Searcharxiv⌕ Search
Home/Archive/arXiv

arXiv · 1501.00662

Protein interaction networks and biology: towards the connection

Alessia Annibale·Anthony C. C. Coolen·Nuria Planell-Morell
View original source ↗Read source document ↗Export metadata ↓

Abstract

Protein interaction networks (PIN) are popular means to visualize the proteome. However, PIN datasets are known to be noisy, incomplete and biased by the experimental protocols used to detect protein interactions. This paper aims at understanding the connection between true protein interactions and the protein interaction datasets that have been obtained using the most popular experimental techniques, i.e. mass spectronomy (MS) and yeast two-hybrid (Y2H). We show that the most natural adjacency matrix of protein interaction networks has a separable form, and this induces precise relations between moments of the degree distribution and the number of short loops. These relations provide powerful tools to test the reliability of datasets and hint at the underlying biological mechanism with which proteins and complexes recruit each other.

Explore related subjects

cond-mat.dis-nn

Keep this discovery

Explore connections, maps & timelines

BibTeXRIS

Alessia Annibale, Anthony C. C. Coolen, Nuria Planell-Morell. 2015-01-04. Protein interaction networks and biology: towards the connection. https://arxiv.org/abs/1501.00662

Cite the original work for its findings. Save a collection to share your selection of sources.

KEEP EXPLORING

Related papers

arXiv2026

Irrationality Measure Controls Long-Wavelength Charge Fluctuations in Quasiperiodic Systems

Quasiperiodic order is characterized by irrational frequencies whose rational approximability known as irrationality measure defines distinct arithmetic classes. We establish that this arithmetic classification has direct physical consequences for long-wavelength charge fluctuations. In translation-covariant quasiperiodic systems, the infrared scaling of charge fluctuation is governed by the interplay between the irrationality exponent of irrational frequency and the large-harmonic decay of the hull charge profile: the latter determines the available charge weight, while the former controls how efficiently that weight is transferred to the infrared. Consequently, all algebraic irrational frequencies share the same arithmetic scaling, whereas exceptionally well-approximable transcendental frequencies can exhibit strongly enhanced infrared fluctuation scaling. We further prove that occupied states separated from the Fermi level by a gap stable throughout the hull contribute only an analytic infrared background, leaving the nontrivial scaling to near-Fermi states. Our results extend to general translation-covariant multi-frequency quasiperiodic systems.

cond-mat.dis-nn↗
arXiv2026

Curvature-Induced Geometric Universality in Non-Hermitian Anderson Transitions

In Euclidean space, universality classes of Anderson transitions are primarily determined by symmetry and spatial dimensionality. Here, we present evidence for a geometry-controlled universality class of non-Hermitian Anderson transitions on hyperbolic-like lattices. In this setting, critical behavior is influenced by the large-scale hyperbolic geometry, characterized by negative curvature, exponential volume growth, and a non-Euclidean notion of spatial scaling. Finite-size scaling of participation ratios across several distinct \( \{p,q\} \) tilings reveals one-parameter scaling collapses with a common critical exponent \( \nu\simeq1 \) within numerical accuracy. A complementary phenomenological coarse-grained Landau-Ginzburg analysis shows how exponential correlation-volume growth suppresses critical fluctuations, offering a rationale for the observed mean-field-like scaling. Our results suggest that spatial curvature can act as an additional organizing principle for Anderson-transition universality beyond the conventional dimensionality- and symmetry-based classification.

cond-mat.dis-nn↗
arXiv2026

Finite-rank multiplicative perturbations of rotationally invariant non-Hermitian random matrices

We study finite-rank multiplicative deformations of rotationally invariant non-Hermitian random matrices. More precisely, we consider models of the form $\mathbf{A}(\mathbf{I}+\mathbf{T})$, where $\mathbf{A}$ is a large rotationally invariant non-Hermitian random matrix, $\mathbf{T}$ is a finite-rank normal perturbation, and $\mathbf{I}$ denotes the identity matrix. We characterize the emergence of outlier eigenvalues, their fluctuations, and the associated eigenvector overlaps. Our results provide a multiplicative non-Hermitian counterpart to the classical Baik--Ben Arous--P\'ech\'e framework.

cond-mat.dis-nn↗