Incorporating alternative splicing and mRNA editing into the genetic analysis of complex traits. (Q34789256)

https://www.ebi.ac.uk/europepmc/webservices/rest/search?query=EXT_ID:25171292%20AND%20SRC:MED&resulttype=core&format=json

15 February 2020

title

Incorporating alternative splicing and mRNA editing into the genetic analysis of complex traits (English)

1 reference

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alternative mRNA splicing, via spliceosome

15 February 2020

main subject

1 reference

1 reference

1

1 reference

https://www.ebi.ac.uk/europepmc/webservices/rest/search?query=EXT_ID:25171292%20AND%20SRC:MED&resulttype=core&format=json

15 February 2020

Jeroen P Saeij

series ordinal

2

1 reference

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15 February 2020

author name string

Musa A Hassan

series ordinal

1

1 reference

PubMed publication ID

25171292

4 August 2017

Jeroen P J Saeij

series ordinal

2

1 reference

PubMed publication ID

25171292

4 August 2017

language of work or name

English

0 references

publication date

29 August 2014

1 reference

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15 February 2020

1 reference

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15 February 2020

volume

36

1 reference

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15 February 2020

issue

11

1 reference

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15 February 2020

page(s)

1032-1040

1 reference

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Genome editing with Cas9 in adult mice corrects a disease mutation and phenotype.

15 February 2020

cites work

1 reference

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Role of virus-encoded microRNAs in Avian viral diseases.

8 July 2018

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EBV-encoded miR-BART20-5p and miR-BART8 inhibit the IFN-γ-STAT1 pathway associated with disease progression in nasal NK-cell lymphoma.

8 July 2018

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A mutation protective against Alzheimer's disease renders amyloid β precursor protein incapable of mediating neurotoxicity

8 July 2018

1 reference

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SAMHD1 restricts HIV-1 replication and regulates interferon production in mouse myeloid cells

8 July 2018

1 reference

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CRISPR-Cas systems for editing, regulating and targeting genomes

8 July 2018

1 reference

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The genetic basis for individual differences in mRNA splicing and APOBEC1 editing activity in murine macrophages.

8 July 2018

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Identification of genetic variants that affect histone modifications in human cells

8 July 2018

1 reference

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SAMHD1-dependent retroviral control and escape in mice.

8 July 2018

1 reference

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An APOBEC cytidine deaminase mutagenesis pattern is widespread in human cancers

8 July 2018

1 reference

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Host factor SAMHD1 restricts DNA viruses in non-dividing myeloid cells

8 July 2018

1 reference

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A comprehensive analysis of the effects of the deaminase AID on the transcriptome and methylome of activated B cells

8 July 2018

1 reference

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From reactivation of latent HIV-1 to elimination of the latent reservoir: the presence of multiple barriers to viral eradication

8 July 2018

1 reference

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DNA-methylation effect on cotranscriptional splicing is dependent on GC architecture of the exon-intron structure

8 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4280019

Meta-analysis of genome-wide association studies in five cohorts reveals common variants in RBFOX1, a regulator of tissue-specific splicing, associated with refractive error

8 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4280019

Alternative splicing: a pivotal step between eukaryotic transcription and translation

8 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4280019

Evolutionary dynamics of gene and isoform regulation in Mammalian tissues.

8 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4280019

Integrative analysis of a cross-loci regulation network identifies App as a gene regulating insulin secretion from pancreatic islets

8 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4280019

De novo reconstruction of the Toxoplasma gondii transcriptome improves on the current genome annotation and reveals alternatively spliced transcripts and putative long non-coding RNAs

8 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4280019

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

8 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4280019

Circadian oscillations of protein-coding and regulatory RNAs in a highly dynamic mammalian liver epigenome

8 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4280019

Controls of nucleosome positioning in the human genome.

8 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4280019

Variants affecting exon skipping contribute to complex traits.

8 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4280019

Identification and characterization of naturally occurring splice variants of SAMHD1

8 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4280019

Intestine-specific expression of Apobec-1 rescues apolipoprotein B RNA editing and alters chylomicron production in Apobec1 -/- mice

8 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4280019

Alternative splicing: decoding an expansive regulatory layer

8 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4280019

Insights into the regulation of protein abundance from proteomic and transcriptomic analyses

8 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4280019

Phytochemical antioxidants modulate mammalian cellular epigenome: implications in health and disease

8 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4280019

Deciphering the genetic architecture of variation in the immune response to Mycobacterium tuberculosis infection

8 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4280019

Accurate identification of A-to-I RNA editing in human by transcriptome sequencing

8 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4280019

Human cytomegalovirus microRNA miR-US4-1 inhibits CD8(+) T cell responses by targeting the aminopeptidase ERAP1

8 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4280019

Comprehensive exon array data processing method for quantitative analysis of alternative spliced variants

8 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4280019

Human epigenome data reveal increased CpG methylation in alternatively spliced sites and putative exonic splicing enhancers

8 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4280019

A structural determinant required for RNA editing.

8 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4280019

Episomal Viral cDNAs Identify a Reservoir That Fuels Viral Rebound after Treatment Interruption and That Contributes to Treatment Failure

8 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4280019

Transcriptome-wide sequencing reveals numerous APOBEC1 mRNA-editing targets in transcript 3′ UTRs

8 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4280019

Analysis and design of RNA sequencing experiments for identifying isoform regulation

8 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4280019

De novo assembly and analysis of RNA-seq data.

8 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4280019

An alternative splicing network links cell-cycle control to apoptosis

8 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4280019

Diverse functions for DNA and RNA editing in the immune system.

8 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4280019

Determination of alternate splicing events using the Affymetrix Exon 1.0 ST arrays

8 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4280019

Lsh mediated RNA polymerase II stalling at HoxC6 and HoxC8 involves DNA methylation

8 July 2018

1 reference

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Dynamic changes in the human methylome during differentiation

8 July 2018

1 reference

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The organization of nucleosomes around splice sites

8 July 2018

1 reference

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H2A.Z-containing nucleosomes mediate the thermosensory response in Arabidopsis.

8 July 2018

1 reference

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Global signatures of protein and mRNA expression levels

8 July 2018

1 reference

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The role of HMGCR alternative splicing in statin efficacy

8 July 2018

1 reference

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Human DNA methylomes at base resolution show widespread epigenomic differences

8 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4280019

Editing of HIV-1 RNA by the double-stranded RNA deaminase ADAR1 stimulates viral infection

8 July 2018

1 reference

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Large-scale mRNA sequencing determines global regulation of RNA editing during brain development.

8 July 2018

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ADAR1 and ADAR2 expression and editing activity during forebrain development.

8 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4280019

Tissue-specific genetic control of splicing: implications for the study of complex traits

8 July 2018

1 reference

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Regulation of the mammalian epigenome by long noncoding RNAs.

8 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4280019

Alternative isoform regulation in human tissue transcriptomes

8 July 2018

1 reference

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FIRMA: a method for detection of alternative splicing from exon array data

8 July 2018

1 reference

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Gene set enrichment in eQTL data identifies novel annotations and pathway regulators

8 July 2018

1 reference

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Susceptibility to Coccidioides species in C57BL/6 mice is associated with expression of a truncated splice variant of Dectin-1 (Clec7a).

8 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4280019

Cellular signals modulate alternative splicing

8 July 2018

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Alternative ion channel splicing in mesial temporal lobe epilepsy and Alzheimer's disease

8 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4280019

8 July 2018

The mammalian epigenome

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A genome-wide association study identifies IL23R as an inflammatory bowel disease gene

8 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4280019

Standardized subsets of the HGDP-CEPH Human Genome Diversity Cell Line Panel, accounting for atypical and duplicated samples and pairs of close relatives.

8 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4280019

Identifying the environmental factors that determine the genetic structure of populations

8 July 2018

1 reference

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Novel integrative genomics strategies to identify genes for complex traits

8 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4280019

ADAR gene family and A-to-I RNA editing: diverse roles in posttranscriptional gene regulation

8 July 2018

1 reference

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An integrative genomics approach to infer causal associations between gene expression and disease

8 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4280019

Widespread A-to-I RNA editing of Alu-containing mRNAs in the human transcriptome

8 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4280019

Widespread RNA editing of embedded alu elements in the human transcriptome

8 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4280019

The spliceosome: the most complex macromolecular machine in the cell?

8 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4280019

Transposable elements: targets for early nutritional effects on epigenetic gene regulation

8 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4280019

Module networks: identifying regulatory modules and their condition-specific regulators from gene expression data

8 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4280019

A human genome diversity cell line panel

8 July 2018

1 reference

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DNA methylation patterns and epigenetic memory

8 July 2018

1 reference

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Substrate recognition by ADAR1 and ADAR2

8 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4280019

An AU-rich sequence element (UUUN[A/U]U) downstream of the edited C in apolipoprotein B mRNA is a high-affinity binding site for Apobec-1: binding of Apobec-1 to this motif in the 3' untranslated region of c-myc increases mRNA stability

8 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4280019

ATP-dependent chromatin-remodeling complexes.

8 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4280019

An alternatively spliced form of apobec-1 messenger RNA is overexpressed in human colon cancer

8 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4280019

A mammalian RNA editing enzyme

8 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4280019

Genetic dissection of a behavioral quantitative trait locus shows that Rgs2 modulates anxiety in mice.

8 July 2018

1 reference

https://api.crossref.org/works/10.1002%2FBIES.201400079

Genetical genomics: the added value from segregation

21 January 2018

1 reference

https://api.crossref.org/works/10.1002%2FBIES.201400079

Replication-competent noninduced proviruses in the latent reservoir increase barrier to HIV-1 cure.

21 January 2018

1 reference

https://api.crossref.org/works/10.1002%2FBIES.201400079

Mapping the epigenetic basis of complex traits.

21 January 2018

1 reference

https://api.crossref.org/works/10.1002%2FBIES.201400079

The evolutionary landscape of alternative splicing in vertebrate species

21 January 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4280019

Maternal epigenetics and methyl supplements affectagoutigene expression inAvy/amice

26 October 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4280019

Restriction of HIV-1 Replication in Primary Macrophages by IL-12 and IL-18 through the Upregulation of SAMHD1

26 October 2018

1 reference

PubMed

https://pubmed.ncbi.nlm.nih.gov/25171292

inferred from PubMed ID database lookup

12 December 2020

based on heuristic

When epigenetics meets alternative splicing: the roles of DNA methylation and GC architecture

1 reference

PubMed

https://pubmed.ncbi.nlm.nih.gov/25171292

inferred from PubMed ID database lookup

12 December 2020

based on heuristic

Identifiers

DOI

10.1002/BIES.201400079

1 reference

https://www.ebi.ac.uk/europepmc/webservices/rest/search?query=EXT_ID:25171292%20AND%20SRC:MED&resulttype=core&format=json

release_e3yqrpj72fc7zmmpe5csx5olqm

15 February 2020

Fatcat ID

1 reference

Fatcat

https://api.fatcat.wiki/v0/release/e3yqrpj72fc7zmmpe5csx5olqm

mapped directly with Wikidata item

24 November 2022

based on heuristic

1 reference

https://www.ebi.ac.uk/europepmc/webservices/rest/search?query=EXT_ID:25171292%20AND%20SRC:MED&resulttype=core&format=json

15 February 2020

PubMed publication ID

25171292

1 reference

https://www.ebi.ac.uk/europepmc/webservices/rest/search?query=EXT_ID:25171292%20AND%20SRC:MED&resulttype=core&format=json