Publications and Preprints

For non-research articles written about (or by) my work, please see here.

My Book: Applications of Knot Theory, co-edited with E. Flapan. Published by the AMS.

Band Surgeries and Crossing Changes between Fibered Links
with K. Ishihara, M. Rathbun, K. Shimokawa
journal arxiv
Coherent band pathways between knots and links
with K. Ishihara
journal arxiv
Some knots in S^1 x S^2 with lens space surgeries
with K. Baker and A. Lecuona
journal arxiv
Genus Ranges of 4-Regular Rigid Vertex Graphs
with E. Dolzhenko, N. Jonoska, M. Saito, K.Valencia
journal arxiv
Toroidal embeddings of abstractly planar graphs are knotted or linked
with S. Barthel
journal arxiv
Topological Aspects of DNA Function and Protein Folding
with A. Stasiak, A.D. Bates, S.A. Harris, D.W. Sumners
journal
Pretzel knots with unknotting number one
with E. Staron and J. Gibbons
journal arxiv
Gated rotation mechanism of site-specific recombination by PhiC31 integrase
with F. Olorunniji, S. Colloms, A. McEwan, M. Smith, M. Stark, S. Rosser
journal
The classification of rational subtangle replacements between rational tangles
with K. Baker
journal arxiv
Functional phylogenetic inference and speech sound evolution
with J. Aston, J. Coleman, C. Cotter, N. Jones, V. Macaulay, N. MacLeod, J. Moriarty, A. Nevins
journal arxiv
Predicting knot or catenane type of products of site-specific recombination on twist knot substrates
with K. Valencia
journal arxiv
Connect sum lens space surgeries: applications to Hin recombination
with M. Mauricio
journal arxiv
Taxonomy of DNA Conformations within complex nucleoprotein assemblies
with K. Baker (Accepted)
journal arxiv
Characterization of knots and links arising from site-specific recombination on twist knots
with K. Valencia
journal arxiv
Classification of tangle solutions for Integrases, a protein family that changes DNA topology
with C. Verjovsky Marcotte
journal arxiv
Tangle solutions for a family of DNA-rearranging proteins,
with C. Verjovsky Marcotte
journal arxiv
A topological characterization of knots and links arising from site-specific recombination
with E. Flapan
journal arxiv
A model of DNA knotting and linking
with E. Flapan
journal arxiv
Predicting knot or catenane type of site-specific recombination products
with E. Flapan
journal arxiv
Geometry of site alignment during Int family recombination: antiparallel synapsis by the Flp recombinase
with I. Grainge and M. Jayaram
journal arxiv
DNA Topology book arxiv