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pdm_utils: a SEA-PHAGES MySQL phage database management toolkit.
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Comparative Analyses of Bacteriophage Genomes.
Methods Mol Biol. 2024;2802:427-453. doi: 10.1007/978-1-0716-3838-5_14.
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PhaMMseqs: a new pipeline for constructing phage gene phamilies using MMseqs2.
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Actinobacteriophages: Genomics, Dynamics, and Applications.
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Bioinformatic analysis of the Acinetobacter baumannii phage AB1 genome.
Gene. 2012 Oct 10;507(2):125-34. doi: 10.1016/j.gene.2012.07.029. Epub 2012 Jul 31.
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Genomic and Seasonal Variations among Aquatic Phages Infecting the Baltic Sea Gammaproteobacterium sp. Strain BAL341.
Appl Environ Microbiol. 2019 Aug 29;85(18). doi: 10.1128/AEM.01003-19. Print 2019 Sep 15.

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Comparative Genomics of Phages Related to phiNIT1 from Desert Soils of the Southwest United States.
Phage (New Rochelle). 2023 Dec 14;4(4):173-180. doi: 10.1089/phage.2023.0027. eCollection 2023 Dec.
2
Phages Related to SIOphi from Desert Soils of the Southwest United States.
Phage (New Rochelle). 2023 Dec 14;4(4):165-172. doi: 10.1089/phage.2023.0021. eCollection 2023 Dec.
4
PhaMMseqs: a new pipeline for constructing phage gene phamilies using MMseqs2.
G3 (Bethesda). 2022 Nov 4;12(11). doi: 10.1093/g3journal/jkac233.
5
DEPhT: a novel approach for efficient prophage discovery and precise extraction.
Nucleic Acids Res. 2022 Jul 22;50(13):e75. doi: 10.1093/nar/gkac273.
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Effects of Out-of-Hospital Continuous Nursing on Postoperative Breast Cancer Patients by Medical Big Data.
J Healthc Eng. 2022 Jan 6;2022:9506915. doi: 10.1155/2022/9506915. eCollection 2022.
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Wildy Prize Lecture, 2020-2021: Who wouldn't want to discover a new virus?
Microbiology (Reading). 2021 Sep;167(9). doi: 10.1099/mic.0.001094.
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Genome Sequence of Mycobacterium abscessus Phage phiT45-1.
Microbiol Resour Announc. 2021 Mar 11;10(10):e00155-21. doi: 10.1128/MRA.00155-21.

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2
CDD/SPARCLE: the conserved domain database in 2020.
Nucleic Acids Res. 2020 Jan 8;48(D1):D265-D268. doi: 10.1093/nar/gkz991.
3
Engineered bacteriophages for treatment of a patient with a disseminated drug-resistant Mycobacterium abscessus.
Nat Med. 2019 May;25(5):730-733. doi: 10.1038/s41591-019-0437-z. Epub 2019 May 8.
4
Mycobacteriophages.
Microbiol Spectr. 2018 Oct;6(5). doi: 10.1128/microbiolspec.GPP3-0026-2018.
5
An inclusive Research Education Community (iREC): Impact of the SEA-PHAGES program on research outcomes and student learning.
Proc Natl Acad Sci U S A. 2017 Dec 19;114(51):13531-13536. doi: 10.1073/pnas.1718188115. Epub 2017 Dec 5.
6
Bacteriophages of spp. Display a Spectrum of Diversity and Genetic Relationships.
mBio. 2017 Aug 15;8(4):e01069-17. doi: 10.1128/mBio.01069-17.
8
Tales of diversity: Genomic and morphological characteristics of forty-six Arthrobacter phages.
PLoS One. 2017 Jul 17;12(7):e0180517. doi: 10.1371/journal.pone.0180517. eCollection 2017.
9
Bacteriophage evolution differs by host, lifestyle and genome.
Nat Microbiol. 2017 Jul 10;2:17112. doi: 10.1038/nmicrobiol.2017.112.
10
PhagesDB: the actinobacteriophage database.
Bioinformatics. 2017 Mar 1;33(5):784-786. doi: 10.1093/bioinformatics/btw711.

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