Random walks find extensive applications across various complex network domains, including embedding generation and link prediction. Despite the widespread utilization of random walks, the precise impact of distinct biases on embedding generation from sequence data and their subsequent effects on link prediction remain elusive. We conduct a comparative analysis of several random walk strategies, including the true self-avoiding random walk and the traditional random walk. We also analyze walks biased towards node degree and those with inverse node degree bias. Diverse adaptations of the node2vec algorithm to induce distinct exploratory behaviors were also investigated. Our empirical findings demonstrate that despite the varied behaviors inherent in these embeddings, only slight performance differences manifest in the context of link prediction. This implies the resilient recovery of network structure, regardless of the specific walk heuristic employed to traverse the network. Consequently, the results suggest that data generated from sequences governed by unknown mechanisms can be successfully reconstructed.

Download full-text PDF

Source
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC11540220PMC
http://journals.plos.org/plosone/article?id=10.1371/journal.pone.0312863PLOS

Publication Analysis

Top Keywords

link prediction
16
random walks
12
random walk
12
embedding generation
8
node degree
8
random
5
comparing random
4
walks
4
walks graph
4
graph embedding
4

Similar Publications

Development and validation of a score for clinical deterioration in patients with cerebral venous thrombosis.

Neurosurg Rev

January 2025

Department of Neurosurgery, Beijing Friendship hospital, Capital Medical University, No. 95 Yong 'an Road, Xicheng District, Beijing, China.

Patients with cerebral venous thrombosis (CVT) may experience poor response to anticoagulant therapy and delayed surgical treatment may lead to clinical deterioration. However, the factors contributing to clinical deterioration remain poorly understood. Patients with CVT from three centers between January 2017 and October 2023 were included and grouped as the development cohort and validation cohort.

View Article and Find Full Text PDF

Genomic prediction applies to any agro- or ecologically relevant traits, with distinct ontologies and genetic architectures. Selecting the most appropriate model for the distribution of genetic effects and their associated allele frequencies in the training population is crucial. Linear regression models are often preferred for genomic prediction.

View Article and Find Full Text PDF

The structural organisation of pentraxin-3 and its interactions with heavy chains of inter-α-inhibitor regulate crosslinking of the hyaluronan matrix.

Matrix Biol

January 2025

Manchester Cell-Matrix Centre, Division of Cell-Matrix Biology and Regenerative Medicine, School of Biological Sciences, Faculty of Biology, Medicine and Health, University of Manchester, Manchester Academic Health Science Centre, Manchester M13 9PT, UK; Lydia Becker Institute of Immunology and Inflammation, University of Manchester, Manchester, M13 9PL, United Kingdom. Electronic address:

Pentraxin-3 (PTX3) is an octameric protein, comprised of eight identical protomers, that has diverse functions in reproductive biology, innate immunity and cancer. PTX3 interacts with the large polysaccharide hyaluronan (HA) to which heavy chains (HCs) of the inter-α-inhibitor (IαI) family of proteoglycans are covalently attached, playing a key role in the (non-covalent) crosslinking of HC•HA complexes. These interactions stabilise the cumulus matrix, essential for ovulation and fertilisation in mammals, and are also implicated in the formation of pathogenic matrices in the context of viral lung infections.

View Article and Find Full Text PDF

Background: Vestibular dysfunction causing imbalance affects c. 80% of acute hospitalized traumatic brain injury (TBI) cases. Poor balance recovery is linked to worse return-to-work rates and reduced longevity.

View Article and Find Full Text PDF

Large-scale, pan-cancer analysis is enabled by data driven knowledge bases that link tumor molecular profiles with phenotypes. A debilitating cancer-related phenotype is skeletal muscle loss, or cachexia, which occurs partly from tumor products secreted into circulation. Using the LinkedOmicsKB knowledge base assembled from the Clinical Proteomics Tumor Analysis Consortium proteogenomic analysis, along with catalogs of human secretome proteins, ligand-receptor pairs and molecular signatures, we sought to identify candidate pan-cancer proteins secreted to blood that could regulate skeletal muscle phenotypes in multiple solid cancers.

View Article and Find Full Text PDF

Want AI Summaries of new PubMed Abstracts delivered to your In-box?

Enter search terms and have AI summaries delivered each week - change queries or unsubscribe any time!