(Q30656581)

15 October 2017

Normalizing RNA-sequencing data by modeling hidden covariates with prior knowledge (English)

1 reference

15 October 2017

1 reference

7

Daphne Koller

1 reference

15 October 2017

Sara Mostafavi

1

0 references

author name string

Alexis Battle

2

1 reference

15 October 2017

Xiaowei Zhu

3

1 reference

15 October 2017

Alexander E Urban

4

1 reference

15 October 2017

Douglas Levinson

5

1 reference

15 October 2017

Stephen B Montgomery

6

1 reference

15 October 2017

language of work or name

English

0 references

publication date

18 July 2013

1 reference

15 October 2017

1 reference

15 October 2017

8

1 reference

15 October 2017

7

1 reference

15 October 2017

e68141

1 reference

Creative Commons Attribution 4.0 International

15 October 2017

start time

18 July 2013

1 reference

April 2022 Public Data File from Crossref

copyright status

copyrighted

0 references

cites work

Patterns of cis regulatory variation in diverse human populations

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3715474

Joint modelling of confounding factors and prominent genetic regulators provides increased accuracy in genetical genomics studies

28 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3715474

Using control genes to correct for unwanted variation in microarray data

28 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3715474

Trans-eQTLs reveal that independent genetic variants associated with a complex phenotype converge on intermediate genes, with a major role for the HLA

28 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3715474

Rare and common regulatory variation in population-scale sequenced human genomes

28 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3715474

Bias detection and correction in RNA-Sequencing data

28 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3715474

Sequencing technology does not eliminate biological variability

28 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3715474

Mixed-model coexpression: calculating gene coexpression while accounting for expression heterogeneity

28 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3715474

RNA-sequence analysis of human B-cells

28 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3715474

Joint genetic analysis of gene expression data with inferred cellular phenotypes

28 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3715474

Analysis of population structure: a unifying framework and novel methods based on sparse factor analysis.

28 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3715474

Correction for hidden confounders in the genetic analysis of gene expression

28 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3715474

Cloud-scale RNA-sequencing differential expression analysis with Myrna

28 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3715474

A Bayesian framework to account for complex non-genetic factors in gene expression levels greatly increases power in eQTL studies

28 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3715474

Transcriptome genetics using second generation sequencing in a Caucasian population

28 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3715474

Variance component model to account for sample structure in genome-wide association studies

28 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3715474

A scaling normalization method for differential expression analysis of RNA-seq data

28 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3715474

Evaluation of statistical methods for normalization and differential expression in mRNA-Seq experiments

28 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3715474

Stem cell transcriptome profiling via massive-scale mRNA sequencing

28 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3715474

Mapping and quantifying mammalian transcriptomes by RNA-Seq

28 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3715474

Capturing heterogeneity in gene expression studies by surrogate variable analysis

28 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3715474

Adjusting batch effects in microarray expression data using empirical Bayes methods

28 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3715474

Gene ontology: tool for the unification of biology

28 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3715474

A combined algorithm for genome-wide prediction of protein function

28 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3715474

Understanding mechanisms underlying human gene expression variation with RNA sequencing

28 July 2018

1 reference

https://api.crossref.org/works/10.1371%2FJOURNAL.PONE.0068141

Investigation of variation in gene expression profiling of human blood by extended principle component analysis

21 January 2018

1 reference

https://api.crossref.org/works/10.1371%2FJOURNAL.PONE.0068141

Accurate discovery of expression quantitative trait loci under confounding from spurious and genuine regulatory hotspots

21 January 2018

1 reference

https://api.crossref.org/works/10.1371%2FJOURNAL.PONE.0068141

GeneMANIA: a real-time multiple association network integration algorithm for predicting gene function

21 January 2018

1 reference

https://api.crossref.org/works/10.1371%2FJOURNAL.PONE.0068141

A critical assessment of Mus musculus gene function prediction using integrated genomic evidence

21 January 2018

1 reference

https://api.crossref.org/works/10.1371%2FJOURNAL.PONE.0068141

The Genotype-Tissue Expression (GTEx) project

21 January 2018

1 reference

https://api.crossref.org/works/10.1371%2FJOURNAL.PONE.0068141

From expression QTLs to personalized transcriptomics

21 January 2018

1 reference

PubMed

https://pubmed.ncbi.nlm.nih.gov/23874524

inferred from PubMed ID database lookup

12 December 2020

based on heuristic

Identifiers

DOI

10.1371/JOURNAL.PONE.0068141

1 reference

15 October 2017

0 references

1 reference

15 October 2017

PubMed publication ID

23874524

1 reference