Myc and SAGA rewire an alternative splicing network during early somatic cell reprogramming (Q35486433)

8 August 2017

title

Myc and SAGA rewire an alternative splicing network during early somatic cell reprogramming (English)

1 reference

alternative mRNA splicing, via spliceosome

8 August 2017

main subject

1 reference

based on heuristic

inferred from title

corrigendum / erratum

Corrigendum: Myc and SAGA rewire an alternative splicing network during early somatic cell reprogramming

0 references

Marenda Wilson

13

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Zheng Xia

Zheng Xia

11

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Alessandro Datti

Alessandro Datti

15

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Michelle Craig Barton

Michelle C Barton

18

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Jeffrey L. Wrana

20

Jeffrey L Wrana

1 reference

8 August 2017

19

Benjamin J Blencowe

1 reference

8 August 2017

Calley L Hirsch

1

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8 August 2017

Zeynep Coban Akdemir

2

1 reference

8 August 2017

Li Wang

3

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8 August 2017

Gowtham Jayakumaran

4

1 reference

8 August 2017

Dan Trcka

5

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8 August 2017

Alexander Weiss

6

1 reference

8 August 2017

J Javier Hernandez

7

1 reference

8 August 2017

Qun Pan

8

1 reference

8 August 2017

Hong Han

9

1 reference

8 August 2017

Xueping Xu

10

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8 August 2017

Andrew P Salinger

12

1 reference

8 August 2017

Frederick Vizeacoumar

14

1 reference

8 August 2017

Wei Li

16

1 reference

8 August 2017

Austin J Cooney

17

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8 August 2017

Sharon Y R Dent

21

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8 August 2017

publication date

15 April 2015

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8 August 2017

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8 August 2017

volume

29

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8 August 2017

issue

8

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8 August 2017

page(s)

803-816

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Gcn5 and PCAF negatively regulate interferon-β production through HAT-independent inhibition of TBK1.

8 August 2017

cites work

1 reference

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The SAGA coactivator complex acts on the whole transcribed genome and is required for RNA polymerase II transcription.

12 July 2018

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Gcn5 and PCAF regulate PPARγ and Prdm16 expression to facilitate brown adipogenesis

12 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4403257

Selective transcriptional regulation by Myc in cellular growth control and lymphomagenesis.

12 July 2018

1 reference

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Systematic identification of barriers to human iPSC generation

12 July 2018

1 reference

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Alternative splicing of MBD2 supports self-renewal in human pluripotent stem cells

12 July 2018

1 reference

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12 July 2018

Phases of reprogramming

1 reference

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MYC interacts with the human STAGA coactivator complex via multivalent contacts with the GCN5 and TRRAP subunits.

12 July 2018

1 reference

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iPS cells: a game changer for future medicine

12 July 2018

1 reference

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The polycomb protein Ezh2 impacts on induced pluripotent stem cell generation

12 July 2018

1 reference

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Chromatin dynamics during cellular reprogramming

12 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4403257

Global splicing pattern reversion during somatic cell reprogramming

12 July 2018

1 reference

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Proteomic and genomic approaches reveal critical functions of H3K9 methylation and heterochromatin protein-1γ in reprogramming to pluripotency

12 July 2018

1 reference

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MBNL proteins repress ES-cell-specific alternative splicing and reprogramming.

12 July 2018

1 reference

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High-resolution analysis with novel cell-surface markers identifies routes to iPS cells

12 July 2018

1 reference

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The role of SIRT6 protein in aging and reprogramming of human induced pluripotent stem cells

12 July 2018

1 reference

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Reprogramming human fibroblasts to pluripotency using modified mRNA.

12 July 2018

1 reference

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Highly coordinated proteome dynamics during reprogramming of somatic cells to pluripotency

12 July 2018

1 reference

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A molecular roadmap of reprogramming somatic cells into iPS cells

12 July 2018

1 reference

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Facilitators and impediments of the pluripotency reprogramming factors' initial engagement with the genome

12 July 2018

1 reference

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Revisiting global gene expression analysis

12 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4403257

c-Myc is a universal amplifier of expressed genes in lymphocytes and embryonic stem cells

12 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4403257

Transcriptional amplification in tumor cells with elevated c-Myc.

12 July 2018

1 reference

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Single-cell expression analyses during cellular reprogramming reveal an early stochastic and a late hierarchic phase

12 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4403257

X-linked H3K27me3 demethylase Utx is required for embryonic development in a sex-specific manner

12 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4403257

N-Myc and GCN5 regulate significantly overlapping transcriptional programs in neural stem cells.

12 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4403257

Alternative splicing: decoding an expansive regulatory layer

12 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4403257

ATAC-king the complexity of SAGA during evolution

12 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4403257

Chromatin-modifying enzymes as modulators of reprogramming

12 July 2018

1 reference

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ENCODE whole-genome data in the UCSC Genome Browser: update 2012.

12 July 2018

1 reference

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SAGA and ATAC histone acetyl transferase complexes regulate distinct sets of genes and ATAC defines a class of p300-independent enhancers

12 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4403257

Global epigenetic changes during somatic cell reprogramming to iPS cells

12 July 2018

1 reference

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A new chapter in the transcription SAGA.

12 July 2018

1 reference

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Alternative splicing produces Nanog protein variants with different capacities for self-renewal and pluripotency in embryonic stem cells

12 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4403257

An alternative splicing switch regulates embryonic stem cell pluripotency and reprogramming

12 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4403257

Sgf29 binds histone H3K4me2/3 and is required for SAGA complex recruitment and histone H3 acetylation

12 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4403257

SLAIN2 links microtubule plus end-tracking proteins and controls microtubule growth in interphase

12 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4403257

Wdr5 mediates self-renewal and reprogramming via the embryonic stem cell core transcriptional network

12 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4403257

A germ cell-specific gene, Prmt5, works in somatic cell reprogramming

12 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4403257

A Myc network accounts for similarities between embryonic stem and cancer cell transcription programs

12 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4403257

Differential Roles of Sall4 Isoforms in Embryonic Stem Cell Pluripotency

12 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4403257

Functional genomics reveals a BMP-driven mesenchymal-to-epithelial transition in the initiation of somatic cell reprogramming

12 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4403257

A mesenchymal-to-epithelial transition initiates and is required for the nuclear reprogramming of mouse fibroblasts

12 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4403257

Butyrate promotes induced pluripotent stem cell generation

12 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4403257

Alternative splicing regulates mouse embryonic stem cell pluripotency and differentiation

12 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4403257

Multiple faces of the SAGA complex

12 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4403257

Dynamic transcriptomes during neural differentiation of human embryonic stem cells revealed by short, long, and paired-end sequencing

12 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4403257

Hook3 interacts with PCM1 to regulate pericentriolar material assembly and the timing of neurogenesis

12 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4403257

BEDTools: a flexible suite of utilities for comparing genomic features

12 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4403257

edgeR: a Bioconductor package for differential expression analysis of digital gene expression data

12 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4403257

Use of in vivo biotinylation to study protein-protein and protein-DNA interactions in mouse embryonic stem cells

12 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4403257

TopHat: discovering splice junctions with RNA-Seq

12 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4403257

Ultrafast and memory-efficient alignment of short DNA sequences to the human genome

12 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4403257

piggyBac transposition reprograms fibroblasts to induced pluripotent stem cells

12 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4403257

Role of the murine reprogramming factors in the induction of pluripotency

12 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4403257

The double-histone-acetyltransferase complex ATAC is essential for mammalian development

12 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4403257

Model-based analysis of ChIP-Seq (MACS)

12 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4403257

OCT4 spliced variants are differentially expressed in human pluripotent and nonpluripotent cells.

12 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4403257

An RNAi screen of chromatin proteins identifies Tip60-p400 as a regulator of embryonic stem cell identity.

12 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4403257

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

12 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4403257

Dissecting direct reprogramming through integrative genomic analysis

12 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4403257

An extended transcriptional network for pluripotency of embryonic stem cells

12 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4403257

Developmental potential of Gcn5(-/-) embryonic stem cells in vivo and in vitro.

12 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4403257

Loss of Gcn5 acetyltransferase activity leads to neural tube closure defects and exencephaly in mouse embryos

12 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4403257

Induction of pluripotent stem cells from mouse embryonic and adult fibroblast cultures by defined factors

12 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4403257

Myc influences global chromatin structure.

12 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4403257

Host cell factor and an uncharacterized SANT domain protein are stable components of ATAC, a novel dAda2A/dGcn5-containing histone acetyltransferase complex in Drosophila

12 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4403257

Tissue-specific expression and regulation of the alternatively-spliced forms of lysyl hydroxylase 2 (LH2) in human kidney cells and skin fibroblasts.

12 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4403257

Protocadherin FAT1 binds Ena/VASP proteins and is necessary for actin dynamics and cell polarization.

12 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4403257

Identification of PLOD2 as telopeptide lysyl hydroxylase, an important enzyme in fibrosis

12 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4403257

Identification, expression, and tissue distribution of the three rat lysyl hydroxylase isoforms

12 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4403257

Distinct but overlapping roles of histone acetylase PCAF and of the closely related PCAF-B/GCN5 in mouse embryogenesis

12 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4403257

Loss of Gcn5l2 leads to increased apoptosis and mesodermal defects during mouse development

12 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4403257

Redundant roles for the TFIID and SAGA complexes in global transcription

12 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4403257

The essential cofactor TRRAP recruits the histone acetyltransferase hGCN5 to c-Myc

12 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4403257

A human SPT3-TAFII31-GCN5-L acetylase complex distinct from transcription factor IID

12 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4403257

The novel ATM-related protein TRRAP is an essential cofactor for the c-Myc and E2F oncoproteins

12 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4403257

Yeast Gcn5 functions in two multisubunit complexes to acetylate nucleosomal histones: characterization of an Ada complex and the SAGA (Spt/Ada) complex

12 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4403257

Histone acetyltransferase activity is conserved between yeast and human GCN5 and is required for complementation of growth and transcriptional activation

12 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4403257

Tetrahymena histone acetyltransferase A: a homolog to yeast Gcn5p linking histone acetylation to gene activation

12 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4403257

An activity gel assay detects a single, catalytically active histone acetyltransferase subunit in Tetrahymena macronuclei

12 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4403257

Tet and TDG mediate DNA demethylation essential for mesenchymal-to-epithelial transition in somatic cell reprogramming.

12 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4403257

MBNL1 and RBFOX2 cooperate to establish a splicing programme involved in pluripotent stem cell differentiation.

26 September 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4403257

A late transition in somatic cell reprogramming requires regulators distinct from the pluripotency network.

26 September 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4403257

The H3K27 demethylase Utx regulates somatic and germ cell epigenetic reprogramming.

26 September 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4403257

The metazoan ATAC and SAGA coactivator HAT complexes regulate different sets of inducible target genes

26 September 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4403257

The Gcn5 bromodomain of the SAGA complex facilitates cooperative and cross-tail acetylation of nucleosomes

26 September 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4403257

26 September 2018

Identifiers

DOI

10.1101/GAD.255109.114

1 reference

8 August 2017

1 reference

8 August 2017

1 reference