ArticleMicroorganisms2023
BacSeq: A User-Friendly Automated Pipeline for Whole-Genome Sequence Analysis of Bacterial Genomes.
Article in Microorganisms, 2023. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 21 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.
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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
21 citing papers in PubMed, 24 citations in OpenAlex.
- BaGPipe: an automated, reproducible, and flexible pipeline for bacterial genome-wide association studies.BMC microbiology · 2026Article
- Probiotic Potential, Genomic Characterization, and In Silico Insights of FiveAntibiotics (Basel, Switzerland) · 2026Article
- PaVarDB: a database and web platform for missense variant analysis in Pseudomonas aeruginosa using an end-to-end BVbase pipeline.Database : the journal of biological databases and curation · 2026Article
- Bacillus subtilis T7 encodes [FeFe]-hydrogenase and lignin-targeting LPMOs for consolidated bioprocessing.Applied microbiology and biotechnology · 2026Article
- Bioconversion of lignin and food waste into vanillin and biohydrogen by Escherichia coli MC3: a novel dual-functional bacteria.Biotechnology for biofuels and bioproducts · 2026Article
- Genomic characterization and biological activities of cell-free supernatant fromFrontiers in cellular and infection microbiology · 2026Article
- Whole genome sequencing dataset ofData in brief · 2025Article
- Whole-Genome Sequencing and Antibiotic Resistance Profiling ofAntibiotics (Basel, Switzerland) · 2025Article
- Phenotypic and Genomic Insights intoFoods (Basel, Switzerland) · 2025Article
- Probiogenomic analysis ofHeliyon · 2025Article
- Genomic analysis of Enterobacter cloacae complex from Southern Thailand reveals insights into multidrug resistance genotypes and genetic diversity.Scientific reports · 2025Article
- Genomic Characterization of Probiotic Purple Nonsulfur BacteriaLife (Basel, Switzerland) · 2024Article
- Genomic characteristics of carbapenem-non-susceptibleMicrobiology resource announcements · 2024Article
- Probiogenomic analysis ofHeliyon · 2024Article
- Lyophilized cell-free supernatants of Limosilactobacillus fermentum T0701 exhibited antibacterial activity against Helicobacter pylori.Scientific reports · 2024Article
- The GEA pipeline for characterizing Escherichia coli and Salmonella genomes.Scientific reports · 2024Article
- Genomic Characterization of Multidrug-Resistant Enterobacteriaceae Clinical Isolates from Southern Thailand Hospitals: Unraveling Antimicrobial Resistance and Virulence Mechanisms.Antibiotics (Basel, Switzerland) · 2024Article
- Probiotic Insights from the Genomic Exploration ofFoods (Basel, Switzerland) · 2024Article
- Unlocking the genetic potential ofHeliyon · 2024Article
- Automating the Illumina DNA library preparation kit for whole genome sequencing applications on the flowbot ONE liquid handler robot.Scientific reports · 2024Article
Corrections and comments
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Authors and funding
6 authors at 1 institution in 1 country.
Funding
Abstract
Whole-genome sequencing (WGS) of bacterial pathogens is widely conducted in microbiological, medical, and clinical research to explore genetic insights that could impact clinical treatment and molecular epidemiology. However, analyzing WGS data of bacteria can pose challenges for microbiologists, clinicians, and researchers, as it requires the application of several bioinformatics pipelines to extract genetic information from raw data. In this paper, we present BacSeq, an automated bioinformatic pipeline for the analysis of next-generation sequencing data of bacterial genomes. BacSeq enables the assembly, annotation, and identification of crucial genes responsible for multidrug resistance, virulence factors, and plasmids. Additionally, the pipeline integrates comparative analysis among isolates, offering phylogenetic tree analysis and identification of single-nucleotide polymorphisms (SNPs). To facilitate easy analysis in a single step and support the processing of multiple isolates, BacSeq provides a graphical user interface (GUI) based on the JAVA platform. It is designed to cater to users without extensive bioinformatics skills.
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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 Socratic graph.