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Mapping of chromatin architecture and enhancer-promoter interactions in the cochlea

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1. scibot 01 Nov 2025
  
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  DOI: 10.3389/fmolb.2025.1683964
  
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pmc.ncbi.nlm.nih.gov/articles/PMC12568336/
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N6-methyladenosine on L1PA governs the trans-silencing of LTRs and restrains totipotency in naive human embryonic stem cells

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1. scibot 30 Oct 2025
  
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sciencedirect.com/science/article/pii/S1934590925003716
Oct 2025
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Chromatin state dynamics of autosomes and the B chromosome during spermatogenesis in Pseudococcus viburni

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1. scibot 23 Oct 2025
  
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  DOI: 10.1038/s41437-025-00800-x
  
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nature.com/articles/s41437-025-00800-x
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Chromatin-dependent motif syntax defines differentiation trajectories

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1. scibot 03 Oct 2025
  
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  DOI: 10.1016/j.molcel.2025.07.005
  
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pmc.ncbi.nlm.nih.gov/articles/PMC12488066/
Sep 2025
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Menin-MLL1 complex cooperates with NF-Y to promote HCC survival

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1. scibot 25 Sep 2025
  
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pmc.ncbi.nlm.nih.gov/articles/PMC12026816/
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Extrachromosomal DNA associates with nuclear condensates and reorganizes chromatin structures to enhance oncogenic transcription

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  DOI: 10.1016/j.ccell.2025.08.008
  
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sciencedirect.com/science/article/pii/S1535610825003654
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Metabolic Crossroads: AMDHD2 Couples the Hexosamine Biosynthetic Pathway to Acetyl-CoA Homeostasis in Pluripotent Stem Cells

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1. scibot 12 Sep 2025
  
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  DOI: 10.1101/2025.08.20.671247
  
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biorxiv.org/content/10.1101/2025.08.20.671247v1
Aug 2025
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Hepatocyte metabolic adaptations during pregnancy and lactation

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1. scibot 29 Aug 2025
  
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  DOI: 10.1016/j.cell.2025.08.007
  
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sciencedirect.com/science/article/pii/S0092867425009213
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Genetics-nutrition interactions control diurnal enhancer-promoter dynamics and liver lipid metabolism

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1. scibot 26 Aug 2025
  
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  DOI: 10.1016/j.cmet.2025.07.010
  
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cell.com/cell-metabolism/fulltext/S1550-4131(25)00356-0
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Estrogen Receptor Enhancers Sensitive to Low Doses of Hormone Specify Distinct Molecular and Biological Outcomes

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1. scibot 20 Aug 2025
  
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  DOI: 10.1101/2025.08.08.669412
  
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biorxiv.org/content/10.1101/2025.08.08.669412v1
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Composite transposons with bivalent histone marks function as RNA-dependent enhancers in cell fate regulation

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1. scibot 07 Aug 2025
  
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  DOI: 10.1016/j.cell.2025.07.014
  
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sciencedirect.com/science/article/pii/S0092867425008037
Jul 2025
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Multi-omics analysis reveals single-cell meiotic hotspot dynamics and epigenomic regulations in female mammals

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1. scibot 30 Jul 2025
  
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  DOI: 10.1016/j.celrep.2025.116082
  
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sciencedirect.com/science/article/pii/S2211124725008538
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Highly quantitative measurement of differential protein-genome binding with PerCell chromatin sequencing

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1. scibot 20 Jul 2025
  
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  DOI: 10.1016/j.crmeth.2025.101052
  
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cell.com/cell-reports-methods/fulltext/S2667-2375(25)00088-8
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Non-canonical activating roles of RCoR2 sustain transcription in adrenergic neuroblastoma

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1. scibot 15 Jul 2025
  
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  DOI: 10.1016/j.celrep.2025.115951
  
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sciencedirect.com/science/article/pii/S2211124725007223
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Rhabdomyosarcoma fusion oncoprotein initially pioneers a neural signature in vivo

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  DOI: 10.1016/j.celrep.2025.115923
  
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sciencedirect.com/science/article/pii/S2211124725006941
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Epigenetic profiling identifies markers of endocrine resistance and therapeutic options for metastatic castration-resistant prostate cancer

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1. scibot 02 Jul 2025
  
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  DOI: 10.1016/j.xcrm.2025.102215
  
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sciencedirect.com/science/article/pii/S2666379125002885
Jun 2025
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Bivalent chromatin instructs lineage specification during hematopoiesis

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1. scibot 18 Jun 2025
  
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  DOI: 10.1016/j.cell.2025.05.011
  
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sciencedirect.com/science/article/pii/S0092867425005616
May 2025
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The transcription factor IID subunit Taf13 is dispensable for TATA binding protein promoter recruitment and RNA polymerase II transcription

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1. scibot 22 May 2025
  
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  DOI: 10.1016/j.isci.2025.112286
  
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sciencedirect.com/science/article/pii/S2589004225005474
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Epigenetic Plasticity Drives Carcinogenesis and Multi-Therapy Resistance in Multiple Myeloma

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1. scibot 21 May 2025
  
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  DOI: 10.21203/rs.3.rs-6306816/v1
  
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pmc.ncbi.nlm.nih.gov/articles/PMC12048002/
Apr 2025
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DUX-mediated configuration of p300/CBP drives minor zygotic genome activation independent of its catalytic activity

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  DOI: 10.1016/j.celrep.2025.115544
  
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sciencedirect.com/science/article/pii/S2211124725003158
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Identification of the core regulatory program driving NEUROD1-induced neuronal reprogramming

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  DOI: 10.1016/j.celrep.2025.115523
  
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sciencedirect.com/science/article/pii/S2211124725002943
Mar 2025
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PDF-html.html

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  DOI: 10.1101/2025.03.14.643362
  
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52.53.155.43/4904a6ac570ee0a188db9dcfa738bde65420458f/PDF-html.html
Jan 2025
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Mouse totipotent blastomere-like cells model embryogenesis from zygotic genome activation to post implantation

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1. scibot 23 Jan 2025
  
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  DOI: 10.1016/j.stem.2024.12.006
  
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cell.com/cell-stem-cell/fulltext/S1934-5909(24)00446-6
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Acetylation at lysine 27 on maternal H3.3 regulates minor zygotic genome activation

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1. scibot 03 Jan 2025
  
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  DOI: 10.1016/j.celrep.2024.115148
  
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sciencedirect.com/science/article/pii/S2211124724014992
Dec 2024
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The C-terminal PHDVC5HCH tandem domain of NSD2 is a combinatorial reader of unmodified H3K4 and tri-methylated H3K27 that regulates transcription of cell adhesion genes in multiple myeloma

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1. scibot 12 Dec 2024
  
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  DOI: 10.1093/nar/gkae1121
  
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academic.oup.com/nar/advance-article/doi/10.1093/nar/gkae1121/7917111
Nov 2024
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Control of Murine Brown Adipocyte Development by GATA6

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1. scibot 16 Nov 2024
  
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  DOI: 10.1016/j.devcel.2023.08.003
  
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pmc.ncbi.nlm.nih.gov/articles/PMC10842351/
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Transcriptome-scale RNA-targeting CRISPR screens reveal essential lncRNAs in human cells

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1. scibot 14 Nov 2024
  
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  DOI: 10.1016/j.cell.2024.10.021
  
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sciencedirect.com/science/article/pii/S0092867424012030
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FoxA1/2-dependent epigenomic reprogramming drives lineage switching in lung adenocarcinoma

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1. scibot 11 Nov 2024
  
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  DOI: 10.1016/j.devcel.2024.10.009
  
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sciencedirect.com/science/article/pii/S1534580724006282
Oct 2024
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The chromodomain protein CDYL confers forebrain identity to human cortical organoids by inhibiting neuronatin

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sciencedirect.com/science/article/pii/S2211124724011653
Sep 2024
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TGF-β and RAS jointly unmask primed enhancers to drive metastasis

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sciencedirect.com/science/article/pii/S009286742400905X
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GABAergic neuronal lineage development determines clinically actionable targets in diffuse hemispheric glioma, H3G34-mutant

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  DOI: 10.1016/j.ccell.2024.08.006
  
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sciencedirect.com/science/article/pii/S1535610824003052
Aug 2024
www.ncbi.nlm.nih.gov www.ncbi.nlm.nih.gov

Comprehensive Target Engagement by the EZH2 Inhibitor Tulmimetostat Allows for Targeting of ARID1A Mutant Cancers

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1. scibot 18 Aug 2024
  
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  DOI: 10.1158/0008-5472.CAN-24-0398
  
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ncbi.nlm.nih.gov/pmc/articles/PMC11292196/
Apr 2024
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Nuclear RNA homeostasis promotes systems-level coordination of cell fate and senescence

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1. scibot 18 Apr 2024
  
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  DOI: 10.1016/j.stem.2024.03.015
  
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cell.com/cell-stem-cell/fulltext/S1934-5909(24)00096-1
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H3K4me1 facilitates promoter-enhancer interactions and gene activation during embryonic stem cell differentiation

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1. scibot 11 Apr 2024
  
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  DOI: 10.1016/j.molcel.2024.02.030
  
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sciencedirect.com/science/article/pii/S1097276524001710
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SAFB restricts contact domain boundaries associated with L1 chimeric transcription

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1. scibot 11 Apr 2024
  
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  DOI: 10.1016/j.molcel.2024.03.021
  
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EP300/CREBBP acetyltransferase inhibition limits steroid receptor and FOXA1 signaling in prostate cancer cells

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Defining a TFAP2C-centered transcription factor network during murine peri-implantation

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ARID1A orchestrates SWI/SNF-mediated sequential binding of transcription factors with ARID1A loss driving pre-memory B cell fate and lymphomagenesis

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The transcription factor NF-κB orchestrates nucleosome remodeling during the primary response to Toll-like receptor 4 signaling

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EZH2 Inhibition Promotes Tumor Immunogenicity in Lung Squamous Cell Carcinomas

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FOXA1 forms biomolecular condensates that unpack condensed chromatin to function as a pioneer factor

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DNA-guided transcription factor cooperativity shapes face and limb mesenchyme

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A SNAI2/CTCF Interaction is Required for NOTCH1 Expression in Rhabdomyosarcoma

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Adenovirus E1A binding to DCAF10 targets proteasomal degradation of RUVBL1/2 AAA+ ATPases required for quaternary assembly of multiprotein machines, innate immunity, and responses to metabolic stress

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Epigenomic mapping reveals distinct B cell acute lymphoblastic leukemia chromatin architectures and regulators

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Adenovirus E1A binding to DCAF10 targets proteasomal degradation of RUVBL1/2 AAA+ ATPases required for quaternary assembly of multiprotein machines, innate immunity, and responses to metabolic stress

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RANK ligand converts the NCoR/HDAC3 co-repressor to a PGC1β- and RNA-dependent co-activator of osteoclast gene expression

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Stromal cells-specific retinoic acid determines parturition timing at single-cell and spatial-temporal resolution

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Loss of CtBP2 may be a mechanistic link between metabolic derangements and progressive impairment of pancreatic β cell function

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Chromatin accessibility in the Drosophila embryo is determined by transcription factor pioneering and enhancer activation

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Ketolysis drives CD8+ T cell effector function through effects on histone acetylation

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Modeling epigenetic lesions that cause gliomas

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Spatial and clonality-resolved 3D cancer genome alterations reveal enhancer-hijacking as a potential prognostic marker for colorectal cancer

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Dnmt3bas coordinates transcriptional induction and alternative exon inclusion to promote catalytically active Dnmt3b expression

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Impact of supraphysiologic MDM2 expression on chromatin networks and therapeutic responses in sarcoma

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LKB1 controls inflammatory potential through CRTC2-dependent histone acetylation

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Integrative dissection of gene regulatory elements at base resolution

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Escape from oncogene-induced senescence is controlled by POU2F2 and memorized by chromatin scars

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VGLL2-NCOA2 leverages developmental programs for pediatric sarcomagenesis

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Structural elements promote architectural stripe formation and facilitate ultra-long-range gene regulation at a human disease locus

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KDM6A Loss Triggers an Epigenetic Switch That Disrupts Urothelial Differentiation and Drives Cell Proliferation in Bladder Cancer

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Acetylated HOXB13 Regulated Super Enhancer Genes Define Therapeutic Vulnerabilities of Castration-Resistant Prostate Cancer

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Gene silencing dynamics are modulated by transiently active regulatory elements

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Multi-omics profiling visualizes dynamics of cardiac development and functions

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TRIM28 secures skeletal stem cell fate during skeletogenesis by silencing neural gene expression and repressing GREM1/AKT/mTOR signaling axis

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Functional partitioning of transcriptional regulators by patterned charge blocks

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IL-1β expression driven by androgen receptor absence or inactivation promotes prostate cancer bone metastasis

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IL-1β expression driven by androgen receptor absence or inactivation promotes prostate cancer bone metastasis

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BAF complex maintains glioma stem cells in pediatric H3K27M-glioma

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Loss of epigenetic regulation disrupts lineage integrity, induces aberrant alveogenesis and promotes breast cancer

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Chromatin jets define the properties of cohesin-driven in vivo loop extrusion

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Tissue-specific Grb10/Ddc insulator drives allelic architecture for cardiac development

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Global Chromatin Accessibility Profiling Analysis Reveals a Chronic Activation State in Aged Muscle Stem Cells

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ccr-21-3603-html.html

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SOX transcription factors direct TCF-independent WNT/β-catenin responsive transcription to govern cell fate in human pluripotent stem cells

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DNA methyltransferase 3 alpha and TET methylcytosine dioxygenase 2 restrain mitochondrial DNA-mediated interferon signaling in macrophages

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Smarca4 inactivation promotes lineage-specific transformation and early metastatic features in the lung

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Oncofusion-driven de novo enhancer assembly promotes malignancy in Ewing sarcoma via aberrant expression of the stereociliary protein LOXHD1

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Dnmt3a knockout in excitatory neurons impairs postnatal synapse maturation and increases the repressive histone modification H3K27me3

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Alcohol induced increases in sperm Histone H3 lysine 4 trimethylation correlate with increased placental CTCF occupancy and altered developmental programming

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A cell-sorting-based protocol for cell cycle small-scale ChIP sequencing

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The PAF1 complex promotes 3′ processing of pervasive transcripts

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dCas9 fusion to computer-designed PRC2 inhibitor reveals functional TATA box in distal promoter region

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EBF1 nuclear repositioning instructs chromatin refolding to promote therapy resistance in T leukemic cells

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Modeling uniquely human gene regulatory function via targeted humanization of the mouse genome

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Genome-wide identification of the genetic basis of amyotrophic lateral sclerosis

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KDM6B promotes activation of the oncogenic CDK4/6-pRB-E2F pathway by maintaining enhancer activity in MYCN-amplified neuroblastoma

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Lysophosphatidic acid shifts metabolic and transcriptional landscapes to induce a distinct cellular state in human pluripotent stem cells

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A recurrent chromosomal inversion suffices for driving escape from oncogene-induced senescence via subTAD reorganization

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Collective regulation of chromatin modifications predicts replication timing during cell cycle

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TooManyPeaks identifies drug-resistant-specific regulatory elements from single-cell leukemic epigenomes

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JAK inhibitors dampen activation of interferon-activated transcriptomes and the SARS-CoV-2 receptor ACE2 in human renal proximal tubules

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Evidence of pioneer factor activity of an oncogenic fusion transcription factor

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Enhancer decommissioning imposes an epigenetic barrier to sensory hair cell regeneration

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Distal Enhancer Potentiates Activin- and GnRH-Induced Transcription of FSHB

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Hoxc-Dependent Mesenchymal Niche Heterogeneity Drives Regional Hair Follicle Regeneration

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Intron 1-Mediated Regulation of EGFR Expression In EGFR-Dependent Malignancies is Mediated by AP-1 and BET Proteins

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PRDM16 Maintains Homeostasis of the Intestinal Epithelium by Controlling Region-Specific Metabolism

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FSHB Transcription is Regulated by a Novel 5’ Distal Enhancer with a Fertility-Associated Single Nucleotide Polymorphism

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Temporal dissection of an enhancer cluster reveals distinct temporal and functional contributions of individual elements

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Analysis of Genome Architecture during SCNT Reveals a Role of Cohesin in Impeding Minor ZGA

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The Conserved Non-coding Sequences CNS6 and CNS9 Control Cytokine-Induced Rorc Transcription during T Helper 17 Cell Differentiation

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Developmentally Programmed Tankyrase Activity Upregulates β-Catenin and Licenses Progression of Embryonic Genome Activation

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Large-Scale Topological Changes Restrain Malignant Progression in Colorectal Cancer

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Integrated Metabolic and Epigenomic Reprograming by H3K27M Mutations in Diffuse Intrinsic Pontine Gliomas

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Co-condensation between transcription factor and coactivator p300 modulates transcriptional bursting kinetics

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Impact of chromatin context on Cas9-induced DNA double-strand break repair pathway balance

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Epigenomic tensor predicts disease subtypes and reveals constrained tumor evolution

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An optimized protocol for rapid, sensitive and robust on-bead ChIP-seq from primary cells

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Pancreatic progenitor epigenome maps prioritize type 2 diabetes risk genes with roles in development

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Epigenomic Reprogramming toward Mesenchymal-Epithelial Transition in Ovarian-Cancer-Associated Mesenchymal Stem Cells Drives Metastasis

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Sustained TNF-α stimulation leads to transcriptional memory that greatly enhances signal sensitivity and robustness

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ARID1A Mutations Promote P300-Dependent Endometrial Invasion through Super-Enhancer Hyperacetylation

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ARID1A loss in adult hepatocytes activates β-catenin-mediated erythropoietin transcription

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G9a Plays Distinct Roles in Maintaining DNA Methylation, Retrotransposon Silencing, and Chromatin Looping

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Loss of Extreme Long-Range Enhancers in Human Neural Crest Drives a Craniofacial Disorder

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NuRD subunit CHD4 regulates super-enhancer accessibility in rhabdomyosarcoma and represents a general tumor dependency

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MYC Drives Temporal Evolution of Small Cell Lung Cancer Subtypes by Reprogramming Neuroendocrine Fate

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Niche-Specific Reprogramming of Epigenetic Landscapes Drives Myeloid Cell Diversity in Nonalcoholic Steatohepatitis

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Systematic perturbation of retroviral LTRs reveals widespread long-range effects on human gene regulation

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ZBTB1 Regulates Asparagine Synthesis and Leukemia Cell Response to L-Asparaginase

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MEIOSIN Directs the Switch from Mitosis to Meiosis in Mammalian Germ Cells

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Circadian Entrainment Triggers Maturation of Human In Vitro Islets

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PRDM16 Maintains Homeostasis of the Intestinal Epithelium by Controlling Region-Specific Metabolism

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Histone Variant and Cell Context Determine H3K27M Reprogramming of the Enhancer Landscape and Oncogenic State

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Genomic Decoding of Neuronal Depolarization by Stimulus-Specific NPAS4 Heterodimers

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The Leukemogenic TCF3-HLF Complex Rewires Enhancers Driving Cellular Identity and Self-Renewal Conferring EP300 Vulnerability

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HUMAN TROPHOBLAST DIFFERENTIATION IS ASSOCIATED WITH PROFOUND GENE REGULATORY AND EPIGENETIC CHANGES

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A C19MC-LIN28A-MYCN Oncogenic Circuit Driven by Hijacked Super-enhancers Is a Distinct Therapeutic Vulnerability in ETMRs: A Lethal Brain Tumor

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FOXA2 Is Required for Enhancer Priming during Pancreatic Differentiation

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Recapitulation and Reversal of Schizophrenia-Related Phenotypes in Setd1a-Deficient Mice

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Untitled document

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Oncogenic Notch Promotes Long-Range Regulatory Interactions within Hyperconnected 3D Cliques

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Widespread Enhancer Dememorization and Promoter Priming during Parental-to-Zygotic Transition

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Targeting Epigenetic Crosstalk as a Therapeutic Strategy for EZH2-Aberrant Solid Tumors

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Increased Lactate Secretion by Cancer Cells Sustains Non-cell-autonomous Adaptive Resistance to MET and EGFR Targeted Therapies

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Combinatorial CRISPR/Cas9 Approach to Elucidate a Far-Upstream Enhancer Complex for Tissue-Specific Sox9 Expression

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Transcription Elongation Can Affect Genome 3D Structure

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Inosine Monophosphate Dehydrogenase Dependence in a Subset of Small Cell Lung Cancers

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AMPK/FIS1-Mediated Mitophagy Is Required for Self-Renewal of Human AML Stem Cells

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Lineage-Determining Transcription Factor TCF-1 Initiates the Epigenetic Identity of T Cells

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SETD7 Drives Cardiac Lineage Commitment through Stage-Specific Transcriptional Activation

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Warming Induces Significant Reprogramming of Beige, but Not Brown, Adipocyte Cellular Identity

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The Adenovirus E1A C Terminus Suppresses a Delayed Antiviral Response and Modulates RAS Signaling

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Dual Targeting of Oncogenic Activation and Inflammatory Signaling Increases Therapeutic Efficacy in Myeloproliferative Neoplasms

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Untitled document

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Type 2 Diabetes Variants Disrupt Function of SLC16A11 through Two Distinct Mechanisms

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Mll3 and Mll4 Facilitate Enhancer RNA Synthesis and Transcription from Promoters Independently of H3K4 Monomethylation

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Transcriptional Dependencies in Diffuse Intrinsic Pontine Glioma

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Metazoan Nuclear Pores Provide a Scaffold for Poised Genes and Mediate Induced Enhancer-Promoter Contacts

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Resolving Heart Regeneration by Replacement Histone Profiling

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Adaptive Chromatin Remodeling Drives Glioblastoma Stem Cell Plasticity and Drug Tolerance

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RNA Binding to CBP Stimulates Histone Acetylation and Transcription

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Histone Acetylome-wide Association Study of Autism Spectrum Disorder

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