SPIRE, a modular pipeline for eQTL analysis of RNA-Seq data, reveals a regulatory hotspot controlling miRNA expression in C. elegans (Q31135872)

29 June 2017

SPIRE, a modular pipeline for eQTL analysis of RNA-Seq data, reveals a regulatory hotspot controlling miRNA expression in C. elegans (English)

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29 June 2017

Caenorhabditis elegans

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2 June 2020

Nadia Galluccio

3

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2 June 2020

Luisa Diomede

6

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2 June 2020

Alessandra Mezzelani

7

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2 June 2020

Luciano Milanesi

8

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2 June 2020

author name string

Zisong Chang

2

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2 June 2020

Margherita Romeo

4

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2 June 2020

Stefano Beretta

5

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2 June 2020

Christoph Dieterich

9

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2 June 2020

Ivan Merelli

10

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2 June 2020

publication date

22 September 2016

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29 June 2017

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2 June 2020

volume

12

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2 June 2020

issue

11

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2 June 2020

page(s)

3447-3458

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Systematic identification of trans eQTLs as putative drivers of known disease associations

2 June 2020

cites work

1 reference

https://api.crossref.org/works/10.1039%2FC6MB00453A

Understanding mechanisms underlying human gene expression variation with RNA sequencing

21 January 2018

1 reference

https://api.crossref.org/works/10.1039%2FC6MB00453A

A trans-acting locus regulates an anti-viral expression network and type 1 diabetes risk

21 January 2018

1 reference

https://api.crossref.org/works/10.1039%2FC6MB00453A

Integrating multi-omic features exploiting Chromosome Conformation Capture data.

21 January 2018

1 reference

https://api.crossref.org/works/10.1039%2FC6MB00453A

NuChart: an R package to study gene spatial neighbourhoods with multi-omics annotations.

21 January 2018

1 reference

https://api.crossref.org/works/10.1039%2FC6MB00453A

Genetic control of human brain transcript expression in Alzheimer disease

21 January 2018

1 reference

https://api.crossref.org/works/10.1039%2FC6MB00453A

Applications of the 1000 Genomes Project resources

21 January 2018

1 reference

https://api.crossref.org/works/10.1039%2FC6MB00453A

Integrative eQTL-based analyses reveal the biology of breast cancer risk loci

21 January 2018

1 reference

https://api.crossref.org/works/10.1039%2FC6MB00453A

Mapping the genetic architecture of gene expression in human liver

21 January 2018

1 reference

https://api.crossref.org/works/10.1039%2FC6MB00453A

Genetics of global gene expression

21 January 2018

1 reference

https://api.crossref.org/works/10.1039%2FC6MB00453A

Revealing the architecture of gene regulation: the promise of eQTL studies

21 January 2018

1 reference

https://api.crossref.org/works/10.1039%2FC6MB00453A

Detection and interpretation of expression quantitative trait loci (eQTL).

21 January 2018

1 reference

https://api.crossref.org/works/10.1039%2FC6MB00453A

Genetical genomics: the added value from segregation.

21 January 2018

1 reference

https://api.crossref.org/works/10.1039%2FC6MB00453A

eQTL Mapping Using RNA-seq Data

21 January 2018

1 reference

https://api.crossref.org/works/10.1039%2FC6MB00453A

R/qtl: QTL mapping in experimental crosses

21 January 2018

1 reference

https://api.crossref.org/works/10.1039%2FC6MB00453A

Matrix eQTL: ultra fast eQTL analysis via large matrix operations

21 January 2018

1 reference

https://api.crossref.org/works/10.1039%2FC6MB00453A

Data structures and algorithms for analysis of genetics of gene expression with Bioconductor: GGtools 3.x.

21 January 2018

1 reference

https://api.crossref.org/works/10.1039%2FC6MB00453A

iBMQ: a R/Bioconductor package for integrated Bayesian modeling of eQTL data

21 January 2018

1 reference

https://api.crossref.org/works/10.1039%2FC6MB00453A

Principal components analysis corrects for stratification in genome-wide association studies

21 January 2018

1 reference

https://api.crossref.org/works/10.1039%2FC6MB00453A

Capturing heterogeneity in gene expression studies by surrogate variable analysis

21 January 2018

1 reference

https://api.crossref.org/works/10.1039%2FC6MB00453A

Using probabilistic estimation of expression residuals (PEER) to obtain increased power and interpretability of gene expression analyses

21 January 2018

1 reference

https://api.crossref.org/works/10.1039%2FC6MB00453A

Identifying Important Risk Factors for Survival in Kidney Graft Failure Patients Using Random Survival Forests

21 January 2018

1 reference

https://api.crossref.org/works/10.1039%2FC6MB00453A

Data-driven assessment of eQTL mapping methods

21 January 2018

1 reference

https://api.crossref.org/works/10.1039%2FC6MB00453A

Detecting differential gene expression with a semiparametric hierarchical mixture method.

21 January 2018

1 reference

https://api.crossref.org/works/10.1039%2FC6MB00453A

Selection at linked sites shapes heritable phenotypic variation in C. elegans

21 January 2018

1 reference

https://api.crossref.org/works/10.1039%2FC6MB00453A

Transcriptome and genome sequencing uncovers functional variation in humans

21 January 2018

1 reference

https://api.crossref.org/works/10.1039%2FC6MB00453A

Expression quantitative trait loci analysis identifies associations between genotype and gene expression in human intestine

21 January 2018

1 reference

https://api.crossref.org/works/10.1039%2FC6MB00453A

Lep-MAP: fast and accurate linkage map construction for large SNP datasets

21 January 2018

1 reference

https://api.crossref.org/works/10.1039%2FC6MB00453A

An abundant class of tiny RNAs with probable regulatory roles in Caenorhabditis elegans

21 January 2018

1 reference

https://api.crossref.org/works/10.1039%2FC6MB00453A

Comprehensive discovery of endogenous Argonaute binding sites in Caenorhabditis elegans

21 January 2018

1 reference

https://api.crossref.org/works/10.1039%2FC6MB00453A

RIC-7 promotes neuropeptide secretion

21 January 2018

1 reference

https://api.crossref.org/works/10.1039%2FC6MB00453A

Genes and mechanisms related to RNA interference regulate expression of the small temporal RNAs that control C. elegans developmental timing

21 January 2018

1 reference

https://api.crossref.org/works/10.1039%2FC6MB00453A

Time-lapse imaging and cell-specific expression profiling reveal dynamic branching and molecular determinants of a multi-dendritic nociceptor in C. elegans

21 January 2018

1 reference

https://api.crossref.org/works/10.1039%2FC6MB00453A

miRBase: integrating microRNA annotation and deep-sequencing data

21 January 2018

1 reference

https://api.crossref.org/works/10.1039%2FC6MB00453A

A map of the interactome network of the metazoan C. elegans

21 January 2018

1 reference

https://api.crossref.org/works/10.1039%2FC6MB00453A

Toward improving Caenorhabditis elegans phenome mapping with an ORFeome-based RNAi library

21 January 2018

1 reference

https://api.crossref.org/works/10.1039%2FC6MB00453A

Genome-wide RNAi of C. elegans using the hypersensitive rrf-3 strain reveals novel gene functions

21 January 2018

1 reference

https://api.crossref.org/works/10.1039%2FC6MB00453A

The Groucho ortholog UNC-37 interacts with the short Groucho-like protein LSY-22 to control developmental decisions in C. elegans

21 January 2018

1 reference

https://api.crossref.org/works/10.1039%2FC6MB00453A

Chromosomal localization of genes required for the terminal steps of oxidative metabolism: alpha and gamma subunits of ATP synthase and the phosphate carrier

21 January 2018

1 reference

https://api.crossref.org/works/10.1039%2FC6MB00453A

Identification and characterization of novel nicotinic receptor-associated proteins in Caenorhabditis elegans

21 January 2018

1 reference

https://api.crossref.org/works/10.1039%2FC6MB00453A

mab-31 and the TGF-beta pathway act in the ray lineage to pattern C. elegans male sensory rays

21 January 2018

1 reference

https://api.crossref.org/works/10.1039%2FC6MB00453A

A spatial and temporal map of C. elegans gene expression

21 January 2018

1 reference

https://api.crossref.org/works/10.1039%2FC6MB00453A

STRING v9.1: protein-protein interaction networks, with increased coverage and integration

21 January 2018

1 reference

https://api.crossref.org/works/10.1039%2FC6MB00453A

KEGG as a reference resource for gene and protein annotation

21 January 2018

1 reference

https://api.crossref.org/works/10.1039%2FC6MB00453A

Diapause-associated metabolic traits reiterated in long-lived daf-2 mutants in the nematode Caenorhabditis elegans

21 January 2018

1 reference

https://api.crossref.org/works/10.1039%2FC6MB00453A

The matrix peptide exporter HAF-1 signals a mitochondrial UPR by activating the transcription factor ZC376.7 in C. elegans

21 January 2018

1 reference

https://api.crossref.org/works/10.1039%2FC6MB00453A

The crystal structure of human mitochondrial 3-ketoacyl-CoA thiolase (T1): insight into the reaction mechanism of its thiolase and thioesterase activities

21 January 2018

1 reference

https://api.crossref.org/works/10.1039%2FC6MB00453A

Conserved miRNAs are candidate post-transcriptional regulators of developmental arrest in free-living and parasitic nematodes

21 January 2018

1 reference

https://api.crossref.org/works/10.1039%2FC6MB00453A

Functional conservation between members of an ancient duplicated transcription factor family, LSF/Grainyhead

21 January 2018

1 reference

https://api.crossref.org/works/10.1039%2FC6MB00453A

TRANSFAC and its module TRANSCompel: transcriptional gene regulation in eukaryotes

21 January 2018

1 reference

https://api.crossref.org/works/10.1039%2FC6MB00453A

"Upstream Analysis": An Integrated Promoter-Pathway Analysis Approach to Causal Interpretation of Microarray Data

21 January 2018

1 reference

https://api.crossref.org/works/10.1039%2FC6MB00453A

DAVID: Database for Annotation, Visualization, and Integrated Discovery

21 January 2018

1 reference

https://api.crossref.org/works/10.1039%2FC6MB00453A

21 January 2018

Identifiers

DOI

10.1039/C6MB00453A

1 reference

https://www.ebi.ac.uk/europepmc/webservices/rest/search?query=EXT_ID:27722582%20AND%20SRC:MED&resulttype=core&format=json

2 June 2020

1 reference