(Q30656963)

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Transposable Elements and DNA Methylation Create in Embryonic Stem Cells Human-Specific Regulatory Sequences Associated with Distal Enhancers and Noncoding RNAs

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scholarly article

1 reference

Europe PubMed Central

PMC publication ID

10 August 2017

Transposable Elements and DNA Methylation Create in Embryonic Stem Cells Human-Specific Regulatory Sequences Associated with Distal Enhancers and Noncoding RNAs (English)

1 reference

Europe PubMed Central

PMC publication ID

10 August 2017

DNA methylation

0 references

author name string

Gennadi V Glinsky

1

1 reference

Europe PubMed Central

PMC publication ID

10 August 2017

publication date

7 May 2015

1 reference

Europe PubMed Central

PMC publication ID

10 August 2017

Genome Biology and Evolution

1 reference

Europe PubMed Central

PMC publication ID

10 August 2017

7

1 reference

Europe PubMed Central

PMC publication ID

10 August 2017

6

1 reference

Europe PubMed Central

PMC publication ID

10 August 2017

1432-1454

1 reference

Europe PubMed Central

PMC publication ID

10 August 2017

Energetically biased DNA motor containing a thermodynamically stable partial strand displacement state

1 reference

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14 July 2018

Dynamic regulation of human endogenous retroviruses mediates factor-induced reprogramming and differentiation potential

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4494056

14 July 2018

DNA methylation dynamics of the human preimplantation embryo

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4494056

14 July 2018

Nonhuman genetics. Strong male bias drives germline mutation in chimpanzees

1 reference

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14 July 2018

The retrovirus HERVH is a long noncoding RNA required for human embryonic stem cell identity

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4494056

14 July 2018

Differentiation-defective phenotypes revealed by large-scale analyses of human pluripotent stem cells

1 reference

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14 July 2018

Differential L1 regulation in pluripotent stem cells of humans and apes.

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4494056

14 July 2018

Global epigenomic reconfiguration during mammalian brain development

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4494056

14 July 2018

RNA-guided diagnostics and therapeutics for next-generation individualized nanomedicine

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4494056

14 July 2018

The majority of primate-specific regulatory sequences are derived from transposable elements

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4494056

14 July 2018

Epigenomic analysis of multilineage differentiation of human embryonic stem cells

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4494056

14 July 2018

Transposable elements are major contributors to the origin, diversification, and regulation of vertebrate long noncoding RNAs

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4494056

14 July 2018

Interplay between chromatin state, regulator binding, and regulatory motifs in six human cell types

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4494056

14 July 2018

The human placenta methylome

1 reference

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14 July 2018

HERV-H RNA is abundant in human embryonic stem cells and a precise marker for pluripotency.

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4494056

14 July 2018

ENCODE data in the UCSC Genome Browser: year 5 update

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4494056

14 July 2018

Human-specific histone methylation signatures at transcription start sites in prefrontal neurons

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4494056

14 July 2018

Transposable elements reveal a stem cell-specific class of long noncoding RNAs

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4494056

14 July 2018

The UCSC Genome Browser database: extensions and updates 2013.

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4494056

14 July 2018

Complexity of chromatin folding is captured by the strings and binders switch model

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4494056

14 July 2018

Sequence features and chromatin structure around the genomic regions bound by 119 human transcription factors

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4494056

14 July 2018

A high-coverage genome sequence from an archaic Denisovan individual

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4494056

14 July 2018

Functional and molecular characterization of the role of CTCF in human embryonic stem cell biology

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4494056

14 July 2018

Base-resolution analysis of 5-hydroxymethylcytosine in the mammalian genome.

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4494056

14 July 2018

Nanog-like regulates endoderm formation through the Mxtx2-Nodal pathway.

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4494056

14 July 2018

Extensive promoter-centered chromatin interactions provide a topological basis for transcription regulation

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4494056

14 July 2018

Waves of retrotransposon expansion remodel genome organization and CTCF binding in multiple mammalian lineages

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4494056

14 July 2018

MicroRNA-driven developmental remodeling in the brain distinguishes humans from other primates

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4494056

14 July 2018

Repetitive elements may comprise over two-thirds of the human genome

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4494056

14 July 2018

Somatic retrotransposition alters the genetic landscape of the human brain

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4494056

14 July 2018

Accelerated recruitment of new brain development genes into the human genome

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4494056

14 July 2018

CpG deamination creates transcription factor-binding sites with high efficiency

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4494056

14 July 2018

Reprogramming somatic cells into iPS cells activates LINE-1 retroelement mobility

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4494056

14 July 2018

lincRNAs act in the circuitry controlling pluripotency and differentiation

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4494056

14 July 2018

Genetic history of an archaic hominin group from Denisova Cave in Siberia

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4494056

14 July 2018

A unique chromatin signature uncovers early developmental enhancers in humans

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4494056

14 July 2018

Epigenetic control of retrotransposon expression in human embryonic stem cells.

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4494056

14 July 2018

Molecular maps of the reorganization of genome-nuclear lamina interactions during differentiation

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4494056

14 July 2018

Human DNA methylomes at base resolution show widespread epigenomic differences

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4494056

14 July 2018

Global discovery of primate-specific genes in the human genome

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4494056

14 July 2018

Origin of primate orphan genes: a comparative genomics approach

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4494056

14 July 2018

Evolution of the mammalian transcription factor binding repertoire via transposable elements

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4494056

14 July 2018

Integration of external signaling pathways with the core transcriptional network in embryonic stem cells

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4494056

14 July 2018

Domain organization of human chromosomes revealed by mapping of nuclear lamina interactions

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4494056

14 July 2018

Species-specific endogenous retroviruses shape the transcriptional network of the human tumor suppressor protein p53.

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4494056

14 July 2018

LINE-1 retrotransposition in human embryonic stem cells

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4494056

14 July 2018

Sequencing and analysis of Neanderthal genomic DNA

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4494056

14 July 2018

Accelerated evolution of nervous system genes in the origin of Homo sapiens

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4494056

14 July 2018

Bayesian Markov chain Monte Carlo sequence analysis reveals varying neutral substitution patterns in mammalian evolution

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4494056

14 July 2018

Origin of a substantial fraction of human regulatory sequences from transposable elements

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4494056

14 July 2018

Human-mouse alignments with BLASTZ

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4494056

14 July 2018

BLAT—The BLAST-Like Alignment Tool

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4494056

14 July 2018

Systematic determination of genetic network architecture

1 reference

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14 July 2018

Cytosine methylation and the ecology of intragenomic parasites

1 reference

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14 July 2018

5-Methylcytosine in eukaryotic DNA.

1 reference

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14 July 2018

DNA Methylation and Gene Function

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4494056

14 July 2018

The expected equilibrium of the CpG dinucleotide in vertebrate genomes under a mutation model

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4494056

14 July 2018

Molecular basis of base substitution hotspots in Escherichia coli

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4494056

14 July 2018

Deep transcriptome profiling of mammalian stem cells supports a regulatory role for retrotransposons in pluripotency maintenance

1 reference

https://api.crossref.org/works/10.1093%2FGBE%2FEVV081

21 January 2018

Transposable elements have rewired the core regulatory network of human embryonic stem cells

1 reference

https://api.crossref.org/works/10.1093%2FGBE%2FEVV081

21 January 2018

An on-demand four-way junction DNAzyme nanoswitch driven by inosine-based partial strand displacement.

1 reference

https://api.crossref.org/works/10.1093%2FGBE%2FEVV081

21 January 2018

Mutagenic deamination of cytosine residues in DNA

1 reference

https://api.crossref.org/works/10.1093%2FGBE%2FEVV081

21 January 2018

Neighboring base effects on substitution rates in pseudogenes

1 reference

https://pubmed.ncbi.nlm.nih.gov/25956794

12 December 2020

based on heuristic

inferred from PubMed ID database lookup

Methylation and deamination of CpGs generate p53-binding sites on a genomic scale

1 reference

https://pubmed.ncbi.nlm.nih.gov/25956794

12 December 2020

based on heuristic

inferred from PubMed ID database lookup

Identifiers

10.1093/GBE/EVV081

1 reference

Europe PubMed Central

PMC publication ID

10 August 2017

PMC publication ID

1 reference

Europe PubMed Central

PMC publication ID

10 August 2017

PubMed publication ID

1 reference

Europe PubMed Central

PMC publication ID

10 August 2017

ResearchGate publication ID

0 references

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