RNA sequencing identifies novel non-coding RNA and exon-specific effects associated with cigarette smoking. (Q42778047)

PubMed publication ID

28985737

7 November 2017

title

RNA sequencing identifies novel non-coding RNA and exon-specific effects associated with cigarette smoking (English)

1 reference

https://www.ebi.ac.uk/europepmc/webservices/rest/search?query=PMCID:PMC6225866&resulttype=core&format=json

12 May 2020

0 references

0 references

1 reference

https://www.ebi.ac.uk/europepmc/webservices/rest/search?query=PMCID:PMC6225866&resulttype=core&format=json

12 May 2020

1 reference

https://www.ebi.ac.uk/europepmc/webservices/rest/search?query=PMCID:PMC6225866&resulttype=core&format=json

12 May 2020

Margaret M Parker

1 reference

https://www.ebi.ac.uk/europepmc/webservices/rest/search?query=PMCID:PMC6225866&resulttype=core&format=json

12 May 2020

Robert P Chase

1 reference

https://www.ebi.ac.uk/europepmc/webservices/rest/search?query=PMCID:PMC6225866&resulttype=core&format=json

12 May 2020

Andrew Lamb

1 reference

https://www.ebi.ac.uk/europepmc/webservices/rest/search?query=PMCID:PMC6225866&resulttype=core&format=json

12 May 2020

Aabida Saferali

1 reference

https://www.ebi.ac.uk/europepmc/webservices/rest/search?query=PMCID:PMC6225866&resulttype=core&format=json

12 May 2020

Blanca E Himes

1 reference

https://www.ebi.ac.uk/europepmc/webservices/rest/search?query=PMCID:PMC6225866&resulttype=core&format=json

12 May 2020

Edwin K Silverman

1 reference

https://www.ebi.ac.uk/europepmc/webservices/rest/search?query=PMCID:PMC6225866&resulttype=core&format=json

12 May 2020

Craig P Hersh

1 reference

https://www.ebi.ac.uk/europepmc/webservices/rest/search?query=PMCID:PMC6225866&resulttype=core&format=json

12 May 2020

Peter J Castaldi

1 reference

https://www.ebi.ac.uk/europepmc/webservices/rest/search?query=PMCID:PMC6225866&resulttype=core&format=json

12 May 2020

publication date

6 October 2017

1 reference

PubMed publication ID

7 November 2017

1 reference

https://www.ebi.ac.uk/europepmc/webservices/rest/search?query=PMCID:PMC6225866&resulttype=core&format=json

12 May 2020

volume

1 reference

https://www.ebi.ac.uk/europepmc/webservices/rest/search?query=PMCID:PMC6225866&resulttype=core&format=json

12 May 2020

issue

1 reference

https://www.ebi.ac.uk/europepmc/webservices/rest/search?query=PMCID:PMC6225866&resulttype=core&format=json

12 May 2020

page(s)

1 reference

https://www.ebi.ac.uk/europepmc/webservices/rest/search?query=PMCID:PMC6225866&resulttype=core&format=json

describes a project that uses

12 May 2020

limma

object named as

limma R package

limma

2 references

22 June 2022

https://europepmc.org/article/PMC/6225866

inferred from PubMed Central ID database lookup

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

cites work

Current cigarette smoking among adults - United States, 2005-2014.

1 reference

https://api.crossref.org/works/10.1186%2FS12920-017-0295-9

A whole-blood transcriptome meta-analysis identifies gene expression signatures of cigarette smoking

21 January 2018

1 reference

https://api.crossref.org/works/10.1186%2FS12920-017-0295-9

Differential gene expression patterns between smokers and non-smokers: cause or consequence?

21 January 2018

1 reference

https://api.crossref.org/works/10.1186%2FS12920-017-0295-9

A whole blood gene expression-based signature for smoking status.

21 January 2018

1 reference

https://api.crossref.org/works/10.1186%2FS12920-017-0295-9

Differential Effect of Active Smoking on Gene Expression in Male and Female Smokers

21 January 2018

1 reference

https://api.crossref.org/works/10.1186%2FS12920-017-0295-9

Transcriptomic epidemiology of smoking: the effect of smoking on gene expression in lymphocytes

21 January 2018

1 reference

https://api.crossref.org/works/10.1186%2FS12920-017-0295-9

Genetics and beyond--the transcriptome of human monocytes and disease susceptibility

21 January 2018

1 reference

https://api.crossref.org/works/10.1186%2FS12920-017-0295-9

Effects of cigarette smoke on the human airway epithelial cell transcriptome

21 January 2018

1 reference

https://api.crossref.org/works/10.1186%2FS12920-017-0295-9

Reversible and permanent effects of tobacco smoke exposure on airway epithelial gene expression

21 January 2018

1 reference

https://api.crossref.org/works/10.1186%2FS12920-017-0295-9

Gene expression profiling of human alveolar macrophages of phenotypically normal smokers and nonsmokers reveals a previously unrecognized subset of genes modulated by cigarette smoking.

21 January 2018

1 reference

https://api.crossref.org/works/10.1186%2FS12920-017-0295-9

Gene expression signature of cigarette smoking and its role in lung adenocarcinoma development and survival

21 January 2018

1 reference

https://api.crossref.org/works/10.1186%2FS12920-017-0295-9

Relation between smoking history and gene expression profiles in lung adenocarcinomas

21 January 2018

1 reference

https://api.crossref.org/works/10.1186%2FS12920-017-0295-9

Current smoking-specific gene expression signature in normal bronchial epithelium is enhanced in squamous cell lung cancer

21 January 2018

1 reference

https://api.crossref.org/works/10.1186%2FS12920-017-0295-9

Global Strategy for the Diagnosis, Management, and Prevention of Chronic Obstructive Lung Disease 2017 Report. GOLD Executive Summary

21 January 2018

1 reference

https://api.crossref.org/works/10.1186%2FS12920-017-0295-9

Skewer: a fast and accurate adapter trimmer for next-generation sequencing paired-end reads

21 January 2018

1 reference

https://api.crossref.org/works/10.1186%2FS12920-017-0295-9

STAR: ultrafast universal RNA-seq aligner

21 January 2018

1 reference

https://api.crossref.org/works/10.1186%2FS12920-017-0295-9

The Subread aligner: fast, accurate and scalable read mapping by seed-and-vote

21 January 2018

1 reference

https://api.crossref.org/works/10.1186%2FS12920-017-0295-9

Ensembl Genomes 2016: more genomes, more complexity

21 January 2018

1 reference

https://api.crossref.org/works/10.1186%2FS12920-017-0295-9

RNA-SeQC: RNA-seq metrics for quality control and process optimization

21 January 2018

1 reference

https://api.crossref.org/works/10.1186%2FS12920-017-0295-9

Gene Expression Omnibus: NCBI gene expression and hybridization array data repository

21 January 2018

1 reference

https://api.crossref.org/works/10.1186%2FS12920-017-0295-9

NCBI GEO: archive for functional genomics data sets--update

21 January 2018

1 reference

https://api.crossref.org/works/10.1186%2FS12920-017-0295-9

svaseq: removing batch effects and other unwanted noise from sequencing data

21 January 2018

1 reference

https://api.crossref.org/works/10.1186%2FS12920-017-0295-9

voom: Precision weights unlock linear model analysis tools for RNA-seq read counts

21 January 2018

1 reference

https://api.crossref.org/works/10.1186%2FS12920-017-0295-9

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

21 January 2018

1 reference

https://api.crossref.org/works/10.1186%2FS12920-017-0295-9

Gene ontology: tool for the unification of biology

21 January 2018

1 reference

https://api.crossref.org/works/10.1186%2FS12920-017-0295-9

Gene Ontology Consortium: going forward

21 January 2018

1 reference

https://api.crossref.org/works/10.1186%2FS12920-017-0295-9

PANTHER version 11: expanded annotation data from Gene Ontology and Reactome pathways, and data analysis tool enhancements

21 January 2018

1 reference

https://api.crossref.org/works/10.1186%2FS12920-017-0295-9

Detecting differential usage of exons from RNA-seq data

21 January 2018

1 reference

https://api.crossref.org/works/10.1186%2FS12920-017-0295-9

Dynamics of smoking-induced genome-wide methylation changes with time since smoking cessation

21 January 2018

1 reference

https://api.crossref.org/works/10.1186%2FS12920-017-0295-9

Cigarette smoking behaviors and time since quitting are associated with differential DNA methylation across the human genome

21 January 2018

1 reference

https://api.crossref.org/works/10.1186%2FS12920-017-0295-9

Smoking-Associated Site-Specific Differential Methylation in Buccal Mucosa in the COPDGene Study

21 January 2018

1 reference

https://api.crossref.org/works/10.1186%2FS12920-017-0295-9

Tobacco smoking leads to extensive genome-wide changes in DNA methylation

21 January 2018

1 reference

https://api.crossref.org/works/10.1186%2FS12920-017-0295-9

Cigarette smoking reduces DNA methylation levels at multiple genomic loci but the effect is partially reversible upon cessation

21 January 2018

1 reference

https://api.crossref.org/works/10.1186%2FS12920-017-0295-9

lincRNAs: genomics, evolution, and mechanisms

21 January 2018

1 reference

https://api.crossref.org/works/10.1186%2FS12920-017-0295-9

Non-coding yet non-trivial: a review on the computational genomics of lincRNAs

21 January 2018

1 reference

https://api.crossref.org/works/10.1186%2FS12920-017-0295-9

An atlas of human long non-coding RNAs with accurate 5' ends.

21 January 2018

1 reference

https://api.crossref.org/works/10.1186%2FS12920-017-0295-9

lincRNA HOTAIR as a novel promoter of cancer progression.

21 January 2018

1 reference

https://api.crossref.org/works/10.1186%2FS12920-017-0295-9

Many human large intergenic noncoding RNAs associate with chromatin-modifying complexes and affect gene expression

21 January 2018

1 reference

https://api.crossref.org/works/10.1186%2FS12920-017-0295-9

Long noncoding RNAs: functional surprises from the RNA world

21 January 2018

1 reference

https://api.crossref.org/works/10.1186%2FS12920-017-0295-9

Linc2GO: a human LincRNA function annotation resource based on ceRNA hypothesis

21 January 2018

1 reference

https://api.crossref.org/works/10.1186%2FS12920-017-0295-9

Role of long non-coding RNA-RNCR3 in atherosclerosis-related vascular dysfunction

21 January 2018

1 reference

https://api.crossref.org/works/10.1186%2FS12920-017-0295-9

starBase v2.0: decoding miRNA-ceRNA, miRNA-ncRNA and protein-RNA interaction networks from large-scale CLIP-Seq data

21 January 2018

1 reference

https://api.crossref.org/works/10.1186%2FS12920-017-0295-9

Predicting effective microRNA target sites in mammalian mRNAs

21 January 2018

1 reference

https://api.crossref.org/works/10.1186%2FS12920-017-0295-9

First exon length controls active chromatin signatures and transcription

21 January 2018

1 reference

https://api.crossref.org/works/10.1186%2FS12920-017-0295-9

Getting up to speed with transcription elongation by RNA polymerase II

21 January 2018

1 reference

https://api.crossref.org/works/10.1186%2FS12920-017-0295-9

RSEM: accurate transcript quantification from RNA-Seq data with or without a reference genome

21 January 2018

1 reference

https://api.crossref.org/works/10.1186%2FS12920-017-0295-9

Near-optimal probabilistic RNA-seq quantification

21 January 2018

1 reference

https://api.crossref.org/works/10.1186%2FS12920-017-0295-9

Salmon provides fast and bias-aware quantification of transcript expression

21 January 2018

1 reference

https://api.crossref.org/works/10.1186%2FS12920-017-0295-9

A benchmark for RNA-seq quantification pipelines

21 January 2018

1 reference

https://api.crossref.org/works/10.1186%2FS12920-017-0295-9

Transcript Isoform Differences Across Human Tissues Are Predominantly Driven By Alternative Start And Termination Sites Of Transcription

21 January 2018

1 reference

https://api.crossref.org/works/10.1186%2FS12920-017-0295-9

Health benefits of smoking cessation

21 January 2018

1 reference

12 December 2020

Smoking-attributable mortality, years of potential life lost, and productivity losses--United States, 2000-2004

1 reference

12 December 2020

Genetic epidemiology of COPD (COPDGene) study design

1 reference

12 December 2020

A ceRNA hypothesis: the Rosetta Stone of a hidden RNA language?

1 reference

12 December 2020

Molecular Mechanisms of Long Noncoding RNAs

1 reference

12 December 2020

Epidemiology Standardization Project (American Thoracic Society)

1 reference

12 December 2020

10.1186/S12920-017-0295-9

Identifiers

DOI

1 reference

https://www.ebi.ac.uk/europepmc/webservices/rest/search?query=PMCID:PMC6225866&resulttype=core&format=json

Dimensions Publication ID

12 May 2020

0 references

1 reference

https://www.ebi.ac.uk/europepmc/webservices/rest/search?query=PMCID:PMC6225866&resulttype=core&format=json

12 May 2020

PubMed publication ID

28985737

1 reference

https://www.ebi.ac.uk/europepmc/webservices/rest/search?query=PMCID:PMC6225866&resulttype=core&format=json