ArticleBioinformatics (Oxford, England)2021
pdm_utils: a SEA-PHAGES MySQL phage database management toolkit.
Article in Bioinformatics (Oxford, England), 2021. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 9 papers.
What it found
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The abstract states no effect estimate the extractor could read, or names no intervention and outcome on the map, so this paper lights no cell and moves no belief. It is still indexed, cited and linked below.
The trial behind it
Trials whose registry record cites this paper, or whose number appears in the abstract. A trial that started after this paper was published is citing it as background, not reporting it.
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Who cites it
9 citing papers in PubMed.
- Article
- A Bioinformatic Ecosystem for Bacteriophage Genomics: PhaMMSeqs, Phamerator, pdm_utils, PhagesDB, DEPhT, and PhamClust.Viruses · 2024Review
- Article
- Comparative Genomics ofPHAGE (New Rochelle, N.Y.) · 2023Article
- PhaMMseqs: a new pipeline for constructing phage gene phamilies using MMseqs2.G3 (Bethesda, Md.) · 2022Article
- DEPhT: a novel approach for efficient prophage discovery and precise extraction.Nucleic acids research · 2022Article
- Wildy Prize Lecture, 2020-2021: Who wouldn't want to discover a new virus?Microbiology (Reading, England) · 2021Article
- Genome Sequence of Mycobacterium abscessus Phage phiT45-1.Microbiology resource announcements · 2021Article
- Effects of Out-of-Hospital Continuous Nursing on Postoperative Breast Cancer Patients by Medical Big Data.Journal of healthcare engineeringArticle
Corrections and comments
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Authors and funding
6 authors.
Funding
Abstract
summaryBacteriophages (phages) are incredibly abundant and genetically diverse. The volume of phage genomics data is rapidly increasing, driven in part by the SEA-PHAGES program, which isolates, sequences and manually annotates hundreds of phage genomes each year. With an ever-expanding genomics dataset, there are many opportunities for generating new biological insights through comparative genomic and bioinformatic analyses. As a result, there is a growing need to be able to store, update, explore and analyze phage genomics data. The package pdm_utils provides a collection of tools for MySQL phage database management designed to meet specific needs in the SEA-PHAGES program and phage genomics generally. AVAILABILITY AND IMPLEMENTATION: https://pypi.org/project/pdm-utils/.
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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.