Cargando…

Gene finding in metatranscriptomic sequences

BACKGROUND: Metatranscriptomic sequencing is a highly sensitive bioassay of functional activity in a microbial community, providing complementary information to the metagenomic sequencing of the community. The acquisition of the metatranscriptomic sequences will enable us to refine the annotations o...

Descripción completa

Detalles Bibliográficos
Autores principales:	Ismail, Wazim Mohammed, Ye, Yuzhen, Tang, Haixu
Formato:	Online Artículo Texto
Lenguaje:	English
Publicado:	BioMed Central 2014
Materias:	Proceedings
Acceso en línea:	https://www.ncbi.nlm.nih.gov/pmc/articles/PMC4168707/ https://www.ncbi.nlm.nih.gov/pubmed/25253067 http://dx.doi.org/10.1186/1471-2105-15-S9-S8

Ejemplares similares

Utilizing de Bruijn graph of metagenome assembly for metatranscriptome analysis
por: Ye, Yuzhen, et al.
Publicado: (2016)

Clonal reconstruction from time course genomic sequencing data
por: Ismail, Wazim Mohammed, et al.
Publicado: (2019)

Effective gene collection from the metatranscriptome of marine microorganisms
por: Ogura, Atsushi, et al.
Publicado: (2011)

A Maximum-Likelihood Approach to Estimating the Insertion Frequencies of Transposable Elements from Population Sequencing Data
por: Jiang, Xiaoqian, et al.
Publicado: (2018)

The Symmetrical Wave Pattern of Base-Pair Substitution Rates across the Escherichia coli Chromosome Has Multiple Causes
por: Niccum, Brittany A., et al.
Publicado: (2019)

Characterization of CRISPR RNA transcription by exploiting stranded metatranscriptomic data
por: Ye, Yuzhen, et al.
Publicado: (2016)

Conceptualization of molecular findings by mining gene annotations
por: Chen, Vicky, et al.
Publicado: (2013)

Probabilistic Inference of Biochemical Reactions in Microbial Communities from Metagenomic Sequences
por: Jiao, Dazhi, et al.
Publicado: (2013)

Finding genes that influence quantitative traits with tree-based clustering
por: Wilson, Ian J, et al.
Publicado: (2011)

FragGeneScan: predicting genes in short and error-prone reads
por: Rho, Mina, et al.
Publicado: (2010)

RAPSearch2: a fast and memory-efficient protein similarity search tool for next-generation sequencing data
por: Zhao, Yongan, et al.
Publicado: (2012)

Finding pathway regulators: gene set approach using peak identification algorithms
por: Lee, Eunjee, et al.
Publicado: (2007)

Whole-genome sequencing and identification of Morganella morganii KT pathogenicity-related genes
por: Chen, Yu-Tin, et al.
Publicado: (2012)

i-rDNA: alignment-free algorithm for rapid in silico detection of ribosomal gene fragments from metagenomic sequence data sets
por: Mohammed, Monzoorul Haque, et al.
Publicado: (2011)

Adaptation of Escherichia coli to Long-Term Serial Passage in Complex Medium: Evidence of Parallel Evolution
por: Kram, Karin E., et al.
Publicado: (2017)

A structural approach for finding functional modules from large biological networks
por: Mete, Mutlu, et al.
Publicado: (2008)

Accurate de novo peptide sequencing using fully convolutional neural networks
por: Liu, Kaiyuan, et al.
Publicado: (2023)

Controlling for false positive findings of trans-hubs in expression quantitative trait loci mapping
por: Peng, Jie, et al.
Publicado: (2007)

Gene-based multiple trait analysis for exome sequencing data
por: Zhao, Jingyuan, et al.
Publicado: (2011)

Clustering-based identification of clonally-related immunoglobulin gene sequence sets
por: Chen, Zhiliang, et al.
Publicado: (2010)

Discovery and characterization of medaka miRNA genes by next generation sequencing platform
por: Li, Sung-Chou, et al.
Publicado: (2010)

Transcriptome sequencing of transgenic poplar (Populus × euramericana 'Guariento') expressing multiple resistance genes
por: Zhang, Weixi, et al.
Publicado: (2014)

DoOPSearch: a web-based tool for finding and analysing common conserved motifs in the promoter regions of different chordate and plant genes
por: Sebestyén, Endre, et al.
Publicado: (2009)

A survey of DNA motif finding algorithms
por: Das, Modan K, et al.
Publicado: (2007)

Pathogen profiling of Australian rabbits by metatranscriptomic sequencing
por: Jenckel, Maria, et al.
Publicado: (2022)

Dynamic pathway analysis of genes associated with blood pressure using whole genome sequence data
por: Hu, Pingzhao, et al.
Publicado: (2014)

Identifying micro-inversions using high-throughput sequencing reads
por: He, Feifei, et al.
Publicado: (2016)

Improving multiple sequence alignment by using better guide trees
por: Zhan, Qing, et al.
Publicado: (2015)

Finding consistent disease subnetworks across microarray datasets
por: Soh, Donny, et al.
Publicado: (2011)

Preserving sequence annotations across reference sequences
por: Tatum, Zuotian, et al.
Publicado: (2014)

Palindromic sequence impedes sequencing-by-ligation mechanism
por: Huang, Yu-Feng, et al.
Publicado: (2012)

Identification of gene-gene interaction using principal components
por: Li, Jia, et al.
Publicado: (2009)

HabiSign: a novel approach for comparison of metagenomes and rapid identification of habitat-specific sequences
por: Ghosh, Tarini Shankar, et al.
Publicado: (2011)

Incorporating predicted functions of nonsynonymous variants into gene-based analysis of exome sequencing data: a comparative study
por: Wei, Peng, et al.
Publicado: (2011)

In vitro homology search array comprehensively reveals highly conserved genes and their functional characteristics in non-sequenced species
por: Ogura, Atsushi, et al.
Publicado: (2010)

The diagnostic application of RNA sequencing in patients with thyroid cancer: an analysis of 851 variants and 133 fusions in 524 genes
por: Pagan, Moraima, et al.
Publicado: (2016)

INDUS - a composition-based approach for rapid and accurate taxonomic classification of metagenomic sequences
por: Mohammed, Monzoorul Haque, et al.
Publicado: (2011)

Genetic Analysis Workshop 18 single-nucleotide variant prioritization based on protein impact, sequence conservation, and gene annotation
por: Nalpathamkalam, Thomas, et al.
Publicado: (2014)

RefNetBuilder: a platform for construction of integrated reference gene regulatory networks from expressed sequence tags
por: Li, Ying, et al.
Publicado: (2011)

A genome-wide cis-regulatory element discovery method based on promoter sequences and gene co-expression networks
por: Gao, Zhen, et al.
Publicado: (2013)

Cannot write session to /tmp/vufind_sessions/sess_e4kubadufomei2q7ouiu5nbdqf