Research graph
References from NanoRTax, a real-time pipeline for taxonomic and diversity analysis of nanopore 16S rRNA amplicon sequencing data. Local targets link to admitted publications; unresolved targets remain external evidence.
10.1016/j.csbj.2021.02.020 · Admitted local publication
A review of methods and databases for metagenomic classification and assembly
10.1093/bib/bbx120 · 2018 · External reference
10.3389/fmicb.2017.01069
10.3389/fmicb.2017.01069 · External reference
10.1038/s41576-019-0113-7
10.1038/s41576-019-0113-7 · External reference
The challenge of diagnostic metagenomics
10.1080/14737159.2018.1487292 · 2018 · External reference
Microbiological Diagnostic Performance of Metagenomic Next-generation Sequencing When Applied to Clinical Practice
10.1093/cid/ciy693 · 2018 · External reference
A portable system for rapid bacterial composition analysis using a nanopore-based sequencer and laptop computer
10.1038/s41598-017-05772-5 · 2017 · External reference
Portable nanopore analytics: are we there yet?
10.1093/bioinformatics/btaa237 · 2020 · External reference
Species-level resolution of 16S rRNA gene amplicons sequenced through the MinIONTM portable nanopore sequencer
10.1186/s13742-016-0111-z · 2016 · External reference
Rapid draft sequencing and real-time nanopore sequencing in a hospital outbreak of Salmonella
10.1186/s13059-015-0677-2 · 2015 · External reference
Field-based species identification of closely-related plants using real-time nanopore sequencing
10.1038/s41598-017-08461-5 · 2017 · External reference
Analysis of sequencing strategies and tools for taxonomic annotation: Defining standards for progressive metagenomics
10.1038/s41598-018-30515-5 · 2018 · External reference
10.1038/nbt.3820
10.1038/nbt.3820 · External reference
10.1093/bioinformatics/bty560
10.1093/bioinformatics/bty560 · External reference
Improved metagenomic analysis with Kraken 2
2019 · External reference
10.1101/gr.210641.116
10.1101/gr.210641.116 · External reference
10.1016/s0022-2836(05)80360-2
10.1016/s0022-2836(05)80360-2 · External reference
TaxonKit: A practical and efficient NCBI taxonomy toolkit
10.1016/j.jgg.2021.03.006 · 2021 · External reference
Could lung bacterial dysbiosis predict ICU mortality in patients with extra-pulmonary sepsis? A proof-of-concept study
2020 · External reference
Unresolved reference
2022 · External reference
NanoCLUST: a species-level analysis of 16S rRNA nanopore sequencing data
10.1093/bioinformatics/btaa900 · 2021 · External reference
Sepsis: Early recognition and optimized treatment
10.4046/trd.2018.0041 · 2019 · External reference
Prediction of sepsis patients using machine learning approach: A meta-analysis
10.1016/j.cmpb.2018.12.027 · 2019 · External reference
10.1016/j.annemergmed.2018.11.036
10.1016/j.annemergmed.2018.11.036 · External reference
Early Prediction of Sepsis in the ICU Using Machine Learning. A Systematic Review
10.3389/fmed.2021.607952 · 2021 · External reference
Ultra-deep, long-read nanopore sequencing of mock microbial community standards
10.1093/gigascience/giz043 · 2019 · External reference
Freshwater monitoring by nanopore sequencing
10.7554/elife.61504 · 2021 · External reference
10.1016/j.ijmm.2021.151505
10.1016/j.ijmm.2021.151505 · External reference
Nanopore Targeted Sequencing for the Accurate and Comprehensive Detection of SARS-CoV-2 and Other Respiratory Viruses
2020 · External reference
In-depth resistome analysis by targeted metagenomics
10.1186/s40168-017-0387-y · 2018 · External reference
Next-generation sequencing strategies
2019 · External reference
Validation of metagenomic next-generation sequencing tests for universal pathogen detection
10.5858/arpa.2016-0539-ra · 2017 · External reference
10.3389/fmicb.2019.01277
10.3389/fmicb.2019.01277 · External reference
Unexpected cross-species contamination in genome sequencing projects
2014 · External reference
Reagent and laboratory contamination can critically impact sequence-based microbiome analyses
10.1186/s12915-014-0087-z · 2014 · External reference
Duplicates, redundancies and inconsistencies in the primary nucleotide databases: A descriptive study
10.1093/database/baw163 · 2017 · External reference
The use of taxon-specific reference databases compromises metagenomic classification
10.1186/s12864-020-6592-2 · 2020 · External reference
Challenges in benchmarking metagenomic profilers
10.1038/s41592-021-01141-3 · 2021 · External reference
Unresolved reference
External reference
