Abstract We describe a new sequence of polytopes which characterize A∞-maps from a topological monoid to an A∞-space. Therefore each of these polytopes is a quotient of the corresponding multiplihedron. Our sequence of polytopes is demonstrated not to be combinatorially equivalent to the associahedra, as was previously assumed in both topological and categorical literature. They are given the n...

This is a brief study of the homology of cubical sets, with two main purposes. First, this combinatorial structure is viewed as representing directed spaces, breaking the intrinsic symmetries of topological spaces. Cubical sets have a directed homology, consisting of preordered abelian groups where the positive cone comes from the structural cubes. But cubical sets can also express topological ...

Motivated by experimental progress in the growth of heavy transition metal oxides, we theoretically study a class of lattice models of interacting fermions with strong spin-orbit coupling. Focusing on interactions of intermediate strength, we derive a low-energy effective field theory for a fully gapped, topologically ordered, fractionalized state with an eightfold ground-state degeneracy. This...

Recently, computational approaches integrating copy number aberrations (CNAs) and gene expression (GE) have been extensively studied to identify cancer-related genes and pathways. In this work, we integrate these two data sets with protein-protein interaction (PPI) information to find cancer-related functional modules. To integrate CNA and GE data, we first built a gene-gene relationship networ...

Background: Heat shock proteins (HSP) are highly conserved molecules with many immunological functions. They are highly immunogenic with important role in cancer immunotherapy and in vaccine development against infectious diseases. As adjuvant, HSP can augment the immunogenicity of weak antigens and can stimulate antigen presenting cells. Although vaccines have been successful for many infec...

In this paper we give some characterizations of topological extreme amenability. Also we answer a question raised by Ling [5]. In particular we prove that if T is a Borel subset of a locally compact semigroup S such that M(S)* has a multiplicative topological left invariant mean then T is topological left lumpy if and only if there is a multiplicative topological left invariant mean M on M(S)* ...

We study the competition of disorder and superconductivity for a one-dimensional p-wave superconductor in incommensurate potentials. With the increase in the strength of the incommensurate potential, the system undergoes a transition from a topological superconducting phase to a topologically trivial localized phase. The phase boundary is determined both numerically and analytically from variou...

Topological network motifs represent functional relationships within and between regulatory and protein-protein interaction networks. Enriched motifs often aggregate into self-contained units forming functional modules. Theoretical models for network evolution by duplication-divergence mechanisms and for network topology by hierarchical scale-free networks have suggested a one-to-one relation b...

High-throughput data are a double-edged sword; for the benefit of large amount of data, there is an associated cost of noise. To increase reliability and scalability of high-throughput protein interaction data generation, we tested the efficacy of classification to enrich potential protein-protein interactions. We applied this method to identify interactions among Arabidopsis membrane proteins ...

Integrin activation, which is regulated by allosteric changes in receptor conformation, enables cellular responses to the chemical, mechanical and topological features of the extracellular microenvironment. A global view of how activation state converts the molecular composition of the region proximal to integrins into functional readouts is, however, lacking. Here, using conformation-specific ...