Profound Non-Randomness in Dinucleotide Arrangements within Ultra-Conserved Non-Coding Elements and the Human Genome.

Authors

  • Emily Crossley Department of Bioinformatics, Student Author
    • Larisa Fedorova Author
      • Oleh A. Mulyar Author
        • Shuhao Qiu Author
          • Ryan Freeman Author
            • Alexei Fedorov Author

              DOI:

              https://doi.org/10.46570/utjms-2024-1191

              Keywords:

              DNA structure, UCNE, UCE, inhomogeneity, Symposium
              391 304

              References

              References

              Dimitrieva, S., & Bucher, P. (2013). UCNEbase--a database of ultraconserved non-coding elements and genomic regulatory blocks. Nucleic Acids Res, 41(Database issue), D101-109. https://doi.org/10.1093/nar/gks1092 DOI: https://doi.org/10.1093/nar/gks1092

              Fedorova, L., Mulyar, O. A., Lim, J., & Fedorov, A. (2022). Nucleotide Composition of Ultra-Conserved Elements Shows Excess of GpC and Depletion of GG and CC Dinucleotides. Genes (Basel), 13(11). https://doi.org/10.3390/genes13112053 DOI: https://doi.org/10.3390/genes13112053

              Vologodskii, A., & Frank-Kamenetskii, M. D. (2018). DNA melting and energetics of the double helix. Physics of life reviews, 25, 1-21. DOI: https://doi.org/10.1016/j.plrev.2017.11.012

              Svozil, D., Hobza, P., & Sponer, J. (2010). Comparison of intrinsic stacking energies of ten unique dinucleotide steps in A-RNA and B-DNA duplexes. Can we determine correct order of stability by quantumchemical calculations?. The Journal of Physical Chemistry B, 114(2), 1191-1203 DOI: https://doi.org/10.1021/jp910788e

              Kent, W. J., Sugnet, C. W., Furey, T. S., Roskin, K. M., Pringle, T. H., Zahler, A. M., & Haussler, D. (2002). The human genome browser at UCSC. Genome Res, 12(6), 996-1006. https://doi.org/10.1101/gr.229102 DOI: https://doi.org/10.1101/gr.229102

              Bechtel, J. M., Wittenschlaeger, T., Dwyer, T., Song, J., Arunachalam, S., Ramakrishnan, S. K., ... & Fedorov, A. (2008). Genomic mid-range inhomogeneity correlates with an abundance of RNA secondary structures. BMC genomics, 9, 1-14. DOI: https://doi.org/10.1186/1471-2164-9-284

              Fedorova, L., & Fedorov, A. (2011). Mid-range inhomogeneity of eukaryotic genomes. The Scientific World Journal, 11, 842-854. DOI: https://doi.org/10.1100/tsw.2011.82

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              Published

              2024-11-21

              Issue

              Section

              Departments of Neuroscience and Psychiatry Research Symposium

              How to Cite

              1.
              Emily Crossley, Fedorova L, Mulyar OA, Qiu S, Freeman R, Fedorov A. Profound Non-Randomness in Dinucleotide Arrangements within Ultra-Conserved Non-Coding Elements and the Human Genome. Translation. 2024;13(S1). doi:10.46570/utjms-2024-1191

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