Higher-order signature cocycles for subgroups of mapping class groups and homology cylinders

We define families of invariants for elements of the mapping class group of S, a compact orientable surface. Fix any characteristic subgroup H of pi_1(S) and restrict to J(H), any subgroup of mapping classes that induce the identity modulo H. To any unitary representation, r of pi_1(S)/H we associate a higher-order rho_r-invariant and a signature 2-cocycle sigma_r. These signature cocycles are shown to be generalizations of the Meyer cocycle. In particular each rho_r is a quasimorphism and each sigma_r is a bounded 2-cocycle on J(H). In one of the simplest non-trivial cases, by varying r, we exhibit infinite families of linearly independent quasimorphisms and signature cocycles. We show that the rho_r restrict to homomorphisms on certain interesting subgroups. Many of these invariants extend naturally to the full mapping class group and some extend to the monoid of homology cylinders based on S.Comment: 38 pages. This is final version for publication in IMRN, deleted some material and many references (sorry-at referee's insistence

The Antiretroviral Pipeline

The year 2016 marks 20 years since combination-based antiretroviral therapy (ART) first demonstrated durable, effective and sustained HIV control. An unprecedented period of drug discovery followed, and advances in viral load and resistance technology made HIV, in high-income countries, one of the most individualized infections to manage.This chapter on Antiretroviral Treatment in this year's Pipeline Report provides a sweeping overview of developments in the past twenty years to put those of the past year into context

Knot concordance and homology cobordism

We consider the question: "If the zero-framed surgeries on two oriented knots in the 3-sphere are integral homology cobordant, preserving the homology class of the positive meridians, are the knots themselves concordant?" We show that this question has a negative answer in the smooth category, even for topologically slice knots. To show this we first prove that the zero-framed surgery on K is Z-homology cobordant to the zero-framed surgery on many of its winding number one satellites P(K). Then we prove that in many cases the tau and s-invariants of K and P(K) differ. Consequently neither tau nor s is an invariant of the smooth homology cobordism class of the zero-framed surgery. We also show, that a natural rational version of this question has a negative answer in both the topological and smooth categories, by proving similar results for K and its (p,1)-cables.Comment: 15 pages, 8 figure

Filtering smooth concordance classes of topologically slice knots

We propose and analyze a structure with which to organize the difference between a knot in the 3-sphere bounding a topologically embedded 2-disk in the 4-ball and it bounding a smoothly embedded disk. The n-solvable filtration of the topological knot concordance group, due to Cochran-Orr-Teichner, may be complete in the sense that any knot in the intersection of its terms may well be topologically slice. However, the natural extension of this filtration to what is called the n-solvable filtration of the smooth knot concordance group, is unsatisfactory because any topologically slice knot lies in every term of the filtration. To ameliorate this we investigate a new filtration, {B_n}, that is simultaneously a refinement of the n-solvable filtration and a generalization of notions of positivity studied by Gompf and Cochran. We show that each B_n/B_{n+1} has infinite rank. But our primary interest is in the induced filtration, {T_n}, on the subgroup, T, of knots that are topologically slice. We prove that T/T_0 is large, detected by gauge-theoretic invariants and the tau, s, and epsilon-invariants; while the non-triviliality of T_0/T_1 can be detected by certain d-invariants. All of these concordance obstructions vanish for knots in T_1. Nonetheless, going beyond this, our main result is that T_1/T_2 has positive rank. Moreover under a "weak homotopy-ribbon" condition, we show that each T_n/T_{n+1} has positive rank. These results suggest that, even among topologically slice knots, the fundamental group is responsible for a wide range of complexity.Comment: 41 pages, slightly revised introduction, minor corrections and up-dated references, this is the final version to appear in Geometry and Topolog

Genomic DNA k-mer spectra: models and modalities

Tetrapods, unlike other organisms, have multimodal spectra of k-mers in their genome