Cargando…

PAIPline: pathogen identification in metagenomic and clinical next generation sequencing samples

MOTIVATION: Next generation sequencing (NGS) has provided researchers with a powerful tool to characterize metagenomic and clinical samples in research and diagnostic settings. NGS allows an open view into samples useful for pathogen detection in an unbiased fashion and without prior hypothesis abou...

Descripción completa

Detalles Bibliográficos
Autores principales:	Andrusch, Andreas, Dabrowski, Piotr W, Klenner, Jeanette, Tausch, Simon H, Kohl, Claudia, Osman, Abdalla A, Renard, Bernhard Y, Nitsche, Andreas
Formato:	Online Artículo Texto
Lenguaje:	English
Publicado:	Oxford University Press 2018
Materias:	Eccb 2018: European Conference on Computational Biology Proceedings
Acceso en línea:	https://www.ncbi.nlm.nih.gov/pmc/articles/PMC6129269/ https://www.ncbi.nlm.nih.gov/pubmed/30423069 http://dx.doi.org/10.1093/bioinformatics/bty595

Ejemplares similares

PathoLive—Real-Time Pathogen Identification from Metagenomic Illumina Datasets
por: Tausch, Simon H., et al.
Publicado: (2022)

Semantic Disease Gene Embeddings (SmuDGE): phenotype-based disease gene prioritization without phenotypes
por: Alshahrani, Mona, et al.
Publicado: (2018)

Off-target predictions in CRISPR-Cas9 gene editing using deep learning
por: Lin, Jiecong, et al.
Publicado: (2018)

CisPi: a transcriptomic score for disclosing cis-acting disease-associated lincRNAs
por: Wang, Zhezhen, et al.
Publicado: (2018)

Fast characterization of segmental duplications in genome assemblies
por: Numanagić, Ibrahim, et al.
Publicado: (2018)

Learning structural motif representations for efficient protein structure search
por: Liu, Yang, et al.
Publicado: (2018)

MDPbiome: microbiome engineering through prescriptive perturbations
por: García-Jiménez, Beatriz, et al.
Publicado: (2018)

Hierarchical HotNet: identifying hierarchies of altered subnetworks
por: Reyna, Matthew A, et al.
Publicado: (2018)

Discovering epistatic feature interactions from neural network models of regulatory DNA sequences
por: Greenside, Peyton, et al.
Publicado: (2018)

CNEFinder: finding conserved non-coding elements in genomes
por: Ayad, Lorraine A K, et al.
Publicado: (2018)

Prioritising candidate genes causing QTL using hierarchical orthologous groups
por: Warwick Vesztrocy, Alex, et al.
Publicado: (2018)

Understanding the evolution of functional redundancy in metabolic networks
por: Sambamoorthy, Gayathri, et al.
Publicado: (2018)

Comparative Network Reconstruction using mixed integer programming
por: Bosdriesz, Evert, et al.
Publicado: (2018)

iCFN: an efficient exact algorithm for multistate protein design
por: Karimi, Mostafa, et al.
Publicado: (2018)

Ontology-based validation and identification of regulatory phenotypes
por: Kulmanov, Maxat, et al.
Publicado: (2018)

fastp: an ultra-fast all-in-one FASTQ preprocessor
por: Chen, Shifu, et al.
Publicado: (2018)

Branch-recombinant Gaussian processes for analysis of perturbations in biological time series
por: Penfold, Christopher A, et al.
Publicado: (2018)

An ontology-based method for assessing batch effect adjustment approaches in heterogeneous datasets
por: Schmidt, Florian, et al.
Publicado: (2018)

Bayesian inference on stochastic gene transcription from flow cytometry data
por: Tiberi, Simone, et al.
Publicado: (2018)

A fast adaptive algorithm for computing whole-genome homology maps
por: Jain, Chirag, et al.
Publicado: (2018)

Scalable and exhaustive screening of metabolic functions carried out by microbial consortia
por: Frioux, Clémence, et al.
Publicado: (2018)

Single cell network analysis with a mixture of Nested Effects Models
por: Pirkl, Martin, et al.
Publicado: (2018)

IRSOM, a reliable identifier of ncRNAs based on supervised self-organizing maps with rejection
por: Platon, Ludovic, et al.
Publicado: (2018)

FLYCOP: metabolic modeling-based analysis and engineering microbial communities
por: García-Jiménez, Beatriz, et al.
Publicado: (2018)

DeepDTA: deep drug–target binding affinity prediction
por: Öztürk, Hakime, et al.
Publicado: (2018)

iTOP: inferring the topology of omics data
por: Aben, Nanne, et al.
Publicado: (2018)

Approximate, simultaneous comparison of microbial genome architectures via syntenic anchoring of quiver representations
por: Salazar, Alex N, et al.
Publicado: (2018)

Accurate and adaptive imputation of summary statistics in mixed-ethnicity cohorts
por: Togninalli, Matteo, et al.
Publicado: (2018)

SPhyR: tumor phylogeny estimation from single-cell sequencing data under loss and error
por: El-Kebir, Mohammed
Publicado: (2018)

RAMBO-K: Rapid and Sensitive Removal of Background Sequences from Next Generation Sequencing Data
por: Tausch, Simon H., et al.
Publicado: (2015)

Resilience Factors Preventing Schizophrenia in Ultra-high Risk Patients: Lessons from Genetics
por: Chaumette, B., et al.
Publicado: (2022)

Resilience and Wellbeing in Mental Health Workforce: Why it Matters and How to Develop it
por: Steinebach, C.
Publicado: (2022)

Protocol for Metagenomic Virus Detection in Clinical Specimens
por: Kohl, Claudia, et al.
Publicado: (2015)

Pipasic: similarity and expression correction for strain-level identification and quantification in metaproteomics
por: Penzlin, Anke, et al.
Publicado: (2014)

Abundance estimation and differential testing on strain level in metagenomics data
por: Fischer, Martina, et al.
Publicado: (2017)

L(1) regularization facilitates detection of cell type-specific parameters in dynamical systems
por: Steiert, Bernhard, et al.
Publicado: (2016)

Identifying progressive imaging genetic patterns via multi-task sparse canonical correlation analysis: a longitudinal study of the ADNI cohort
por: Du, Lei, et al.
Publicado: (2019)

Inheritance and variability of kinetic gene expression parameters in microbial cells: modeling and inference from lineage tree data
por: Marguet, Aline, et al.
Publicado: (2019)

Identifying and ranking potential driver genes of Alzheimer’s disease using multiview evidence aggregation
por: Mukherjee, Sumit, et al.
Publicado: (2019)

Author Index
Publicado: (2019)

Cannot write session to /tmp/vufind_sessions/sess_h3buvpbj6ssq6rj5kegpjeuemi