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References from Protein-language-model-based antibiotic resistance gene prediction and resistomes mining in cyanobacterial blooms. Local targets link to admitted publications; unresolved targets remain external evidence.
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Automated extraction of genes associated with antibiotic resistance from the biomedical literature
2022 · External reference
Sensitive protein alignments at tree-of-life scale using DIAMOND
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Effects of temperature on Escherichia coli overproducing beta-lactamase or human epidermal growth factor
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Histone variants in environmental-stress-induced DNA damage repair
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Towards the biogeography of prokaryotic genes
10.1038/s41586-021-04233-4 · 2022 · External reference
UniProt: a worldwide hub of protein knowledge
10.1093/nar/gky1049 · 2019 · External reference
Does human activity impact the natural antibiotic resistance background? Abundance of antibiotic resistance genes in 21 Swiss lakes
10.1016/j.envint.2015.04.005 · 2015 · External reference
TGC-ARG: anticipating Antibiotic resistance via transformer-based modeling and contrastive learning
10.3390/ijms25137228 · 2024 · External reference
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10.1002/imt2.13 · 2022 · External reference
Antimicrobial resistance of heterotrophic bacteria in sewage-contaminated rivers
10.1016/j.watres.2010.09.003 · 2011 · External reference
Direct exchange of vitamin B12 is demonstrated by modelling the growth dynamics of algal-bacterial cocultures
10.1038/ismej.2014.9 · 2014 · External reference
Biofilms as a sink for antibiotic resistance genes (ARGs) in the Yangtze Estuary
10.1016/j.watres.2017.11.029 · 2018 · External reference
The antibiotic resistome of free-living and particle-attached bacteria under a reservoir cyanobacterial bloom
10.1016/j.envint.2018.04.045 · 2018 · External reference
The impact of a freshwater fish farm on the community of tetracycline-resistant bacteria and the structure of tetracycline resistance genes in river water
10.1016/j.chemosphere.2015.01.035 · 2015 · External reference
Understanding the mechanisms and drivers of antimicrobial resistance
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Hidden Markov model speed heuristic and iterative HMM search procedure
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Molecular mechanism of the Escherichia coli AhpC in the function of a chaperone under heat-shock conditions
10.1038/s41598-018-32527-7 · 2018 · External reference
Interplays between cyanobacterial blooms and antibiotic resistance genes
10.1016/j.envint.2023.108268 · 2023 · External reference
Metabolic rearrangement enables adaptation of microbial growth rate to temperature shifts
10.1038/s41564-024-01841-4 · 2025 · External reference
MEGARes: an antimicrobial resistance database for high throughput sequencing
10.1093/nar/gkw1009 · 2017 · External reference
Scaling read aligners to hundreds of threads on general-purpose processors
10.1093/bioinformatics/bty648 · 2019 · External reference
Global survey of antibiotic resistance genes in air
10.1021/acs.est.8b02204 · 2018 · External reference
The challenge of efflux-mediated antibiotic resistance in Gram-negative bacteria
10.1128/cmr.00117-14 · 2015 · External reference
HMD-ARG: hierarchical multi-task deep learning for annotating antibiotic resistance genes
10.1186/s40168-021-01002-3 · 2021 · External reference
Evolutionary-scale prediction of atomic-level protein structure with a language model
10.1126/science.ade2574 · 2023 · External reference
Trends in antibiotic resistance genes occurrence in the Haihe River, China
10.1021/es100233w · 2010 · External reference
Catalogue of antibiotic resistome and host-tracking in drinking water deciphered by a large scale survey
10.1186/s40168-017-0369-0 · 2017 · External reference
Fate and Persistence of a Pathogenic NDM-1-Positive Escherichia coli Strain in Anaerobic and Aerobic Sludge Microcosms
10.1128/aem.00640-17 · 2017 · External reference
Embeddings from protein language models predict conservation and variant effects
10.1007/s00439-021-02411-y · 2022 · External reference
The comprehensive antibiotic resistance database
10.1128/aac.00419-13 · 2013 · External reference
Language models enable zero-shot prediction of the effects of mutations on protein function
2021 · External reference
Antibiotic resistance–problems, progress, and prospects
10.1056/nejmp1408040 · 2014 · External reference
Unresolved reference
2014 · External reference
Algal blooms: noteworthy nitrogen
10.1126/science.346.6206.175-a · 2014 · External reference
Blooms like it hot
10.1126/science.1155398 · 2008 · External reference
A novel therapeutic concern: antibiotic resistance genes in common chronic diseases
10.3389/fmicb.2022.1037389 · 2022 · External reference
An introduction to sequence similarity (“homology”) searching
10.1002/0471250953.bi0301s42 · 2013 · External reference
ARGNet: using deep neural networks for robust identification and classification of antibiotic resistance genes from sequences
10.1186/s40168-024-01805-0 · 2024 · External reference
Dynamic changes of nitrogen-transforming and phosphorus-accumulating bacteria along with the formation of cyanobacterial blooms
2018 · External reference
Environmental issues of Lake Taihu, China
10.1007/s10750-006-0521-5 · 2007 · External reference
Aminoglycoside modifying enzymes
10.1016/j.drup.2010.08.003 · 2010 · External reference
Role of the multidrug resistance regulator MarA in global regulation of the hdeAB acid resistance operon in Escherichia coli
10.1128/jb.01729-07 · 2008 · External reference
Adaptive resistance to antibiotics in bacteria: a systems biology perspective
2016 · External reference
Specific association between bacteria and buoyant Microcystis colonies compared with other bulk bacterial communities in the eutrophic Lake Taihu, China
10.1111/1758-2229.12001 · 2012 · External reference
Decomposition and phosphorus release from four different size fractions of Microcystis spp. taken from Lake Taihu, China
10.1016/s1001-0742(08)62143-9 · 2008 · External reference
ARG-SHINE: improve antibiotic resistance class prediction by integrating sequence homology, functional information and deep convolutional neural network
2021 · External reference
The antibiotic resistome: the nexus of chemical and genetic diversity
10.1038/nrmicro1614 · 2007 · External reference
PLM-ARG: antibiotic resistance gene identification using a pretrained protein language model
10.1093/bioinformatics/btad690 · 2023 · External reference
Prevalence of antibiotic resistance in drinking water treatment and distribution systems
10.1128/aem.00382-09 · 2009 · External reference
Antibiotic resistance genes and microcystins in a drinking water treatment plant
10.1016/j.envpol.2019.113718 · 2020 · External reference
ARGs-OAP: online analysis pipeline for antibiotic resistance genes detection from metagenomic data using an integrated structured ARG-database
10.1093/bioinformatics/btw136 · 2016 · External reference
Metagenomics reveals the response of antibiotic resistance genes to elevated temperature in the Yellow River
2023 · External reference
Cyanobacterial blooms contribute to the diversity of antibiotic-resistance genes in aquatic ecosystems
10.1038/s42003-020-01468-1 · 2020 · External reference
Nonlinear impacts of temperature on antibiotic resistance in Escherichia coli
10.1016/j.ese.2024.100475 · 2024 · External reference
High-throughput profiling of seasonal variations of antibiotic resistance gene transport in a peri-urban river
10.1016/j.envint.2018.02.039 · 2018 · External reference
Responses of cyanobacterial aggregate microbial communities to algal blooms
10.1016/j.watres.2021.117014 · 2021 · External reference
Global diversity and distribution of antibiotic resistance genes in human wastewater treatment systems
10.1038/s41467-025-59019-3 · 2025 · External reference
Alternate succession of aggregate-forming cyanobacterial genera correlated with their attached bacteria by co-pathways
10.1016/j.scitotenv.2019.06.150 · 2019 · External reference
