Network pharmacology databases for traditional Chinese medicine: review and assessment

R Zhang, X Zhu, H Bai, K Ning - Frontiers in pharmacology, 2019 - frontiersin.org
The research field of systems biology has greatly advanced and, as a result, the concept of
network pharmacology has been developed. This advancement, in turn, has shifted the …

Revisiting the grammar of Tau aggregation and pathology formation: how new insights from brain pathology are shaping how we study and target Tauopathies

G Limorenko, HA Lashuel - Chemical Society Reviews, 2022 - pubs.rsc.org
Converging evidence continues to point towards Tau aggregation and pathology formation
as central events in the pathogenesis of Alzheimer's disease and other Tauopathies …

Protocol Update for large-scale genome and gene function analysis with the PANTHER classification system (v. 14.0)

H Mi, A Muruganujan, X Huang, D Ebert, C Mills… - Nature protocols, 2019 - nature.com
The PANTHER classification system (http://www. pantherdb. org) is a comprehensive system
that combines genomes, gene function classifications, pathways and statistical analysis …

Network pharmacology to unveil the mechanism of Moluodan in the treatment of chronic atrophic gastritis

W Zhou, H Zhang, X Wang, J Kang, W Guo, L Zhou… - Phytomedicine, 2022 - Elsevier
Background Moluodan (MLD) is a traditional Chinese patent medicine for the treatment of
chronic atrophic gastritis (CAG). However, the mechanism of action (MoA) of MLD for …

Proteomics: technologies and their applications

B Aslam, M Basit, MA Nisar, M Khurshid… - Journal of …, 2016 - academic.oup.com
Proteomics involves the applications of technologies for the identification and quantification
of overall proteins present content of a cell, tissue or an organism. It supplements the other …

The harmonizome: a collection of processed datasets gathered to serve and mine knowledge about genes and proteins

AD Rouillard, GW Gundersen, NF Fernandez… - Database, 2016 - academic.oup.com
Genomics, epigenomics, transcriptomics, proteomics and metabolomics efforts rapidly
generate a plethora of data on the activity and levels of biomolecules within mammalian …

Expanding the coverage of regulons from high-confidence prior knowledge for accurate estimation of transcription factor activities

S Müller-Dott, E Tsirvouli, M Vazquez… - Nucleic acids …, 2023 - academic.oup.com
Gene regulation plays a critical role in the cellular processes that underlie human health and
disease. The regulatory relationship between transcription factors (TFs), key regulators of …

STRING v10: protein–protein interaction networks, integrated over the tree of life

D Szklarczyk, A Franceschini, S Wyder… - Nucleic acids …, 2015 - academic.oup.com
The many functional partnerships and interactions that occur between proteins are at the
core of cellular processing and their systematic characterization helps to provide context in …

[HTML][HTML] A proteome-scale map of the human interactome network

T Rolland, M Taşan, B Charloteaux, SJ Pevzner… - Cell, 2014 - cell.com
Just as reference genome sequences revolutionized human genetics, reference maps of
interactome networks will be critical to fully understand genotype-phenotype relationships …

HIPPIE v2. 0: enhancing meaningfulness and reliability of protein–protein interaction networks

G Alanis-Lobato, MA Andrade-Navarro… - Nucleic acids …, 2016 - academic.oup.com
The increasing number of experimentally detected interactions between proteins makes it
difficult for researchers to extract the interactions relevant for specific biological processes or …