ArticleFrontiers in cellular and infection microbiology2024
BBSdb, an open resource for bacterial biofilm-associated proteins.
Article in Frontiers in cellular and infection microbiology, 2024. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 6 papers.
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Who cites it
6 citing papers in PubMed.
- Evaluating packaged ice safety using culture-based and metagenomic methods.Microbiology (Reading, England) · 2026Article
- Prediction and analysis of anti-aging peptides using data augmentation and machine learning algorithms.BMC biology · 2025Article
- National-scale biogeography and function of river and stream bacterial biofilm communities.Nature communications · 2025Article
- Spatial entropy drives the maintenance and dissemination of transferable plasmids.Molecular systems biology · 2025Article
- Genomic and phenotypic characterization of Chryseomicrobium imtechense from canine pyometra.Brazilian journal of microbiology : [publication of the Brazilian Society for Microbiology] · 2025Article
- Machine learning and network analysis with focus on the biofilm inComputational and structural biotechnology journal · 2024Article
Corrections and comments
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Authors and funding
5 authors.
Funding
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Abstract
Bacterial biofilms are organized heterogeneous assemblages of microbial cells encased within a self-produced matrix of exopolysaccharides, extracellular DNA and proteins. Over the last decade, more and more biofilm-associated proteins have been discovered and investigated. Furthermore, omics techniques such as transcriptomes, proteomes also play important roles in identifying new biofilm-associated genes or proteins. However, those important data have been uploaded separately to various databases, which creates obstacles for biofilm researchers to have a comprehensive access to these data. In this work, we constructed BBSdb, a state-of-the-art open resource of bacterial biofilm-associated protein. It includes 48 different bacteria species, 105 transcriptome datasets, 21 proteome datasets, 1205 experimental samples, 57,823 differentially expressed genes (DEGs), 13,605 differentially expressed proteins (DEPs), 1,930 'Top 5% differentially expressed genes', 444 'Threshold-based DEGs' and a predictor for prediction of biofilm-associated protein. In addition, 1,781 biofilm-associated proteins, including annotation and sequences, were extracted from 942 articles and public databases via text-mining analysis. We used
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Registered trials
Read under generation 80e0d062 · epoch 390. Bibliography from PubMed, PubMed Central and OpenAlex; grants from NIH RePORTER; trial links from ClinicalTrials.gov; estimates, votes and beliefs from the OpenQuestion graph.