(Q31141362)

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ADAGE-Based Integration of Publicly Available Pseudomonas aeruginosa Gene Expression Data with Denoising Autoencoders Illuminates Microbe-Host Interactions

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scholarly article

1 reference

Europe PubMed Central

1 October 2017

ADAGE-Based Integration of Publicly Available Pseudomonas aeruginosa Gene Expression Data with Denoising Autoencoders Illuminates Microbe-Host Interactions (English)

1 reference

Europe PubMed Central

1 October 2017

Pseudomonas aeruginosa

0 references

denoising autoencoder

0 references

Casey S. Greene

4

1 reference

Europe PubMed Central

1 October 2017

author name string

Jie Tan

1

1 reference

Europe PubMed Central

1 October 2017

John H Hammond

2

1 reference

Europe PubMed Central

1 October 2017

Deborah A Hogan

3

1 reference

Europe PubMed Central

1 October 2017

publication date

19 January 2016

1 reference

Europe PubMed Central

1 October 2017

1 reference

Europe PubMed Central

1 October 2017

1

1 reference

Europe PubMed Central

1 October 2017

1

1 reference

Europe PubMed Central

1 October 2017

describes a project that uses

object named as

limma R package

1 reference

CZ Software Mentions: A large dataset of software mentions in the biomedical literature

Cross-platform normalization of microarray and RNA-seq data for machine learning applications

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5069748

21 June 2018

Links between Anr and Quorum Sensing in Pseudomonas aeruginosa Biofilms

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5069748

21 June 2018

1 reference

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21 June 2018

Understanding multicellular function and disease with human tissue-specific networks

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5069748

21 June 2018

limma powers differential expression analyses for RNA-sequencing and microarray studies

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5069748

21 June 2018

Unsupervised feature construction and knowledge extraction from genome-wide assays of breast cancer with denoising autoencoders

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5069748

21 June 2018

Ten years of next-generation sequencing technology

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21 June 2018

Genomic data integration for ecological and evolutionary traits in non-model organisms

1 reference

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21 June 2018

Extracting data from the muck: deriving biological insight from complex microbial communities and non-model organisms with next generation sequencing.

1 reference

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21 June 2018

Essential O2-responsive genes of Pseudomonas aeruginosa and their network revealed by integrating dynamic data from inverted conditions

1 reference

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21 June 2018

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1 reference

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21 June 2018

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1 reference

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21 June 2018

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21 June 2018

Anr and its activation by PlcH activity in Pseudomonas aeruginosa host colonization and virulence

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21 June 2018

Functional knowledge transfer for high-accuracy prediction of under-studied biological processes

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5069748

21 June 2018

Transcriptional insights into the CD8(+) T cell response to infection and memory T cell formation

1 reference

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21 June 2018

ArrayExpress update--trends in database growth and links to data analysis tools

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21 June 2018

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21 June 2018

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21 June 2018

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21 June 2018

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21 June 2018

Applications of next generation sequencing in molecular ecology of non-model organisms

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21 June 2018

Pseudomonas Genome Database: improved comparative analysis and population genomics capability for Pseudomonas genomes

1 reference

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21 June 2018

Optimization of de novo transcriptome assembly from next-generation sequencing data

1 reference

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21 June 2018

Independent component analysis: mining microarray data for fundamental human gene expression modules

1 reference

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21 June 2018

The GeneMANIA prediction server: biological network integration for gene prioritization and predicting gene function

1 reference

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21 June 2018

Anaerobic adaptation in Pseudomonas aeruginosa: definition of the Anr and Dnr regulons

1 reference

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21 June 2018

Lipopolysaccharide as shield and receptor for R-pyocin-mediated killing in Pseudomonas aeruginosa

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5069748

21 June 2018

TreeGraph 2: Combining and visualizing evidence from different phylogenetic analyses

1 reference

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21 June 2018

The Pseudomonas aeruginosa magnesium transporter MgtE inhibits transcription of the type III secretion system

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5069748

21 June 2018

Atlas of gene expression in the developing kidney at microanatomic resolution

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21 June 2018

Next-generation DNA sequencing

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The Pseudomonas aeruginosa PsrA responds to long-chain fatty acid signals to regulate the fadBA5 beta-oxidation operon

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21 June 2018

The DeltaF508-CFTR mutation results in increased biofilm formation by Pseudomonas aeruginosa by increasing iron availability.

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5069748

21 June 2018

Rapid transcriptome characterization for a nonmodel organism using 454 pyrosequencing.

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5069748

21 June 2018

In vitro analysis of tobramycin-treated Pseudomonas aeruginosa biofilms on cystic fibrosis-derived airway epithelial cells

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5069748

21 June 2018

Next-generation sequencing transforms today's biology

1 reference

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21 June 2018

In vivo evidence of Pseudomonas aeruginosa nutrient acquisition and pathogenesis in the lungs of cystic fibrosis patients

1 reference

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21 June 2018

Elucidating the altered transcriptional programs in breast cancer using independent component analysis

1 reference

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21 June 2018

Transcriptomic analysis of the sulfate starvation response of Pseudomonas aeruginosa.

1 reference

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21 June 2018

Characterization of the integrated filamentous phage Pf5 and its involvement in small-colony formation

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21 June 2018

Genomic analysis reveals that Pseudomonas aeruginosa virulence is combinatorial

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https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5069748

21 June 2018

Integrated biclustering of heterogeneous genome-wide datasets for the inference of global regulatory networks

1 reference

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21 June 2018

Gene set enrichment analysis: a knowledge-based approach for interpreting genome-wide expression profiles

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5069748

21 June 2018

affy--analysis of Affymetrix GeneChip data at the probe level

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21 June 2018

The Gene Ontology (GO) database and informatics resource

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21 June 2018

Application of independent component analysis to microarrays

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21 June 2018

Interactive exploration of microarray gene expression patterns in a reduced dimensional space

1 reference

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21 June 2018

Effects of reduced mucus oxygen concentration in airway Pseudomonas infections of cystic fibrosis patients

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21 June 2018

Computational analysis of microarray data

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21 June 2018

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21 June 2018

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Gene expression analysis identifies global gene dosage sensitivity in cancer.

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25 November 2018

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1 reference

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25 November 2018

Identifiers

10.1128/MSYSTEMS.00025-15

0 references

1 reference

Europe PubMed Central

1 October 2017

1 reference

Europe PubMed Central

1 October 2017

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