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Matthew T. Sorbara et al.
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Alexandre Almeida et al.
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BiG-SLiCE: A highly scalable tool maps the diversity of 1.2 million biosynthetic gene clusters
Satria A. Kautsar et al.
GIGASCIENCE (2021)
Probiogenomics Analysis of 97 Lactobacillus crispatus Strains as a Tool for the Identification of Promising Next-Generation Probiotics
Federico Fontana et al.
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Victoria Pascal Andreu et al.
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Sensitive protein alignments at tree-of-life scale using DIAMOND
Benjamin Buchfink et al.
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antiSMASH 6.0: improving cluster detection and comparison capabilities
Kai Blin et al.
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Integrating taxonomic, functional, and strain-level profiling of diverse microbial communities with bioBakery 3
Francesco Beghini et al.
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A Machine Learning Bioinformatics Method to Predict Biological Activity from Biosynthetic Gene Clusters
Allison S. Walker et al.
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The microbiome-shaping roles of bacteriocins
Simon Heilbronner et al.
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The IMG/M data management and analysis system v.6.0: new tools and advanced capabilities
I-Min A. Chen et al.
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A genomic catalog of Earth's microbiomes
Stephen Nayfach et al.
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A computational framework to explore large-scale biosynthetic diversity
Jorge C. Navarro-Munoz et al.
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MIBiG 2.0: a repository for biosynthetic gene clusters of known function
Satria A. Kautsar et al.
NUCLEIC ACIDS RESEARCH (2020)
IQ-TREE 2: New Models and Efficient Methods for Phylogenetic Inference in the Genomic Era
Bui Quang Minh et al.
MOLECULAR BIOLOGY AND EVOLUTION (2020)
SciPy 1.0: fundamental algorithms for scientific computing in Python
Pauli Virtanen et al.
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A taxonomic note on the genus Lactobacillus: Description of 23 novel genera, emended description of the genus Lactobacillus Beijerinck 1901, and union of Lactobacillaceae and Leuconostocaceae
Jinshui Zheng et al.
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Large-scale genome-wide analysis links lactic acid bacteria from food with the gut microbiome
Edoardo Pasolli et al.
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Comprehensive prediction of secondary metabolite structure and biological activity from microbial genome sequences
Michael A. Skinnider et al.
NATURE COMMUNICATIONS (2020)
Uncovering the unexplored diversity of thioamidated ribosomal peptides in Actinobacteria using the RiPPER genome mining tool
Javier Santos-Aberturas et al.
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The pros, cons, and many unknowns of probiotics
Jotham Suez et al.
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Interactive Tree Of Life (iTOL) v4: recent updates and new developments
Ivica Letunic et al.
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A deep learning genome-mining strategy for biosynthetic gene cluster prediction
Geoffrey D. Hannigan et al.
NUCLEIC ACIDS RESEARCH (2019)
The Ecology and Evolution of Pangenomes
Michael A. Brockhurst et al.
CURRENT BIOLOGY (2019)
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Tina Vida Plavec et al.
APPLIED MICROBIOLOGY AND BIOTECHNOLOGY (2019)
GENCODE reference annotation for the human and mouse genomes
Adam Frankish et al.
NUCLEIC ACIDS RESEARCH (2019)
fastp: an ultra-fast all-in-one FASTQ preprocessor
Shifu Chen et al.
BIOINFORMATICS (2018)
BAGEL4: a user-friendly web server to thoroughly mine RiPPs and bacteriocins
Auke J. van Heel et al.
NUCLEIC ACIDS RESEARCH (2018)
A standardized bacterial taxonomy based on genome phylogeny substantially revises the tree of life
Donovan H. Parks et al.
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Bacterial antagonism in host-associated microbial communities
Leonor Garcia-Bayona et al.
SCIENCE (2018)
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Fanny George et al.
FRONTIERS IN MICROBIOLOGY (2018)
The expanding structural variety among bacteriocins from Gram-positive bacteria
Jeella Z. Acedo et al.
FEMS MICROBIOLOGY REVIEWS (2018)
Lactic Acid Bacteria and Their Bacteriocins: Classification, Biosynthesis and Applications against Uropathogens: A Mini-Review
Mduduzi Paul Mokoena
MOLECULES (2017)
ModelFinder: fast model selection for accurate phylogenetic estimates
Subha Kalyaanamoorthy et al.
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UpSetR: an R package for the visualization of intersecting sets and their properties
Jake R. Conway et al.
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Reference sequence (RefSeq) database at NCBI: current status, taxonomic expansion, and functional annotation
Nuala A. O'Leary et al.
NUCLEIC ACIDS RESEARCH (2016)
Bacteriocins of lactic acid bacteria: extending the family
Patricia Alvarez-Sieiro et al.
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Microbial interactions: ecology in a molecular perspective
Raissa Mesquita Braga et al.
BRAZILIAN JOURNAL OF MICROBIOLOGY (2016)
Mash: fast genome and metagenome distance estimation using MinHash
Brian D. Ondov et al.
GENOME BIOLOGY (2016)
The Role of Probiotic Lactic Acid Bacteria and Bifidobacteria in the Prevention and Treatment of Inflammatory Bowel Disease and Other Related Diseases: A Systematic Review of Randomized Human Clinical Trials
Maria Jose Saez-Lara et al.
BIOMED RESEARCH INTERNATIONAL (2015)
featureCounts: an efficient general purpose program for assigning sequence reads to genomic features
Yang Liao et al.
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circlize implements and enhances circular visualization in R
Zuguang Gu et al.
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Mohamed S. Donia et al.
CELL (2014)
A roadmap for natural product discovery based on large-scale genomics and metabolomics
James R. Doroghazi et al.
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PATRIC, the bacterial bioinformatics database and analysis resource
Alice R. Wattam et al.
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MAFFT Multiple Sequence Alignment Software Version 7: Improvements in Performance and Usability
Kazutaka Katoh et al.
MOLECULAR BIOLOGY AND EVOLUTION (2013)
Bacteriocins - a viable alternative to antibiotics?
Paul D. Cotter et al.
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SortMeRNA: fast and accurate filtering of ribosomal RNAs in metatranscriptomic data
Evguenia Kopylova et al.
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Structure, function and diversity of the healthy human microbiome
Curtis Huttenhower et al.
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Fast gapped-read alignment with Bowtie 2
Ben Langmead et al.
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The Sequence Read Archive
Rasko Leinonen et al.
NUCLEIC ACIDS RESEARCH (2011)
Accelerated Profile HMM Searches
Sean R. Eddy
PLOS COMPUTATIONAL BIOLOGY (2011)
Jalview Version 2-a multiple sequence alignment editor and analysis workbench
Andrew M. Waterhouse et al.
BIOINFORMATICS (2009)
Characterization of the amylovorin locus of Lactobacillus amylovorus DCE 471, producer of a bacteriocin active against Pseudomonas aeruginosa, in combination with colistin and pyocins
Maria R. Foulquie Moreno et al.
FEMS MICROBIOLOGY LETTERS (2008)
Mucosal delivery of therapeutic and prophylactic molecules using lactic acid bacteria
Jerry M. Wells et al.
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Discovery of a widely distributed toxin biosynthetic gene cluster
Shaun W. Lee et al.
PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA (2008)
Quantitative sequence-function relationships in proteins based on gene ontology
Vineet Sangar et al.
BMC BIOINFORMATICS (2007)
Cd-hit: a fast program for clustering and comparing large sets of protein or nucleotide sequences
Weizhong Li et al.
BIOINFORMATICS (2006)
Modelling strategies for the industrial exploitation of lactic acid bacteria
B Teusink et al.
NATURE REVIEWS MICROBIOLOGY (2006)
Lactic acid bacteria as functional starter cultures for the food fermentation industry
F Leroy et al.
TRENDS IN FOOD SCIENCE & TECHNOLOGY (2004)
Cytoscape: A software environment for integrated models of biomolecular interaction networks
P Shannon et al.
GENOME RESEARCH (2003)
Primary amino acid and DNA sequences of gassericin T, a lactacin F-family bacteriocin produced by Lactobacillus gasseri SBT2055
Y Kawai et al.
BIOSCIENCE BIOTECHNOLOGY AND BIOCHEMISTRY (2000)
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