pypi: DeepARG | Projects | Ecosyste.ms: Papers

10.3389/fmicb.2020.01376

Mobilization of Antibiotic Resistance: Are Current Approaches for Colocalizing Resistomes and Mobilomes Useful?
Cited by: 28
Author(s): Ilya B. Slizovskiy, Kingshuk Mukherjee, Christopher Dean, Christina Boucher, Noelle Noyes
Software Mentions: 8
Published: about 4 years ago

10.1038/s41598-019-50686-z

Antimicrobial Resistance Prediction for Gram-Negative Bacteria via Game Theory-Based Feature Evaluation
Cited by: 22
Author(s): Abu Sayed Chowdhury, Douglas R. Call, Shira L. Broschat
Software Mentions: 7
Published: almost 5 years ago

10.1186/s40168-020-00993-9

PathoFact: a pipeline for the prediction of virulence factors and antimicrobial resistance genes in metagenomic data
Cited by: 61
Author(s): Laura de Nies, Sara Lopes, Susheel Bhanu Busi, Valentina Galata, Anna Heintz‐Buschart, Cédric Christian Laczny, Patrick May, Paul Wilmes
Software Mentions: 7
Published: over 3 years ago

10.1186/s40168-021-01006-z

Combined effects of composting and antibiotic administration on cattle manure–borne antibiotic resistance genes
Cited by: 26
Author(s): Ishi Keenum, Robert Williams, Partha Pratim Ray, Emily Garner, Katharine F. Knowlton, Amy Pruden
Software Mentions: 6
Published: over 3 years ago

10.3389/fmicb.2020.00052

sraX: A Novel Comprehensive Resistome Analysis Tool
Cited by: 14
Author(s): Leonardo G. Panunzi
Software Mentions: 5
Published: over 4 years ago

10.1093/gigascience/giaa046

Global ocean resistome revealed: Exploring antibiotic resistance gene abundance and distribution in TARA Oceans samples
Cited by: 49
Author(s): Rafael R. C. Cuadrat, Maria Sorokina, Bruno de Bezerril Andrade, Tobias Goris, Alberto M. R. Dávila
Software Mentions: 5
Published: over 4 years ago

10.3390/antibiotics10040419

Combining Functional Genomics and Whole-Genome Sequencing to Detect Antibiotic Resistance Genes in Bacterial Strains Co-Occurring Simultaneously in a Brazilian Hospital
Cited by: 3
Author(s): Tiago Cabral Borelli, Gabriel Lencioni Lovate, Ana Flavia Tonelli Scaranello, Lucas F. Ribeiro, Livia S. Zaramela, Felipe Marcelo Pereira-dos-Santos, Rafael Silva‐Rocha, María‐Eugenia Guazzaroni
Software Mentions: 5
Published: over 3 years ago

10.3389/fmicb.2020.00322

Metatranscriptomics Reveals Antibiotic-Induced Resistance Gene Expression in the Murine Gut Microbiota
Cited by: 11
Author(s): Benjamin J. Korry, Damien J. Cabral, Peter Belenky
Software Mentions: 4
Published: over 4 years ago

10.1186/s40168-019-0703-9

NanoARG: a web service for detecting and contextualizing antimicrobial resistance genes from nanopore-derived metagenomes
Cited by: 62
Author(s): Gustavo Arango-Argoty, Dongjuan Dai, Amy Pruden, Peter J. Vikesland, Lenwood S. Heath, Liqing Zhang
Software Mentions: 3
Published: over 5 years ago

10.1186/s40168-018-0401-z

DeepARG: a deep learning approach for predicting antibiotic resistance genes from metagenomic data
Cited by: 394
Author(s): Gustavo Arango-Argoty, Emily Garner, Amy Pruden, Lenwood S. Heath, Peter J. Vikesland, Liqing Zhang
Software Mentions: 3
Published: over 6 years ago

10.3389/fmicb.2020.00932

Impact of Microbiota Transplant on Resistome of Gut Microbiota in Gnotobiotic Piglets and Human Subjects
Cited by: 10
Author(s): Liu Hu, Hua H. Wang
Software Mentions: 3
Published: over 4 years ago

10.3390/ijerph16244896

Research and Technological Advances Regarding the Study of the Spread of Antimicrobial Resistance Genes and Antimicrobial-Resistant Bacteria Related to Animal Husbandry
Cited by: 10
Author(s): Na Li, Chong Liu, Zhiguo Zhang, Hongna Li, Tingting Song, Ting Liang, Binxu Li, Luyao Li, Shuo Feng, Qianqian Su, Jing Ye, Changliang Zhu
Software Mentions: 2
Published: almost 5 years ago

10.3390/antibiotics8010008

The Quest for Novel Antimicrobial Compounds: Emerging Trends in Research, Development, and Technologies
Cited by: 61
Author(s): Pavan K. Mantravadi, Karunakaran A. Kalesh, Renwick C. J. Dobson, André O. Hudson, Anutthaman Parthasarathy
Software Mentions: 2
Published: over 5 years ago

10.3389/fmicb.2019.01722

Machine Learning Approaches for Epidemiological Investigations of Food-Borne Disease Outbreaks
Cited by: 20
Author(s): Baiba Vilne, Irēna Meistere, Lelde Grantiņa-Ieviņa, Juris Ķibilds
Software Mentions: 2
Published: about 5 years ago

10.1128/mSphere.00346-18

Widespread Antibiotic, Biocide, and Metal Resistance in Microbial Communities Inhabiting a Municipal Waste Environment and Anthropogenically Impacted River
Cited by: 11
Author(s): Aneisha M. Collins-Fairclough, Rebecca Co, Melessa C. Ellis, Laura A. Hug
Software Mentions: 2
Published: almost 6 years ago

10.3389/fgene.2020.563975

Current Trends in Experimental and Computational Approaches to Combat Antimicrobial Resistance
Cited by: 10
Author(s): Madangchanok Imchen, Jamseel Moopantakath, Ranjith Kumavath, Debmalya Barh, Sandeep Tiwari, Preetam Ghosh, Vasco Azevedo
Software Mentions: 1
Published: almost 4 years ago

10.3389/fmicb.2021.603967

Techniques Used for Analyzing Microplastics, Antimicrobial Resistance and Microbial Community Composition: A Mini-Review
Cited by: 16
Author(s): Simona Bartkova, Anne Kahru, Margit Heinlaan, Ott Scheler
Software Mentions: 1
Published: over 3 years ago

10.1186/s40168-021-01002-3

HMD-ARG: hierarchical multi-task deep learning for annotating antibiotic resistance genes
Cited by: 40
Author(s): Yu Li, Zeling Xu, Wenkai Han, Huiluo Cao, Ramzan Umarov, Aixin Yan, Ming Fan, Huan Chen, Carlos M. Duarte, Lihua Li, Pak-Leung Ho, Xin Gao
Software Mentions: 1
Published: over 3 years ago

10.3389/fmicb.2020.01319

Antibiotic Administration Routes and Oral Exposure to Antibiotic Resistant Bacteria as Key Drivers for Gut Microbiota Disruption and Resistome in Poultry
Cited by: 20
Author(s): Yang Zhou, Yu Liu, Lu Zhang, Zhongliang Wu, Ying Huang, Yan He, Jun Zhong, Li J. Wang, Hafiz M. Abdullah, Hua H. Wang
Software Mentions: 1
Published: about 4 years ago

10.3390/antibiotics9050251

Antimicrobial Resistance Profiles of Adherent Invasive Escherichia coli Show Increased Resistance to β-Lactams
Cited by: 9
Author(s): Margarita Martínez-Medina, Francesco Strozzi, Belén Ruiz del Castillo, Natalia Serrano‐Morillas, Núria Ferrer-Bustins, Luis Martínez-Martínez
Software Mentions: 1
Published: over 4 years ago

10.1128/MRA.00003-20

Identification of Metagenome-Assembled Genomes Containing Antimicrobial Resistance Genes, Isolated from an Advanced Water Treatment Facility
Cited by: 5
Author(s): Blake W. Stamps, John R. Spear
Software Mentions: 1
Published: over 4 years ago

10.1128/MRA.00279-20

Complete Genome Sequence of Escherichia coli GW-AmxH19, Isolated from Hospital Wastewater in Greifswald, Germany
Cited by: 0
Author(s): Dominik Schneider, Daniela Zühlke, Tabea Petscheleit, Anja Poehlein, Katharina Riedel, Rolf Daniel
Software Mentions: 1
Published: over 4 years ago

10.1038/s41598-020-65981-3

BacEffluxPred: A two-tier system to predict and categorize bacterial efflux mediated antibiotic resistance proteins
Cited by: 12
Author(s): Deeksha Pandey, Bandana Kumari, Neelja Singhal, Manish Kumar
Software Mentions: 1
Published: over 4 years ago

10.3389/fgene.2021.564186

Exploring Prediction of Antimicrobial Resistance Based on Protein Solvent Accessibility Variation
Cited by: 3
Author(s): Simone Marini, Marco Antônio Oliva, Ilya B. Slizovskiy, Noelle Noyes, Christina Boucher, Mattia Prosperi
Software Mentions: 1
Published: over 3 years ago

10.3389/fmicb.2021.634511

Applications of Machine Learning in Human Microbiome Studies: A Review on Feature Selection, Biomarker Identification, Disease Prediction and Treatment
Cited by: 128
Author(s): Laura Judith Marcos-Zambrano, Kanita Karađuzović-Hadžiabdić, Tatjana Lončar-Turukalo, Piotr Przymus, Vladimir Trajkovik, Oliver Aasmets, Magali Berland, Aleksandra Gruca, Jasminka Hasic, Karel Hron, Thomas Klammsteiner, Mikhail Kolev, Leo Lahti, Marta B. Lopes, Vı́ctor Moreno, Irina Naskinova, Elin Org, Inês Paciência, Γεώργιος Παπουτσόγλου, Rajesh Shigdel, Blaž Stres, Baiba Vilne, Malik Yousef, Eftim Zdravevski, Ioannis Tsamardinos, Enrique Carrillo de Santa Pau, Marcus J. Claesson, Isabel Moreno-Indias, Jaak Truu
Software Mentions: 1
Published: over 3 years ago

Ecosyste.ms: Papers

Projects: pypi: DeepARG

Papers Mentioning DeepARG 25