Network pharmacology approach for medicinal plants: review and assessment

F Noor, M Tahir ul Qamar, UA Ashfaq, A Albutti… - Pharmaceuticals, 2022 - mdpi.com
Natural products have played a critical role in medicine due to their ability to bind and
modulate cellular targets involved in disease. Medicinal plants hold a variety of bioactive …

[HTML][HTML] The extracellular matrix: Tools and insights for the “omics” era

A Naba, KR Clauser, H Ding, CA Whittaker, SA Carr… - Matrix Biology, 2016 - Elsevier
The extracellular matrix (ECM) is a fundamental component of multicellular organisms that
provides mechanical and chemical cues that orchestrate cellular and tissue organization …

UniProt: the universal protein knowledgebase

Nucleic acids research, 2017 - academic.oup.com
The UniProt knowledgebase is a large resource of protein sequences and associated
detailed annotation. The database contains over 60 million sequences, of which over half a …

The Pfam protein families database: towards a more sustainable future

RD Finn, P Coggill, RY Eberhardt, SR Eddy… - Nucleic acids …, 2016 - academic.oup.com
In the last two years the Pfam database (http://pfam. xfam. org) has undergone a substantial
reorganisation to reduce the effort involved in making a release, thereby permitting more …

Genomic and transcriptomic features of response to anti-PD-1 therapy in metastatic melanoma

W Hugo, JM Zaretsky, LU Sun, C Song, BH Moreno… - Cell, 2016 - cell.com
PD-1 immune checkpoint blockade provides significant clinical benefits for melanoma
patients. We analyzed the somatic mutanomes and transcriptomes of pretreatment …

PANTHER version 11: expanded annotation data from Gene Ontology and Reactome pathways, and data analysis tool enhancements

H Mi, X Huang, A Muruganujan, H Tang… - Nucleic acids …, 2017 - academic.oup.com
Abstract The PANTHER database (Protein ANalysis THrough Evolutionary Relationships,
http://pantherdb. org) contains comprehensive information on the evolution and function of …

The SWISS-MODEL Repository—new features and functionality

S Bienert, A Waterhouse, TAP De Beer… - Nucleic acids …, 2017 - academic.oup.com
Abstract SWISS-MODEL Repository (SMR) is a database of annotated 3D protein structure
models generated by the automated SWISS-MODEL homology modeling pipeline. It …

Expansion of the Gene Ontology knowledgebase and resources

Gene Ontology Consortium - Nucleic acids research, 2017 - academic.oup.com
Abstract The Gene Ontology (GO) is a comprehensive resource of computable knowledge
regarding the functions of genes and gene products. As such, it is extensively used by the …

InterPro in 2017—beyond protein family and domain annotations

RD Finn, TK Attwood, PC Babbitt… - Nucleic acids …, 2017 - academic.oup.com
Abstract InterPro (http://www. ebi. ac. uk/interpro/) is a freely available database used to
classify protein sequences into families and to predict the presence of important domains …

MEGAN community edition-interactive exploration and analysis of large-scale microbiome sequencing data

DH Huson, S Beier, I Flade, A Górska… - PLoS computational …, 2016 - journals.plos.org
There is increasing interest in employing shotgun sequencing, rather than amplicon
sequencing, to analyze microbiome samples. Typical projects may involve hundreds of …