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Scientific and Engineering Applications of Algebraic Topology in DNA Structure

This course, offered by the University of Iowa's Division of Continuing Education, explores the application of algebraic topology within scientific and engineering contexts, particularly focusing on DNA topology. Key topics include writhe, linking number, and topoisomerases in relation to DNA replication and supercoiling. The course aims to provide insights into the topological properties of DNA, their implications in biological processes such as replication and transcription, and the role of topoisomerases in cellular mechanisms and anti-cancer therapies.

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Scientific and Engineering Applications of Algebraic Topology in DNA Structure

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  1. MATH:7450 (22M:305) Topics in Topology: Scientific and Engineering Applications of Algebraic Topology Nov 8, 2013: DNA Topology Fall 2013 course offered through the University of Iowa Division of Continuing Education Isabel K. Darcy, Department of Mathematics Applied Mathematical and Computational Sciences, University of Iowa http://www.math.uiowa.edu/~idarcy/AppliedTopology.html

  2. Antiparallel implied no Mobius bands

  3. Twist http://cmgm.stanford.edu/biochem201/Handouts/DNAtopo.html

  4. Writhe http://bioweb.wku.edu/courses/biol22000/6StructureNA/

  5. Crossing Sign Determination Right-hand Rule Right-handed Crossing +1 Left-handed Crossing -1

  6. Writhe http://bioweb.wku.edu/courses/biol22000/6StructureNA/

  7. Linking number

  8. Linking number http://en.wikipedia.org/wiki/Linking_number

  9. Linking number http://en.wikipedia.org/wiki/File:Labeled_Whitehead_Link.svg

  10. Linking number http://en.wikipedia.org/wiki/Linking_number

  11. http://bioweb.wku.edu/courses/biol22000/6StructureNA/

  12. Linking Number = Twist + Writhe http://sites.fas.harvard.edu/~biotext/animations/topology2.html

  13. http://www.accessexcellence.org/RC/VL/GG/images/dna_replicating.gifhttp://www.accessexcellence.org/RC/VL/GG/images/dna_replicating.gif http://www.ch.cam.ac.uk/magnus/molecules/nucleic/dna1.jpg

  14. (J. Mann) http://www.sbs.utexas.edu/herrin/bio344/ Postow L. et.al. PNAS;2001;98:8219-8226

  15. Topoisomerase II performing a crossing change on DNA: Cellular roles of DNA topoisomerases: a molecular perspective, James C. Wang, Nature Reviews Molecular Cell Biology 3, 430-440 (June 2002)

  16. Topoisomerases are involved in • Replication • Transcription • Unknotting, unlinking, supercoiling. • Targets of many anti-cancer drugs.

  17. Topoisomerases are proteins which cut one segment of DNA allowing a second DNA segment to pass through before resealing the break.

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