Cargando…

SAG-QC: quality control of single amplified genome information by subtracting non-target sequences based on sequence compositions

BACKGROUND: Whole genome amplification techniques have enabled the analysis of unexplored genomic information by sequencing of single-amplified genomes (SAGs). Whole genome amplification of single bacteria is currently challenging because contamination often occurs in experimental processes. Thus, t...

Descripción completa

Detalles Bibliográficos
Autores principales:	Maruyama, Toru, Mori, Tetsushi, Yamagishi, Keisuke, Takeyama, Haruko
Formato:	Online Artículo Texto
Lenguaje:	English
Publicado:	BioMed Central 2017
Materias:	Software
Acceso en línea:	https://www.ncbi.nlm.nih.gov/pmc/articles/PMC5336615/ https://www.ncbi.nlm.nih.gov/pubmed/28259144 http://dx.doi.org/10.1186/s12859-017-1572-5

Ejemplares similares

iSeqQC: a tool for expression-based quality control in RNA sequencing
por: Kumar, Gaurav, et al.
Publicado: (2020)

Monodisperse Picoliter Droplets for Low-Bias and Contamination-Free Reactions in Single-Cell Whole Genome Amplification
por: Nishikawa, Yohei, et al.
Publicado: (2015)

Falco: high-speed FastQC emulation for quality control of sequencing data
por: de Sena Brandine, Guilherme, et al.
Publicado: (2021)

TileQC: A system for tile-based quality control of Solexa data
por: Dolan, Peter C, et al.
Publicado: (2008)

RNA-QC-chain: comprehensive and fast quality control for RNA-Seq data
por: Zhou, Qian, et al.
Publicado: (2018)

LongQC: A Quality Control Tool for Third Generation Sequencing Long Read Data
por: Fukasawa, Yoshinori, et al.
Publicado: (2020)

GenomeQC: a quality assessment tool for genome assemblies and gene structure annotations
por: Manchanda, Nancy, et al.
Publicado: (2020)

PathoQC: Computationally Efficient Read Preprocessing and Quality Control for High-Throughput Sequencing Data Sets
por: Hong, Changjin, et al.
Publicado: (2015)

ClinQC: a tool for quality control and cleaning of Sanger and NGS data in clinical research
por: Pandey, Ram Vinay, et al.
Publicado: (2016)

ATACseqQC: a Bioconductor package for post-alignment quality assessment of ATAC-seq data
por: Ou, Jianhong, et al.
Publicado: (2018)

VITCOMIC: visualization tool for taxonomic compositions of microbial communities based on 16S rRNA gene sequences
por: Mori, Hiroshi, et al.
Publicado: (2010)

Detect tissue heterogeneity in gene expression data with BioQC
por: Zhang, Jitao David, et al.
Publicado: (2017)

BLAST-QC: automated analysis of BLAST results
por: Torkian, Behzad, et al.
Publicado: (2020)

VITCOMIC2: visualization tool for the phylogenetic composition of microbial communities based on 16S rRNA gene amplicons and metagenomic shotgun sequencing
por: Mori, Hiroshi, et al.
Publicado: (2018)

getSequenceInfo: a suite of tools allowing to get genome sequence information from public repositories
por: Moco, Vincent, et al.
Publicado: (2022)

MACSIMS : multiple alignment of complete sequences information management system
por: Thompson, Julie D, et al.
Publicado: (2006)

Enrichment of bacteria and alginate lyase genes potentially involved in brown alga degradation in the gut of marine gastropods
por: Ito, Michihiro, et al.
Publicado: (2019)

Quake: quality-aware detection and correction of sequencing errors
por: Kelley, David R, et al.
Publicado: (2010)

Species-specific analysis of protein sequence motifs using mutual information
por: Hummel, Jan, et al.
Publicado: (2005)

BioPhysConnectoR: Connecting Sequence Information and Biophysical Models
por: Hoffgaard, Franziska, et al.
Publicado: (2010)

QTrim: a novel tool for the quality trimming of sequence reads generated using the Roche/454 sequencing platform
por: Shrestha, Ram Krishna, et al.
Publicado: (2014)

Subfamily logos: visualization of sequence deviations at alignment positions with high information content
por: Beitz, Eric
Publicado: (2006)

CloneQC: lightweight sequence verification for synthetic biology
por: Lee, Pablo A., et al.
Publicado: (2010)

BisQC: an operational pipeline for multiplexed bisulfite sequencing
por: Chen, Gary G, et al.
Publicado: (2014)

Obtaining high-quality draft genomes from uncultured microbes by cleaning and co-assembly of single-cell amplified genomes
por: Kogawa, Masato, et al.
Publicado: (2018)

ProSplicer: a database of putative alternative splicing information derived from protein, mRNA and expressed sequence tag sequence data
por: Huang, Hsien-Da, et al.
Publicado: (2003)

HTQC: a fast quality control toolkit for Illumina sequencing data
por: Yang, Xi, et al.
Publicado: (2013)

Linear model for fast background subtraction in oligonucleotide microarrays
por: Kroll, K Myriam, et al.
Publicado: (2009)

Draft Genome Sequence of Falsirhodobacter sp. Strain alg1, an Alginate-Degrading Bacterium Isolated from Fermented Brown Algae
por: Mori, Tetsushi, et al.
Publicado: (2014)

NGS QC Toolkit: A Toolkit for Quality Control of Next Generation Sequencing Data
por: Patel, Ravi K., et al.
Publicado: (2012)

QC-Chain: Fast and Holistic Quality Control Method for Next-Generation Sequencing Data
por: Zhou, Qian, et al.
Publicado: (2013)

qc3C: Reference-free quality control for Hi-C sequencing data
por: DeMaere, Matthew Z., et al.
Publicado: (2021)

Information theory-based algorithm for in silico prediction of PCR products with whole genomic sequences as templates
por: Cao, Youfang, et al.
Publicado: (2005)

PileLine: a toolbox to handle genome position information in next-generation sequencing studies
por: Glez-Peña, Daniel, et al.
Publicado: (2011)

MendeLIMS: a web-based laboratory information management system for clinical genome sequencing
por: Grimes, Susan M, et al.
Publicado: (2014)

MethyQA: a pipeline for bisulfite-treated methylation sequencing quality assessment
por: Sun, Shuying, et al.
Publicado: (2013)

Rapid evaluation and quality control of next generation sequencing data with FaQCs
por: Lo, Chien-Chi, et al.
Publicado: (2014)

Sequence Maneuverer: tool for sequence extraction from genomes
por: Yasmin, Tayyaba, et al.
Publicado: (2012)

Sequenced Breakpoints of Crossover Suppressor/Inversion qC1
por: Edgley, Mark L., et al.
Publicado: (2021)

MIA: Mutual Information Analyzer, a graphic user interface program that calculates entropy, vertical and horizontal mutual information of molecular sequence sets
por: Lichtenstein, Flavio, et al.
Publicado: (2015)

Cannot write session to /tmp/vufind_sessions/sess_q9ov1heucndqfq9silnvopkbki