova, I.K., Santhosh Kumar, T., Campbell, M.A., Ustinov, A.V., Korshun, V.A., Wengel, J.(2013). Branched DNA nanostructures efficiently stabilised and monitored by novel pyrene-perylene 2′-α-l-amino-LNA FRET pairs . Chemical Communications. 49. (5). p. 511-513.
I. Kira Astakhova, T. Santhosh Kumar, Meghan A. Campbell, Alexey V. Ustinov, Vladimir A. Korshun, Jesper Wengel(2013). Branched DNA nanostructures efficiently stabilised and monitored by novel pyrene–perylene 2′-α-l-amino-LNA FRET pairs . Chem. Commun. 49. (5). p. 511--513. Royal Society of Chemistry ({RSC})
Kira Astakhova, T. Santhosh Kumar, Meghan A. Campbell, Alexey V. Ustinov, Vladimir A. Korshun, Jesper Wengel(2013). Branched DNA nanostructures efficiently stabilised and monitored by novel pyrene-perylene 2 '-alpha-L-amino-LNA FRET pairs . Chemical Communications. 49. (5). p. 511--513. Royal Society of Chemistry
I. Kira Astakhova, Lykke Haastrup Hansen, Birte Vester, Jesper Wengel(2013). Peptide–LNA oligonucleotide conjugates . Organic & Biomolecular Chemistry. 11. (25). p. 4240. Royal Society of Chemistry ({RSC})
Astakhova, I.K., Hansen, L.H., Vester, B., Wengel, J.(2013). Peptide-LNA oligonucleotide conjugates . Organic and Biomolecular Chemistry. 11. (25). p. 4240-4249.
Kira Astakhova, Lykke Haastrup Hansen, Birte Vester, Jesper Wengel(2013). Peptide-LNA oligonucleotide conjugates . Organic and Biomolecular Chemistry. 11. (25). p. 4240--4249. Royal Society of Chemistry
Anna S. Jørgensen, Pankaj Gupta, Jesper Wengel, I. Kira Astakhova(2013). “Clickable” LNA/DNA probes for fluorescence sensing of nucleic acids and autoimmune antibodies . Chemical Communications. 49. (91). p. 10751. Royal Society of Chemistry ({RSC})
Jørgensen, A.S., Gupta, P., Wengel, J., Astakhova, I.K.(2013). “Clickable” LNA/DNA probes for fluorescence sensing of nucleic acids and autoimmune antibodies . Chemical Communications. 49. (91). p. 10751-10753.
Anna S. Jorgensen, Pankaj Gupta, Jesper Wengel, Kira Astakhova(2013). "Clickable" LNA/DNA probes for fluorescence sensing of nucleic acids and autoimmune antibodies . Chemical Communications. 49. (91). p. 10751--10753. Royal Society of Chemistry
Kumar, T.S., Myznikova, A., Samokhina, E., Astakhova, I.K.(2013). Rapid genotyping using pyrene-perylene locked nucleic acid complexes . Artificial DNA: PNA and XNA. 4. (2). p. 58-68.
T. Santhosh Kumar, Anna Myznikova, Evgeniya Samokhina, Kira Astakhova(2013). Rapid genotyping using pyrene-perylene locked nucleic acid complexes . Artificial DNA: PNA and XNA. 4. (2). p. 58--68. Taylor \& Francis
Astakhova, I.K., Wengel, J.(2013). Erratum: Interfacing click chemistry with automated oligonucleotide synthesis for the preparation of fluorescent DNA probes containing internal xanthene and cyanine dyes (Chemistry - A European Journal (2013) 19 DOI: 10.1002/chem.201202621) . Chemistry - A European Journal. 19. (11). p. 3528.
Astakhova, I.K., Wengel, J.(2013). Interfacing click chemistry with automated oligonucleotide synthesis for the preparation of fluorescent DNA probes containing internal xanthene and cyanine dyes . Chemistry - A European Journal. 19. (3). p. 1112-1122.
Kira Astakhova, Jesper Wengel(2013). Interfacing Click Chemistry with Automated Oligonucleotide Synthesis for the Preparation of Fluorescent DNA Probes Containing Internal Xanthene and Cyanine Dyes . Chemistry - A European Journal. 19. (3). p. 1112--1122. John Wiley and Sons Inc.
I. Kira Astakhova, Jesper Wengel(2012). Interfacing Click Chemistry with Automated Oligonucleotide Synthesis for the Preparation of Fluorescent DNA Probes Containing Internal Xanthene and Cyanine Dyes . Chemistry - A European Journal. 19. (3). p. 1112--1122. Wiley
Irina Kira Astakhova, Evgeniya Samokhina, B. Ravindra Babu, Jesper Wengel(2012). Novel (Phenylethynyl)pyrene-LNA Constructs for Fluorescence SNP Sensing in Polymorphic Nucleic Acid Targets . ChemBioChem. 13. (10). p. 1509--1519. Wiley
Astakhova, I.K., Samokhina, E., Babu, B.R., Wengel, J.(2012). Novel (Phenylethynyl)pyrene-LNA Constructs for Fluorescence SNP Sensing in Polymorphic Nucleic Acid Targets . ChemBioChem. 13. (10). p. 1509-1519.
Kira Astakhova, Evgeniya Samokhina, B. Ravindra Babu, Jesper Wengel(2012). Novel (Phenylethynyl)pyrene-LNA Constructs for Fluorescence SNP Sensing in Polymorphic Nucleic Acid Targets . ChemBioChem. 13. (10). p. 1509--1519. Wiley - V C H Verlag GmbH \& Co. KGaA
Irina V. Astakhova, Alexey V. Ustinov, Vladimir A. Korshun, Jesper Wengel(2011). LNA for Optimization of Fluorescent Oligonucleotide Probes: Improved Spectral Properties and Target Binding . Bioconjugate Chemistry. 22. (4). p. 533--539. American Chemical Society ({ACS})
Kira Astakhova, Alexey V. Ustinov, Vladimir A. Korshun, Jesper Wengel(2011). LNA for Optimization of Fluorescent Oligonucleotide Probes: Improved Spectral Properties and Target Binding . Bioconjugate Chemistry. 22. (4). p. 533--539. American Chemical Society
Astakhova, I.V., Kumar, T.S., Wengel, J.(2011). Fluorescent oligonucleotides containing a novel perylene 2'-amino-α-L-LNA monomer: Synthesis and analytical potential . Collection of Czechoslovak Chemical Communications. 76. (11). p. 1347-1360.
Kira Astakhova, Santhosh T. Kumar, Jesper Wengel(2011). Fluorescent oligonucleotides containing a novel perylene 2′-amino-α-L-LNA monomer: Synthesis and analytical potential . Collection of Czechoslovak Chemical Communications. 76. (11). p. 1347--1360. Czech Academy of Sciences
Astakhova, I.V., Ustinov, A.V., Korshun, V.A., Wengel, J.(2011). LNA for optimization of fluorescent oligonucleotide probes: Improved spectral properties and target binding . Bioconjugate Chemistry. 22. (4). p. 533-539.
(2010). Novel interstrand communication systems within DNA duplexes based on 1-, 2- and 4-(phenylethynyl)pyrenes attached to 2'-amino-LNA: high-affinity hybridization and fluorescence sensing .
Astakhova, I.V., Lindegaard, D., Korshun, V.A., Wengel, J.(2010). Novel interstrand communication systems within DNA duplexes based on 1-, 2- and 4-(phenylethynyl)pyrenes attached to 2′-amino-LNA: High-affinity hybridization and fluorescence sensing . Chemical Communications. 46. (44). p. 8362-8364.
Prokhorenko, I.A., Astakhova, I.V., Momynaliev, K.T., Zatsepin, T.S., Korshun, V.A.(2009). Phenylethynylpyrene excimer forming hybridization probes for fluorescence SNP detection . Methods in molecular biology (Clifton, N.J.). 578. p. 209-222.
Irina V. Astakhova, Vladimir A. Korshun, Kasper Jahn, Jørgen Kjems, Jesper Wengel(2008). Perylene Attached to 2′-Amino-LNA: Synthesis, Incorporation into Oligonucleotides, and Remarkable Fluorescence Propertiesin Vitroand in Cell Culture . Bioconjugate Chemistry. 19. (10). p. 1995--2007. American Chemical Society ({ACS})
(2008). [2- and 4-phenylethynylpyrenes--new fluorescent labels for DNA] .
(2008). Pyrene-perylene as a FRET pair coupled to the N2'-functionality of 2'-amino-LNA .
Filichev, V.V., Astakhova, I.V., Malakhov, A.D., Korshun, V.A., Pedersen, E.B.(2008). 1-, 2-, and 4-ethynylpyrenes in the structure of twisted intercalating nucleic acids: Structure, thermal stability, and fluorescence relationship . Chemistry - A European Journal. 14. (32). p. 9968-9980.
(2008). 1-, 2-, and 4-ethynylpyrenes in the structure of twisted intercalating nucleic acids: structure, thermal stability, and fluorescence relationship .
Astakhova, I.V., Korshun, V.A.(2008). 2-and 4-phenylethynylpyrenes, novel fluorescent labels for DNA . Russian Journal of Bioorganic Chemistry. 34. (4). p. 510-512.
(2008). DNA glue: 1-, 2- and 4-ethynylpyrenes in the structure of twisted intercalating nucleic acids (TINAs), DNA duplexes/triplexes and interstrand excimer formation .
Filichev, V.V., Astakhova, I.V., Malakhov, A.D., Korshun, V.A., Pedersen, E.B.(2008). DNA glue: 1-, 2- and 4-ethynylpyrenes in the structure of twisted intercalating nucleic acids (TINAs), DNA duplexes/triplexes and interstrand excimer formation . Nucleic acids symposium series (2004). (52). p. 347-348.
Irina V. Astakhova, Vladimir A. Korshun, Jesper Wengel(2008). Highly Fluorescent Conjugated Pyrenes in Nucleic Acid Probes: (Phenylethynyl)pyrenecarbonyl-Functionalized Locked Nucleic Acids . Chemistry - A European Journal. 14. (35). p. 11010--11026. Wiley
Astakhova, I.V., Korshun, V.A., Wengel, J.(2008). Highly fluorescent conjugated pyrenes in nucleic acid probes: (Phenylethynyl)pyrenecarbonyl-functionalized locked nucleic acids . Chemistry - A European Journal. 14. (35). p. 11010-11026.
Lindegaard, D., Madsen, A.S., Astakhova, I.V., Malakhov, A.D., Babu, B.R., Korshun, V.A., Wengel, J.(2008). Pyrene-perylene as a FRET pair coupled to the N2′-functionality of 2′-amino-LNA . Bioorganic and Medicinal Chemistry. 16. (1). p. 94-99.
Alexey V. Ustinov, Vadim V. Shmanai, Kaajal Patel, Irina A. Stepanova, Igor A. Prokhorenko, Irina V. Astakhova, Andrei D. Malakhov, Mikhail V. Skorobogatyi, Pablo L. Bernad, Safraz Khan, et al.(2008). Reactive trityl derivatives: stabilised carbocation mass-tags for life sciences applications . Organic & Biomolecular Chemistry. 6. (24). p. 4593. Royal Society of Chemistry ({RSC})
Ustinov, A.V., Shmanai, V.V., Patel, K., Stepanova, I.A., Prokhorenko, I.A., Astakhova, I.V., Malakhov, A.D., Skorobogatyi, M.V., Bernad, P.L., Khan, S., et al.(2008). Reactive trityl derivatives: Stabilised carbocation mass-tags for life sciences applications . Organic and Biomolecular Chemistry. 6. (24). p. 4593-4608.
Astakhova, I.V., Korshun, V.A.(2008). [2- and 4-phenylethynylpyrenes--new fluorescent labels for DNA] . Bioorganicheskaia khimiia. 34. (4). p. 570-572.
Astakhova, I.V., Korshun, V.A., Jahn, K., Kjems, J., Wengel, J.(2008). Perylene attached to 2′-amino-LNA: Synthesis, incorporation into oligonucleotides, and remarkable fluorescence properties in vitro and in cell culture . Bioconjugate Chemistry. 19. (10). p. 1995-2007.
Irina V. Astakhova, Andrei D. Malakhov, Irina A. Stepanova, Alexey V. Ustinov, Stanislav L. Bondarev, Alexander S. Paramonov, Vladimir A. Korshun(2007). 1-Phenylethynylpyrene (1-PEPy) as Refined Excimer Forming Alternative to Pyrene: Case of DNA Major Groove Excimer . Bioconjugate Chemistry. 18. (6). p. 1972--1980. American Chemical Society ({ACS})
Astakhova, I.V., Malakhov, A.D., Stepanova, I.A., Ustinov, A.V., Bondarev, S.L., Paramonov, A.S., Korshun, V.A.(2007). 1-Phenylethynylpyrene (1-PEPy) as refined excimer forming alternative to pyrene: Case of DNA major groove excimer . Bioconjugate Chemistry. 18. (6). p. 1972-1980.
(2005). Synthesis and evaluation of anti-HSV activity of new 5-alkynyl-2'-deoxyuridines .
OTHER
Qvortrup, K., Jin, W., Li, X., Argandona, S.M., Ray, R.M., Lin, M.K.T.H., Melle, F., Veiga, G.C., Andresen, T.L., Nielsen, M., et al.(2024). Surface Engineering of Metal-Organic Framework Nanoparticles-Based Mirna Carrier: Boosting Rna Stability, Intracellular Delivery and Synergistic Therapy . SSRN.
Roslyn M Ray, Anders Højgaard Hansen, Maria Taskova, Bernhard Jandl, Jonas Hansen, Citra Soemardy, Kevin V Morris, Kira Astakhova(2021). Enhanced cell target specificity and uptake of lipid nanoparticles using RNA aptamers and peptides . Beilstein Institut
Hanlee Ji, Kira Astakhova(2015). Fluorescent Nucleic Acid Analogues in Research and Clinical Diagnostics . RNA and DNA Diagnostics. p. 161--181. Springer International Publishing
Sensing of SNP in HIV-1 Genome Using Fluorescent Oligonucleotide Probes @incollection{2014,doi = {10.2174/9781608058969114010006},url = {https://doi.org/10.2174%2F9781608058969114010006},year = 2014,month = {may},publisher = {{BENTHAM} {SCIENCE} {PUBLISHERS}},pages = {83--122},editor = {Kira Astakhova},title = {Sensing of {SNP} in {HIV}-1 Genome Using Fluorescent Oligonucleotide Probes},booktitle = {Frontiers in Clinical Drug Research: {HIV}}} . Frontiers in Clinical Drug Research: HIV.
Kira Astakhova(2013). Interface of Chemistry and Biology . International Journal of Bioorganic Chemistry and Molecular Biology. 1. (301). p. 1--1.
Igor A. Prokhorenko, Irina V. Astakhova, Kuvat T. Momynaliev, Timofei S. Zatsepin, Vladimir A. Korshun(2009). Phenylethynylpyrene Excimer Forming Hybridization Probes for Fluorescence SNP Detection . Single Nucleotide Polymorphisms. p. 209--222. Humana Press
CONFERENCE ABSTRACT
S. Khatri, J. Hansen, N. Pedersen, S. Gram-Nielsen, A. Mendes, I. Chronakis, U. Keiding, B. Rethi, M. H. Clausen, T. W. Kragstrup, et al.(2022). Cyclic Citrullinated Peptide Aptamer Treatment Attenuates Collagen Induced Arthritis . Annals of the Rheumatic Diseases. 81. (Suppl. 1). p. 466--466. Elsevier
LB0002 a first in class therapeutic nanoparticle for specific targeting of anti-citrullinated protein antibody ameliorates serum transfer and collagen induced arthritis @article{8eb3c0dc18274486a4f79bda709bab9f, title = "LB0002 a first in class therapeutic nanoparticle for specific targeting of anti-citrullinated protein antibody ameliorates serum transfer and collagen induced arthritis", abstract = "Background: Rheumatoid arthritis (RA) is an immune mediated inflammatory disease with autoimmune features, including antibodies to citrullinated proteins and peptides (ACPAs). Several in vitro studies have suggested a pathogenic role of ACPAs in RA. However, in vivo proof of this concept has been hampered by the lack of therapeutic strategies to reduce or deplete ACPA in serum and synovial fluid. Previously, we constructed a chitosan-hyaluronic acid nanoparticle formulation with the ability to use neutrophil recruitment as a delivery mechanism to inflamed joints. Specifically, nanoparticles got phagocytosed and then released to synovial fluid upon death of the short-lived neutrophils Objectives: We hypothesized that reducing ACPA levels would have a therapeutic effect by blocking cytokine production. In this study, we prepared and tested a series of therapeutic nanoparticles for specific targeting of ACPA in synovial fluid. Methods: Nanoparticles were prepared by the microdroplet method and then decorated with synthetic cyclic citrullinated peptide aptamer PEP2, PEG/hexanoic acid and fluorophore (Cy5.5). Nanoparticles were characterized by dynamic light scattering (DLS), scanning electron microscopy (SEM) and high-performance liquid chromatography (HPLC). Nanoparticles were then used in a series of in vitro assays, including cell uptake with flow cytometry (FACS) detection, and in vivo studies including disease activity scores, cytokine measurements and near-infrared imaging. Results: We screened a series of citrullinated peptide epitopes and identified a fibrinogen-derived 21-amino-acid-long citrullinated peptide showing high selectivity toward autoantibodies in RA samples. We incorporated this aptamer in the chitosan-hyaluronic acid nanoparticle formulation previously described. Average nanoparticle size was 230 nm ± 10 nm by DLS and SEM; z potential was -0.0012. Purity by HPLC was over 95\%. Attachment efficiency of the aptamer was 92\% by HPLC. FACS study showed selective uptake of Cy5.5 labelled aptamer-nanoparticle conjugates by neutrophils in the concentration range 0.5-4 nM. Similar to previous studies,1 there was no apparent immunogenicity for this nanoparticle formulation measured by cytokine secretion from human peripheral blood leukocytes. In vivo, over 50\% reduction of disease activity was achieved in three weeks treatment using as little as 1 nM drug candidate (dosed every 48 hours) in the collagen-induced (CIA) mouse model of RA (N=30; p<0.001 for treated vs placebo). Same was observed in the serum transfer model (N=10). The aptamer-nanoparticle conjugate significantly reduced IL-6 and TNFα levels in the mouse sera (p<0.01). The effects were not inferior to tocilizumab treated controls (N=30). To confirm mode of action, we applied Cy5.5-labelled aptamer-nanoparticles in the collagen-induced mouse model (N=10) and analyzed the resulting uptake by near-infrared imaging. We confirmed over 6-fold higher signal accumulation in inflamed vs healthy joints (p<0.01), which strongly supports the fact that the aptamer is highly specific to the inflammatory process. Conclusion: Overall, we have designed a first-in-class therapeutic nanoparticle drug for specific targeting of anti-citrullinated protein antibodies. The marked effect of this nanoparticle observed in vivo holds promise for targeting ACPAs as a therapeutic option in RA.", author = "Sangita Khatri and J. Hansen and Clausen, \{Mads Hartvig\} and Kragstrup, \{T. W.\} and Hung, \{S. C.\} and E. Mellins and Kira Astakhova", year = "2020", doi = "10.1136/annrheumdis-2020-eular.6754", language = "English", volume = "79", pages = "208--208", journal = "Annals of the Rheumatic Diseases", issn = "0003-4967", publisher = "Elsevier", number = "1", } . Annals of the Rheumatic Diseases.
Roslyn M. Ray, Anders H. Hansen, Maria Taskova, Kira Astakhova, Kevin V. Morris(2018). Modulation of Ldlr and Cholesterol by Transcriptional Silencing of the Long Non-Coding Rna Bm450697 . Molecular Therapy. 26. (5). p. 39--39. Cell Press
Kira Astakhova(2013). LNA/DNA probes for fluorescence sensing of nucleic acids and autoimmune antibodies . Journal of Clinical & Cellular Immunology. 4. (5). p. 25--25. Omics Publishing Group
BOOK CHAPTER
Khatri, S., Mellins, E.D., Torok, K.S., Bukhari, S.A., Astakhova, K.(2020). Combined Assay for Detecting Autoantibodies to Nucleic Acids and Apolipoprotein H in Patients with Systemic Lupus Erythematosus . Methods in Molecular Biology. 2063. p. 57-71.
Kira Astakhova, Syeda Atia Bukhari(2020). Preface . Nucleic Acid Detection and Structural Investigations. (2063). p. v--vi. Humana Press
Taskova, M., Astakhova, K.(2020). Solid-Phase Hybridization Assay for Detection of Mutated Cancer DNA by Fluorescence . Methods in Molecular Biology. 2063. p. 37-44.
Maria Taskova, Kira Astakhova(2020). Solid-Phase Hybridization Assay for Detection of Mutated Cancer DNA by Fluorescence . Nucleic Acid Detection and Structural Investigations. 2063. p. 37--44. Springer
Sangita Khatri, Elizabeth D. Mellins, Syeda Atia Bukhari, Kira Astakhova, Kathryn S. Torok(2019). Combined Assay for Detecting Autoantibodies to Nucleic Acids and Apolipoprotein H in Patients with Systemic Lupus Erythematosus . Nucleic Acid Detection and Structural Investigations. 2063. p. 57--71. Springer
Ji, H., Astakhova, K.(2015). Fluorescent Nucleic Acid Analogues in Research and Clinical Diagnostics . RNA Technologies. p. 161-181.
BOOK
Kira Astakhova, Syeda Atia Bukhari(2020). Nucleic Acid Detection and Structural Investigations . Methods in Molecular Biology. Springer
Astakhova, K., Bukhari, S.A.(2020). Preface . Methods in Molecular Biology. 2063. p. v-vi.
CONFERENCE PAPER
Uhd, J., Okholm, A., Kjems, J., Astakhova, K.(2017). Amplification-free liquid biopsy by fluorescence approach . Advanced Materials - TechConnect Briefs 2017. 3. p. 106-109.
J. Uhd, M. Taskova, A. Okholm, Kira Astakhova(2017). Amplification-free liquid biopsy by fluorescence approach . Techconnect 2017, Proceedings.
Mulberg, M.W., Taskova, M., Thomsen, R.P., Okholm, A.H., Kjems, J., Astakhova, K.(2017). Novel fluorescent nanoparticles for ultrasensitive identification of nucleic acids by optical methods . Advanced Materials - TechConnect Briefs 2017. 3. p. 118-121.
M. Westergaard Mulberg, M. Taskova, A. Okholm, J. Kjems, Kira Astakhova(2017). Novel fluorescent nanoparticles for ultrasensitive identification of nucleic acids by optical methods . Techconnect 2017, Proceedings.
Astakhova, I.K.(2014). Synthetic LNA/DNA nano-scaffolds for highly efficient diagnostics of nucleic acids and autoimmune antibodies . Technical Proceedings of the 2014 NSTI Nanotechnology Conference and Expo, NSTI-Nanotech 2014. 2. p. 181-184.
Irina V. Astakhova, Vladimir A. Korshun, Jesper Wengel(2008). (Phenylethynyl)pyrenes attached to 2'-amino-LNA: Novel fluorescent dyes with the advantages of long-wave emission, high fluorescence quantum yields and excimer formation . Collection Symposium Series. Institute of Organic Chemistry and Biochemistry, Academy of Sciences of the Czech Republic
Irina V. Astakhova, Vladimir A. Korshun, Jesper Wengel(2008). Novel long-wave emission fluorochrome based upon perylen-3-ylcarbonyl-functionalized 2'-amino-LNA . Collection Symposium Series. Institute of Organic Chemistry and Biochemistry, Academy of Sciences of the Czech Republic
Pchelintseva, A.A., Skorobogatyj, M.V., Petrunina, A.L., Andronova, V.L., Galegov, G.A., Astakhova, I.V., Ustinov, A.V., Malakhov, A.D., Korshun, V.A.(2005). Synthesis and evaluation of anti-HSV activity of new 5-alkynyl-2′- deoxyuridines . Nucleosides, Nucleotides and Nucleic Acids. 24. (5-7). p. 923-926.
ONLINE RESOURCE
Kira Astakhova(2017). What is needed for the new era of medicine? .