10 papers · ranked by Valyu relevance
Xuebin Feng, Emma R. Master
Sequence similarity networks (SSNs) are graphical representations of sequence relationship frequently used for exploring protein sequence space. Conventional SSN workflows typically use BLAST to calculate sequence similarities and rely on external visualization tools to generate the final networks. Consequently, raw…
Justina Stark, Christophe Godin
Biological transport networks range from tree-like to highly reticulated architectures, which have been proposed to reflect different balances between viscous dissipation and metabolic cost. This balance cannot currently be inferred from structure: available descriptors either discard edge width entirely or preserve it…
Yichen Zhou, Tianqing Cao, Sipeng Zhu, Qiheng He + 4 more
4.1### Definition of ICNs and the Triple Network Model Intrinsic connectivity networks (ICNs) are large-scale brain networks that exhibit stable functional connectivity during rest and remain identifiable during task states, including the default mode network (DMN), salience network (SN), executive control network…
Qing Du, Wenwen Liang, Yifan Fang, Tianyi Li + 3 more
3## Results 3.1### Sample Characteristics The demographic profiles of the study population were summarized in [brb371759-supinfo-0001]. The mean MMSE was 26.16 (SD = 3.60) and the mean HDRS was 6.93 (SD = 5.97), indicating an overall mild symptom burden, with 39% (n = 229) of patients having HDRS ≥ 8. The names, means…
Giulia de Meijere, Andrea Pugliese, Gerardo Iñiguez, Péter L. Simon + 1 more
Contact tracing is one of the most important control measures deployed during epidemics and pandemics, relying on the identification of contacts of known infected individuals. A network perspective is therefore essential for its accurate modelling. Pairwise models have been used extensively to study contact tracing…
Jahnavi Bhaskaran, Elizabeth Ing-Simmons, Irina Balaguer Balsells, Sara Di Persio + 11 more
Gametogenesis, the production of oocytes and sperm, ensures the faithful transmission of genetic material to the next generation. In males, spermatogenesis occurs within the testis, where germ cells progress through a highly ordered developmental programme in close association with supporting somatic cells. Defects in…
Yuesong Wu, Haohao Su, Yuehua Cui
Cell-cell communication (CCC) is essential for maintaining tissue organization and driving biological progression, yet its inference from transcriptomic data has long been limited by the absence of spatial context. Advances in spatial transcriptomics (ST) now enable mechanistically grounded analyses of CCC by…
Jin-Peng Gao, Feiyang Zhao, Guofeng Zhang, Qingchao Chen + 12 more
Legumes convert atmospheric nitrogen into ammonium through symbiotic bacteria housed in root nodules, yet the molecular interactions between rhizobial and host proteins inside nodules remain poorly understood. Here we employed AlphaFold3 to construct a cross-kingdom interactome between Medicago truncatula and its…
Meili Xi, Rongkui Luo, Jiarong Zhang, Weihong Huang + 3 more
Polycystic ovary syndrome (PCOS) is a heterogeneous endocrine-metabolic disorder characterized by profound disturbances in energy metabolism, yet the molecular mechanisms underlying glycolytic dysfunction remain incompletely understood. Given the essential role of glycolysis in ovarian function and endocrine…
Filippo Groppi, Jessica Ferrari
Spontaneous population bursts repeatedly expose synapses to correlated spike activity, but it is unclear whether such events reinforce pre-existing synaptic weight differences when precise firing order carries little information. We asked this in a conductance-based model of a bursting neuronal culture: 48 excitatory…