Cargando…

Identifying Group-Specific Sequences for Microbial Communities Using Long k-mer Sequence Signatures

Comparing metagenomic samples is crucial for understanding microbial communities. For different groups of microbial communities, such as human gut metagenomic samples from patients with a certain disease and healthy controls, identifying group-specific sequences offers essential information for pote...

Descripción completa

Detalles Bibliográficos
Autores principales:	Wang, Ying, Fu, Lei, Ren, Jie, Yu, Zhaoxia, Chen, Ting, Sun, Fengzhu
Formato:	Online Artículo Texto
Lenguaje:	English
Publicado:	Frontiers Media S.A. 2018
Materias:	Microbiology
Acceso en línea:	https://www.ncbi.nlm.nih.gov/pmc/articles/PMC5943621/ https://www.ncbi.nlm.nih.gov/pubmed/29774017 http://dx.doi.org/10.3389/fmicb.2018.00872

Ejemplares similares

KmerGO: A Tool to Identify Group-Specific Sequences With k-mers
por: Wang, Ying, et al.
Publicado: (2020)

VirFinder: a novel k-mer based tool for identifying viral sequences from assembled metagenomic data
por: Ren, Jie, et al.
Publicado: (2017)

Analytical Performance Validation of Next-Generation Sequencing Based Clinical Microbiology Assays Using a K-mer Analysis Workflow
por: Lepuschitz, Sarah, et al.
Publicado: (2020)

Metagenomic Sequencing Analysis Identifies Cross-Cohort Gut Microbial Signatures Associated With Age-Related Macular Degeneration
por: Xue, Wei, et al.
Publicado: (2023)

On the Use of Diversity Measures in Longitudinal Sequencing Studies of Microbial Communities
por: Wagner, Brandie D., et al.
Publicado: (2018)

Predictive Metagenomic Analysis of Autoimmune Disease Identifies Robust Autoimmunity and Disease Specific Microbial Signatures
por: Volkova, Angelina, et al.
Publicado: (2021)

Microbial Community Dynamics of Soybean (Glycine max) Is Affected by Cropping Sequence
por: Bolaji, Ayooluwa J., et al.
Publicado: (2021)

Single-Cell RNA Sequencing Elucidates the Structure and Organization of Microbial Communities
por: Brennan, Melanie A., et al.
Publicado: (2021)

Indexing Arbitrary-Length k-Mers in Sequencing Reads
por: Kowalski, Tomasz, et al.
Publicado: (2015)

FQSqueezer: k-mer-based compression of sequencing data
por: Deorowicz, Sebastian
Publicado: (2020)

Comparison of metagenomic samples using sequence signatures
por: Jiang, Bai, et al.
Publicado: (2012)

Community-wide analysis of microbial genome sequence signatures
por: Dick, Gregory J, et al.
Publicado: (2009)

kpLogo: positional k-mer analysis reveals hidden specificity in biological sequences
por: Wu, Xuebing, et al.
Publicado: (2017)

Efficient association mapping from k-mers—An application in finding sex-specific sequences
por: Mehrab, Zakaria, et al.
Publicado: (2021)

The shift of soil microbial community induced by cropping sequence affect soil properties and crop yield
por: Sun, Lei, et al.
Publicado: (2023)

The K-mer antibiotic resistance gene variant analyzer (KARGVA)
por: Marini, Simone, et al.
Publicado: (2023)

Analysing Microbial Community Composition through Amplicon Sequencing: From Sampling to Hypothesis Testing
por: Hugerth, Luisa W., et al.
Publicado: (2017)

Insight Into the Effects of Nisin and Cecropin on the Oral Microbial Community of Rats by High-Throughput Sequencing
por: Wu, Lijuan, et al.
Publicado: (2020)

Accurate and Efficient KIR Gene and Haplotype Inference From Genome Sequencing Reads With Novel K-mer Signatures
por: Roe, David, et al.
Publicado: (2020)

Association mapping from sequencing reads using k-mers
por: Rahman, Atif, et al.
Publicado: (2018)

MicroRNA categorization using sequence motifs and k-mers
por: Yousef, Malik, et al.
Publicado: (2017)

Compact and evenly distributed k-mer binning for genomic sequences
por: Nyström-Persson, Johan, et al.
Publicado: (2021)

Compact and evenly distributed k-mer binning for genomic sequences
por: Nyström-Persson, Johan, et al.
Publicado: (2021)

Identification of microbial community in the urban environment: The concordance between conventional culture and nanopore 16S rRNA sequencing
por: Lee, Annie Wing-Tung, et al.
Publicado: (2023)

Microbial dark matter sequences verification in amplicon sequencing and environmental metagenomics data
por: Barak, Hana, et al.
Publicado: (2023)

A Rapid and Specific Assay for the Detection of MERS-CoV
por: Huang, Pei, et al.
Publicado: (2018)

Molecular phylogenetics before sequences: Oligonucleotide catalogs as k-mer spectra
por: Ragan, Mark A, et al.
Publicado: (2014)

Comparing K-mer based methods for improved classification of 16S sequences
por: Vinje, Hilde, et al.
Publicado: (2015)

Enhanced Regulatory Sequence Prediction Using Gapped k-mer Features
por: Ghandi, Mahmoud, et al.
Publicado: (2014)

REINDEER: efficient indexing of k-mer presence and abundance in sequencing datasets
por: Marchet, Camille, et al.
Publicado: (2020)

Author Correction: FQSqueezer: k-mer-based compression of sequencing data
por: Deorowicz, Sebastian
Publicado: (2020)

Allele detection using k-mer-based sequencing error profiles
por: Ashraf, Hufsah, et al.
Publicado: (2023)

Assessment of Microbial Community Dynamics in River Bank Filtrate Using High-Throughput Sequencing and Flow Cytometry
por: Fiedler, Christina J., et al.
Publicado: (2018)

Comparative Analysis of the Gut Microbial Communities in Forest and Alpine Musk Deer Using High-Throughput Sequencing
por: Hu, Xiaolong, et al.
Publicado: (2017)

Bacterial Community 16S rRNA Gene Sequencing Characterizes Riverine Microbial Impact on Lake Michigan
por: Nakatsu, Cindy H., et al.
Publicado: (2019)

Microbial Communities and Physicochemical Characteristics of Traditional Dajiang and Sufu in North China Revealed by High-Throughput Sequencing of 16S rRNA
por: Liang, Tingting, et al.
Publicado: (2021)

Interpretations of Environmental Microbial Community Studies Are Biased by the Selected 16S rRNA (Gene) Amplicon Sequencing Pipeline
por: Straub, Daniel, et al.
Publicado: (2020)

k-mer Similarity, Networks of Microbial Genomes, and Taxonomic Rank
por: Bernard, Guillaume, et al.
Publicado: (2018)

Interpreting k-mer–based signatures for antibiotic resistance prediction
por: Jaillard, Magali, et al.
Publicado: (2020)

Efficient counting of k-mers in DNA sequences using a bloom filter
por: Melsted, Páll, et al.
Publicado: (2011)

Cannot write session to /tmp/vufind_sessions/sess_emiap12egpclrt1h7g96dudu9r