Mapping the multiscale structure of biological systems

LV Schaffer, T Ideker - Cell systems, 2021 - cell.com
Biological systems are by nature multiscale, consisting of subsystems that factor into
progressively smaller units in a deeply hierarchical structure. At any level of the hierarchy …

Genome-scale metabolic network models for industrial microorganisms metabolic engineering: current advances and future prospects

Z Gong, J Chen, X Jiao, H Gong, D Pan, L Liu… - Biotechnology …, 2024 - Elsevier
The construction of high-performance microbial cell factories (MCFs) is the centerpiece of
biomanufacturing. However, the complex metabolic regulatory network of microorganisms …

Mapping the technology evolution path: a novel model for dynamic topic detection and tracking

H Liu, Z Chen, J Tang, Y Zhou, S Liu - Scientometrics, 2020 - Springer
Identifying the evolution path of a research field is essential to scientific and technological
innovation. There have been many attempts to identify the technology evolution path based …

Electrospun scaffold micro-architecture induces an activated transcriptional phenotype within tendon fibroblasts

MJ Baldwin, JY Mimpen, AP Cribbs, E Stace… - … in bioengineering and …, 2022 - frontiersin.org
Biomaterial augmentation of surgically repaired rotator cuff tendon tears aims to improve the
high failure rates (∼ 40%) of traditional repairs. Biomaterials that can alter cellular …

Overview of methods for characterization and visualization of a protein–protein interaction network in a multi-omics integration context

V Robin, A Bodein, MP Scott-Boyer… - Frontiers in Molecular …, 2022 - frontiersin.org
At the heart of the cellular machinery through the regulation of cellular functions, protein–
protein interactions (PPIs) have a significant role. PPIs can be analyzed with network …

Tracing the footsteps of autophagy in computational biology

DT Sarmah, N Bairagi, S Chatterjee - Briefings in Bioinformatics, 2021 - academic.oup.com
Autophagy plays a crucial role in maintaining cellular homeostasis through the degradation
of unwanted materials like damaged mitochondria and misfolded proteins. However, the …

Bioinformatics applied to biotechnology: A review towards bioenergy research

LM De Carvalho, G Borelli, AP Camargo… - Biomass and …, 2019 - Elsevier
The ever-increasing demand for energy, along with worldwide policies aiming sustainability,
resulted in an escalation of research projects focusing on alternative routes for energy …

Exploratory gene ontology analysis with interactive visualization

J Zhu, Q Zhao, E Katsevich, C Sabatti - Scientific reports, 2019 - nature.com
Abstract The Gene Ontology (GO) is a central resource for functional-genomics research.
Scientists rely on the functional annotations in the GO for hypothesis generation and couple …

An investigation into various visualization tools for complex biological networks

H Alzahrani, S Fernstad - Information Visualization, 2023 - journals.sagepub.com
Network biology has become crucial to understanding the complex structural characteristics
of biological systems. Consequently, advanced visualization approaches are needed to …

LCN2-interacting proteins and their expression patterns in brain tumors

Z Du, B Wu, Q Xia, Y Zhao, L Lin, Z Cai, S Wang, E Li… - Brain Research, 2019 - Elsevier
Abstract Lipocalin 2 (LCN2) is a member of the lipocalin family. Elevated expression of
LCN2 has been observed in many human tumors, suggesting it might be a potential …