For scientific collaboration, licensing, or citation questions: Prof. Ruslan Kalendar
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2025
Kalendar R. Comprehensive web-based platform for advanced PCR design, genotyping, synthetic biology, molecular diagnostics, and sequence analysis. Molecular Therapy Nucleic Acids, 36(4): 102716.
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2024
Kalendar R, Kairov U. Genome-wide tool for sensitive de novo identification and visualisation of interspersed and tandem repeats. Bioinformatics and biology insights, 18: 1-11.
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2024
Kalendar R, Shevtsov A, Otarbay Z, Ismailova A. In silico PCR analysis: a comprehensive bioinformatics tool for enhancing nucleic acid amplification assays. Frontiers in Bioinformatics, 4: 1464197.
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2022
Kalendar R, Shustov AV, Akhmetollaev IA, Kairov U. Designing allele-specific competitive-extension PCR-based assays for high-throughput genotyping and gene characterization. Frontiers Molecular Biosciences, 9:773956.
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2022
Kalendar R, Baidyussen A, Serikbay D, et al. Modified 'Allele-specific qPCR' method for SNP genotyping based on FRET. Frontiers in Plant Science, 12:747886.
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2022
Kalendar R. A guide to using FASTPCR software for PCR, in silico PCR, and oligonucleotide analysis. Methods in molecular biology, 2392: 223-243.
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2021
Kalendar R, Kospanova D, Schulman AH. Transposon-based tagging in silico using FastPCR software. Methods in molecular biology, 2250: 245-256.
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2017
Kalendar R, Khassenov B, Ramankulov Y, Samuilova O, Ivanov KI. FastPCR: an in silico tool for fast primer and probe design and advanced sequence analysis. Genomics, 109: 312-319.
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2017
Kalendar R, Tselykh T, Khassenov B, Ramanculov EM. Introduction on using the FastPCR software and the related Java web tools for PCR, in silico PCR, and oligonucleotide assembly and analysis. Methods in Molecular Biology, 1620: 33-64.
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2014
Kalendar R, Lee D, Schulman AH. FastPCR software for PCR, in silico PCR, and oligonucleotide assembly and analysis. Methods in Molecular Biology, 1116: 271-302.
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2011
Kalendar R, Lee D, Schulman AH. Java web tools for PCR, in silico PCR, and oligonucleotide assembly and analysis. Genomics, 98(2): 137-144.
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- Owczarzy R, Moreira BG, You Y, Behlke MA, Walder JA 2008. Predicting stability of DNA duplexes in solutions containing magnesium and monovalent cations. Biochemistry, 47(19): 5336-5353.
- Watkins NE, SantaLucia JJ 2005. Nearest-neighbor thermodynamics of deoxyinosine pairs in DNA duplexes. Nucleic Acids Res, 33(19): 6258-6267.
- Owczarzy R, You Y, Moreira BG, Manthey JA, Huang L, Behlke MA, Walder JA 2004. Effects of sodium ions on DNA duplex oligomers: Improved predictions of melting temperatures. Biochemistry, 43(12): 3537-3554.
- McTigue PM, Peterson RJ, Kahn JD 2004. Sequence-Dependent Thermodynamic Parameters for Locked Nucleic Acid (LNA)-DNA Duplex Formation. Biochemistry, 43:5388-5405.
- SantaLucia J 1998. A unified view of polymer, dumbbell, and oligonucleotide DNA nearest-neighbor thermodynamics. PNAS, 95:1460-1465.
- Xia T, SantaLucia J Jr, Burkard ME, Kierzek R, Schroeder SJ, Jiao X, Cox C, Turner DH 1998. Thermodynamic parameters for an expanded nearest-neighbor model for formation of RNA duplexes with Watson-Crick base pairs. Biochemistry, 37(42):14719-35.