Developing a 'personalome' for precision medicine: emerging methods that compute interpretable effect sizes from single-subject transcriptomes (Q47258988)

From Wikidata

Jump to navigation Jump to search

scientific article published on 18 December 2017

Language	Label	Description	Also known as
English	Developing a 'personalome' for precision medicine: emerging methods that compute interpretable effect sizes from single-subject transcriptomes	scientific article published on 18 December 2017

Statements

scholarly article

1 reference

Europe PubMed Central

PMC publication ID

1 July 2019

http://europepmc.org/abstract/PMC/6585155

3 references

Europe PubMed Central

14 November 2020

24 December 2020

Developing a 'personalome' for precision medicine: emerging methods that compute interpretable effect sizes from single-subject transcriptomes (English)

1 reference

Europe PubMed Central

PMC publication ID

1 July 2019

http://europepmc.org/abstract/PMC/6585155

precision medicine

1 reference

14 November 2020

1 reference

24 December 2020

Joanne Berghout

object named as

Joanne Berghout

4

0 references

Yves A. Lussier

object named as

Yves A Lussier

6

0 references

A. Grant Schissler

3

0 references

5

object named as

Colleen Kenost

1 reference

Europe PubMed Central

PMC publication ID

1 July 2019

http://europepmc.org/abstract/PMC/6585155

author name string

Francesca Vitali

1

1 reference

Europe PubMed Central

PMC publication ID

1 July 2019

http://europepmc.org/abstract/PMC/6585155

Qike Li

2

1 reference

Europe PubMed Central

PMC publication ID

1 July 2019

http://europepmc.org/abstract/PMC/6585155

publication date

1 May 2019

1 reference

Europe PubMed Central

PMC publication ID

1 July 2019

http://europepmc.org/abstract/PMC/6585155

21 May 2019

2 references

14 November 2020

24 December 2020

Briefings in Bioinformatics

3 references

Europe PubMed Central

PMC publication ID

1 July 2019

http://europepmc.org/abstract/PMC/6585155

14 November 2020

24 December 2020

20

1 reference

Europe PubMed Central

PMC publication ID

1 July 2019

http://europepmc.org/abstract/PMC/6585155

3

1 reference

Europe PubMed Central

PMC publication ID

1 July 2019

http://europepmc.org/abstract/PMC/6585155

789-805

1 reference

Europe PubMed Central

PMC publication ID

1 July 2019

http://europepmc.org/abstract/PMC/6585155

copyright license

Creative Commons Attribution 4.0 International

2 references

Europe PubMed Central

14 November 2020

Europe PubMed Central

24 December 2020

copyright status

0 references

describes a project that uses

object named as

DEseq

DESeq

1 reference

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

0 references

object named as

edgeR

1 reference

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

2013 ACC/AHA guideline on the treatment of blood cholesterol to reduce atherosclerotic cardiovascular risk in adults: a report of the American College of Cardiology/American Heart Association Task Force on Practice Guidelines

1 reference

https://api.crossref.org/works/10.1093/BIB/BBX149

21 January 2018

A new initiative on precision medicine

1 reference

https://api.crossref.org/works/10.1093/BIB/BBX149

21 January 2018

The n-of-1 randomized controlled trial: clinical usefulness. Our three-year experience

1 reference

https://api.crossref.org/works/10.1093/BIB/BBX149

21 January 2018

Personalized medicine: Time for one-person trials

1 reference

https://api.crossref.org/works/10.1093/BIB/BBX149

21 January 2018

Using N-of-1 trials to improve patient management and save costs

1 reference

https://api.crossref.org/works/10.1093/BIB/BBX149

21 January 2018

Comparison of the predictive accuracy of DNA array-based multigene classifiers across cDNA arrays and Affymetrix GeneChips

1 reference

https://api.crossref.org/works/10.1093/BIB/BBX149

21 January 2018

Pitfalls in the use of DNA microarray data for diagnostic and prognostic classification

1 reference

https://api.crossref.org/works/10.1093/BIB/BBX149

21 January 2018

Critical review of published microarray studies for cancer outcome and guidelines on statistical analysis and reporting

1 reference

https://api.crossref.org/works/10.1093/BIB/BBX149

21 January 2018

A survey of best practices for RNA-seq data analysis

1 reference

https://api.crossref.org/works/10.1093/BIB/BBX149

21 January 2018

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

1 reference

https://api.crossref.org/works/10.1093/BIB/BBX149

21 January 2018

Finding consistent patterns: A nonparametric approach for identifying differential expression in RNA-Seq data

1 reference

https://api.crossref.org/works/10.1093/BIB/BBX149

21 January 2018

Significance analysis of microarrays applied to the ionizing radiation response

1 reference

https://api.crossref.org/works/10.1093/BIB/BBX149

21 January 2018

Analysis of variance for gene expression microarray data

1 reference

https://api.crossref.org/works/10.1093/BIB/BBX149

21 January 2018

Moderated estimation of fold change and dispersion for RNA-seq data with DESeq2

1 reference

https://api.crossref.org/works/10.1093/BIB/BBX149

21 January 2018

edgeR: a Bioconductor package for differential expression analysis of digital gene expression data

1 reference

https://api.crossref.org/works/10.1093/BIB/BBX149

21 January 2018

KEGG: kyoto encyclopedia of genes and genomes

1 reference

https://api.crossref.org/works/10.1093/BIB/BBX149

21 January 2018

Gene ontology: tool for the unification of biology

1 reference

https://api.crossref.org/works/10.1093/BIB/BBX149

21 January 2018

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

1 reference

https://api.crossref.org/works/10.1093/BIB/BBX149

21 January 2018

Bioinformatics enrichment tools: paths toward the comprehensive functional analysis of large gene lists

1 reference

https://api.crossref.org/works/10.1093/BIB/BBX149

21 January 2018

Using GOstats to test gene lists for GO term association

1 reference

https://api.crossref.org/works/10.1093/BIB/BBX149

21 January 2018

Improved detection of overrepresentation of Gene-Ontology annotations with parent child analysis

1 reference

https://api.crossref.org/works/10.1093/BIB/BBX149

21 January 2018

GO-Module: functional synthesis and improved interpretation of Gene Ontology patterns

1 reference

https://api.crossref.org/works/10.1093/BIB/BBX149

21 January 2018

Reactome pathway analysis: a high-performance in-memory approach

1 reference

https://api.crossref.org/works/10.1093/BIB/BBX149

21 January 2018

Pathway Commons, a web resource for biological pathway data

1 reference

https://api.crossref.org/works/10.1093/BIB/BBX149

21 January 2018

Redundancy control in pathway databases (ReCiPa): an application for improving gene-set enrichment analysis in Omics studies and "Big data" biology.

1 reference

https://api.crossref.org/works/10.1093/BIB/BBX149

21 January 2018

Development of the 21-gene assay and its application in clinical practice and clinical trials

1 reference

https://api.crossref.org/works/10.1093/BIB/BBX149

21 January 2018

Supervised risk predictor of breast cancer based on intrinsic subtypes

1 reference

https://api.crossref.org/works/10.1093/BIB/BBX149

21 January 2018

Cluster analysis for gene expression data: a survey

1 reference

https://api.crossref.org/works/10.1093/BIB/BBX149

21 January 2018

Integrated genomic analyses of ovarian carcinoma

1 reference

https://api.crossref.org/works/10.1093/BIB/BBX149

21 January 2018

Clinical Outcome Prediction by MicroRNAs in Human Cancer: A Systematic Review

1 reference

https://api.crossref.org/works/10.1093/BIB/BBX149

21 January 2018

Individual-level analysis of differential expression of genes and pathways for personalized medicine.

1 reference

https://api.crossref.org/works/10.1093/BIB/BBX149

21 January 2018

DEGseq: an R package for identifying differentially expressed genes from RNA-seq data

1 reference

https://api.crossref.org/works/10.1093/BIB/BBX149

21 January 2018

GFOLD: a generalized fold change for ranking differentially expressed genes from RNA-seq data

1 reference

https://api.crossref.org/works/10.1093/BIB/BBX149

21 January 2018

Differential expression analysis for sequence count data

1 reference

https://api.crossref.org/works/10.1093/BIB/BBX149

21 January 2018

More powerful significant testing for time course gene expression data using functional principal component analysis approaches

1 reference

https://api.crossref.org/works/10.1093/BIB/BBX149

21 January 2018

Individualized identification of disease-associated pathways with disrupted coordination of gene expression

1 reference

https://api.crossref.org/works/10.1093/BIB/BBX149

21 January 2018

Personalized identification of altered pathways in cancer using accumulated normal tissue data.

1 reference

https://api.crossref.org/works/10.1093/BIB/BBX149

21 January 2018

Pathway-based personalized analysis of cancer

1 reference

https://api.crossref.org/works/10.1093/BIB/BBX149

21 January 2018

Single sample expression-anchored mechanisms predict survival in head and neck cancer

1 reference

https://api.crossref.org/works/10.1093/BIB/BBX149

21 January 2018

Systematic RNA interference reveals that oncogenic KRAS-driven cancers require TBK1

1 reference

https://api.crossref.org/works/10.1093/BIB/BBX149

21 January 2018

'N-of-1-pathways' unveils personal deregulated mechanisms from a single pair of RNA-Seq samples: towards precision medicine

1 reference

https://api.crossref.org/works/10.1093/BIB/BBX149

21 January 2018

Dynamic changes of RNA-sequencing expression for precision medicine: N-of-1-pathways Mahalanobis distance within pathways of single subjects predicts breast cancer survival

1 reference

https://api.crossref.org/works/10.1093/BIB/BBX149

21 January 2018

kMEn: Analyzing noisy and bidirectional transcriptional pathway responses in single subjects

1 reference

https://api.crossref.org/works/10.1093/BIB/BBX149

21 January 2018

N-of-1-pathways MixEnrich: advancing precision medicine via single-subject analysis in discovering dynamic changes of transcriptomes

1 reference

https://api.crossref.org/works/10.1093/BIB/BBX149

21 January 2018

timeClip: pathway analysis for time course data without replicates

1 reference

https://api.crossref.org/works/10.1093/BIB/BBX149

21 January 2018

A Network-Based Data Integration Approach to Support Drug Repurposing and Multi-Target Therapies in Triple Negative Breast Cancer

1 reference

https://api.crossref.org/works/10.1093/BIB/BBX149

21 January 2018

Sequencing technology does not eliminate biological variability

1 reference

https://api.crossref.org/works/10.1093/BIB/BBX149

21 January 2018

Identification of differentially expressed miRNAs in individual breast cancer patient and application in personalized medicine

1 reference

https://api.crossref.org/works/10.1093/BIB/BBX149

21 January 2018

KEGG: new perspectives on genomes, pathways, diseases and drugs

1 reference

https://api.crossref.org/works/10.1093/BIB/BBX149

21 January 2018

Lost in translation: problems and pitfalls in translating laboratory observations to clinical utility

1 reference

https://api.crossref.org/works/10.1093/BIB/BBX149

21 January 2018

Common dysregulation network in the human prefrontal cortex underlies two neurodegenerative diseases

1 reference

https://api.crossref.org/works/10.1093/BIB/BBX149

21 January 2018

Pathway-based personalized analysis of breast cancer expression data

1 reference

https://api.crossref.org/works/10.1093/BIB/BBX149

21 January 2018

Personalised pathway analysis reveals association between DNA repair pathway dysregulation and chromosomal instability in sporadic breast cancer.

1 reference

https://api.crossref.org/works/10.1093/BIB/BBX149

21 January 2018

Analyzing gene expression data in terms of gene sets: methodological issues

1 reference

https://api.crossref.org/works/10.1093/BIB/BBX149

21 January 2018

Using hidden Markov models to analyze gene expression time course data

1 reference

https://api.crossref.org/works/10.1093/BIB/BBX149

21 January 2018

Detecting time periods of differential gene expression using Gaussian processes: an application to endothelial cells exposed to radiotherapy dose fraction

1 reference

https://api.crossref.org/works/10.1093/BIB/BBX149

21 January 2018

On gene ranking using replicated microarray time course data

1 reference

https://api.crossref.org/works/10.1093/BIB/BBX149

21 January 2018

Dynamics in Transcriptomics: Advancements in RNA-seq Time Course and Downstream Analysis

1 reference

https://api.crossref.org/works/10.1093/BIB/BBX149

21 January 2018

Studying and modelling dynamic biological processes using time-series gene expression data

1 reference

https://api.crossref.org/works/10.1093/BIB/BBX149

21 January 2018

Personal omics profiling reveals dynamic molecular and medical phenotypes

1 reference

https://api.crossref.org/works/10.1093/BIB/BBX149

21 January 2018

Inference of patient-specific pathway activities from multi-dimensional cancer genomics data using PARADIGM.

1 reference

https://api.crossref.org/works/10.1093/BIB/BBX149

21 January 2018

Integrative clustering of multiple genomic data types using a joint latent variable model with application to breast and lung cancer subtype analysis

1 reference

https://api.crossref.org/works/10.1093/BIB/BBX149

21 January 2018

Bayesian joint analysis of heterogeneous genomics data

1 reference

https://api.crossref.org/works/10.1093/BIB/BBX149

21 January 2018

JOINT AND INDIVIDUAL VARIATION EXPLAINED (JIVE) FOR INTEGRATED ANALYSIS OF MULTIPLE DATA TYPES.

1 reference

https://api.crossref.org/works/10.1093/BIB/BBX149

21 January 2018

Drug repositioning: a machine-learning approach through data integration

1 reference

https://api.crossref.org/works/10.1093/BIB/BBX149

21 January 2018

PID: the Pathway Interaction Database

1 reference

https://api.crossref.org/works/10.1093/BIB/BBX149

21 January 2018

OMIM.org: Online Mendelian Inheritance in Man (OMIM®), an online catalog of human genes and genetic disorders

1 reference

https://api.crossref.org/works/10.1093/BIB/BBX149

21 January 2018

A genome-by-environment interaction classifier for precision medicine: personal transcriptome response to rhinovirus identifies children prone to asthma exacerbations

1 reference

https://api.crossref.org/works/10.1093/BIB/BBX149

21 January 2018

Protein interaction network underpins concordant prognosis among heterogeneous breast cancer signatures

1 reference

https://api.crossref.org/works/10.1093/BIB/BBX149

21 January 2018

Protein-network modeling of prostate cancer gene signatures reveals essential pathways in disease recurrence.

1 reference

https://api.crossref.org/works/10.1093/BIB/BBX149

21 January 2018

Curation-free biomodules mechanisms in prostate cancer predict recurrent disease

1 reference

https://api.crossref.org/works/10.1093/BIB/BBX149

21 January 2018

Human genomics projects and precision medicine

1 reference

https://api.crossref.org/works/10.1093/BIB/BBX149

21 January 2018

Sorting out breast-cancer gene signatures

1 reference

https://pubmed.ncbi.nlm.nih.gov/29272327

12 December 2020

based on heuristic

inferred from PubMed ID database lookup

Systematic and integrative analysis of large gene lists using DAVID bioinformatics resources

1 reference

https://pubmed.ncbi.nlm.nih.gov/29272327

12 December 2020

based on heuristic

inferred from PubMed ID database lookup

PREDICT: a method for inferring novel drug indications with application to personalized medicine

1 reference

https://pubmed.ncbi.nlm.nih.gov/29272327

12 December 2020

based on heuristic

inferred from PubMed ID database lookup

Differential analysis of gene regulation at transcript resolution with RNA-seq

1 reference

https://pubmed.ncbi.nlm.nih.gov/29272327

12 December 2020

based on heuristic

inferred from PubMed ID database lookup

Interpreting personal transcriptomes: personalized mechanism-scale profiling of RNA-seq data

1 reference

https://pubmed.ncbi.nlm.nih.gov/29272327

12 December 2020

based on heuristic

inferred from PubMed ID database lookup

Identifying critical transitions of complex diseases based on a single sample

1 reference

https://pubmed.ncbi.nlm.nih.gov/29272327

12 December 2020

based on heuristic

inferred from PubMed ID database lookup

Classification of breast cancer subtypes by combining gene expression and DNA methylation data.

1 reference

https://pubmed.ncbi.nlm.nih.gov/29272327

12 December 2020

based on heuristic

inferred from PubMed ID database lookup

Classification of Breast Cancer Subtypes by combining Gene Expression and DNA Methylation Data

1 reference

https://pubmed.ncbi.nlm.nih.gov/29272327

12 December 2020

based on heuristic

inferred from PubMed ID database lookup

Data quality aware analysis of differential expression in RNA-seq with NOISeq R/Bioc package

1 reference

https://pubmed.ncbi.nlm.nih.gov/29272327

12 December 2020

based on heuristic

inferred from PubMed ID database lookup

Longitudinal omics modeling and integration in clinical metabonomics research: challenges in childhood metabolic health research

1 reference

https://pubmed.ncbi.nlm.nih.gov/29272327

12 December 2020

based on heuristic

inferred from PubMed ID database lookup

PATIENT-SPECIFIC DATA FUSION FOR CANCER STRATIFICATION AND PERSONALISED TREATMENT.

1 reference

https://pubmed.ncbi.nlm.nih.gov/29272327

12 December 2020

based on heuristic

inferred from PubMed ID database lookup

TimesVector: a vectorized clustering approach to the analysis of time series transcriptome data from multiple phenotypes.

1 reference

https://pubmed.ncbi.nlm.nih.gov/29272327

12 December 2020

based on heuristic

inferred from PubMed ID database lookup

Testing for differentially expressed genetic pathways with single-subject N-of-1 data in the presence of inter-gene correlation.

1 reference

https://pubmed.ncbi.nlm.nih.gov/29272327

12 December 2020

based on heuristic

inferred from PubMed ID database lookup

Identifiers

10.1093/BIB/BBX149

1 reference

Europe PubMed Central

PMC publication ID

1 July 2019

http://europepmc.org/abstract/PMC/6585155

DBLP publication ID

journals/bib/VitaliLSBKL19

1 reference

DBLP Dataset 2021-01-02

28 January 2021

PMC publication ID

1 reference

Europe PubMed Central

PMC publication ID

1 July 2019

http://europepmc.org/abstract/PMC/6585155

PubMed publication ID

1 reference

Europe PubMed Central

PMC publication ID

1 July 2019

http://europepmc.org/abstract/PMC/6585155

Sitelinks

Wikipedia(0 entries)

Wikibooks(0 entries)

Wikinews(0 entries)

Wikiquote(0 entries)

Wikisource(0 entries)

Wikiversity(0 entries)

Wikivoyage(0 entries)

Wiktionary(0 entries)

Multilingual sites(0 entries)

Retrieved from "https://www.wikidata.org/w/index.php?title=Q47258988&oldid=2148297931"