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Transient gene melting governs the timing of oligodendrocyte maturation

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1. scibot 26 Aug 2025
  
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  DOI: 10.1016/j.cell.2025.07.039
  
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Aug 2025
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Genetic and Epigenetic Reprogramming of Transposable Elements Drives ecDNA-Mediated Metastatic Prostate Cancer

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1. scibot 20 Aug 2025
  
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  DOI: 10.1101/2025.08.08.668693
  
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Interplay of YEATS2 and GCDH regulates histone crotonylation and drives EMT in head and neck cancer

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1. scibot 16 Aug 2025
  
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  DOI: 10.7554/eLife.103321
  
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NSD2 inhibitors rewire chromatin to treat lung and pancreatic cancers

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1. scibot 13 Aug 2025
  
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  DOI: 10.1038/s41586-025-09299-y
  
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Combining Multiplexed CRISPR/Cas9-Nickase and PARP Inhibitors Efficiently and Precisely Targets Cancer Cells

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1. scibot 05 Aug 2025
  
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  DOI: 10.1158/0008-5472.CAN-24-2938
  
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pmc.ncbi.nlm.nih.gov/articles/PMC12314522/
Jul 2025
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Human brain vascular multi-omics elucidates disease-risk associations

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1. scibot 29 Jul 2025
  
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  DOI: 10.1016/j.neuron.2025.07.001
  
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β-catenin functions as a molecular adapter for disordered cBAF interactions

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1. scibot 22 Jul 2025
  
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MyoD is Essential in Rhabdomyosarcoma by Promoting Survival Through Differentiation and CYLD

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1. scibot 22 Jul 2025
  
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  DOI: 10.1016/j.isci.2025.113149
  
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52.53.155.43/383127a3ba30f18153ba559aaeac9e14b54b55e6/1-s2.0-S2589004225014105-main-html.html
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Multiomics uncovers the epigenomic and transcriptomic response to viral and bacterial stimulation in turbot

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1. scibot 17 Jul 2025
  
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  DOI: 10.1093/gigascience/giaf077
  
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TAF1 is required for fetal but not adult hematopoiesis in mice

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1. scibot 17 Jul 2025
  
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  DOI: 10.1016/j.devcel.2025.06.027
  
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Plasma epigenomic profiling reveals treatment-emergent squamous transformation in prostate cancer

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1. scibot 15 Jul 2025
  
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  DOI: 10.1038/s41698-025-01031-3
  
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1-s2.0-S0016508525057324-main-html.html

1
1. scibot 08 Jul 2025
  
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  DOI: 10.1053/j.gastro.2025.07.003
  
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Recessive epistasis of a synonymous mutation confers cucumber domestication through epitranscriptomic regulation

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1. scibot 02 Jul 2025
  
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  DOI: 10.1016/j.cell.2025.06.007
  
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Jun 2025
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Altered cofactor recruitment and nucleosome dynamics underlie bisphenol A’s impact on ERα-mediated transcriptional bursting

1
1. scibot 28 Jun 2025
  
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  DOI: 10.1016/j.isci.2025.112864
  
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Satb1 directs the differentiation of TH17 cells through suppression of IL-2 expression

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1. scibot 18 Jun 2025
  
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  DOI: 10.1016/j.celrep.2025.115866
  
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1. scibot 13 Jun 2025
  
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  DOI: 10.1158/2159-8290.cd-24-1033
  
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2. scibot 12 Jun 2025
  
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  DOI: 10.1158/2159-8290.cd-24-1033
  
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52.53.155.43/a7ee3b12d468dfb2dd9f5d25a6280eb2adf38466/PDF-html.html
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Xist RNA binds select autosomal genes and depends on Repeat B to regulate their expression

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1. scibot 12 Jun 2025
  
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  DOI: 10.7554/eLife.101197
  
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1-s2.0-S2589004225011162-main-html.html

1
1. scibot 11 Jun 2025
  
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  DOI: 10.1016/j.isci.2025.112855
  
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The human proteome with direct physical access to DNA

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1. scibot 10 Jun 2025
  
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  RRID:SCR_01329
  
  DOI: 10.1016/j.cell.2025.04.037
  
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May 2025
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Mediator regulates transcriptional termination through crosstalk with pre-mRNA 3′ end processing factors

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1. scibot 29 May 2025
  
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  DOI: 10.1016/j.molcel.2025.05.006
  
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Multimodal analyses reveal genes driving electrophysiological maturation of neurons in the primate prefrontal cortex

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  DOI: 10.1016/j.neuron.2025.04.025
  
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MCRS1 sensitizes T cell–dependent immunotherapy by augmenting MHC-I expression in solid tumors

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1. scibot 19 May 2025
  
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  DOI: 10.1084/jem.20240959
  
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DNA methyltransferase 1 modulates mitochondrial function through bridging m5C RNA methylation

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1. scibot 18 May 2025
  
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  DOI: 10.1016/j.molcel.2025.04.019
  
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CHAS infers cell type-specific signatures in bulk brain histone acetylation studies of neurological and psychiatric disorders

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1. scibot 17 May 2025
  
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  DOI: 10.1016/j.crmeth.2025.101032
  
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Apr 2025
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Interspecific hybridization in Brassica species leads to changes in agronomic traits through the regulation of gene expression by chromatin accessibility and DNA methylation

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1. scibot 24 Apr 2025
  
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  DOI: 10.1093/gigascience/giaf029
  
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Intestinal secretory differentiation reflects niche-driven phenotypic and epigenetic plasticity of a common signal-responsive terminal cell

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1. scibot 09 Apr 2025
  
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Sex differences in DNMT3A-mutant clonal hematopoiesis and the effects of estrogen

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  DOI: 10.1016/j.celrep.2025.115494
  
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Mar 2025
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Orchestration of pluripotent stem cell genome reactivation during mitotic exit

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  DOI: 10.1016/j.celrep.2025.115486
  
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Zinc finger homeobox-3 (ZFHX3) orchestrates genome-wide daily gene expression in the suprachiasmatic nucleus

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  DOI: 10.7554/eLife.102019
  
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  DOI: 10.1101/2025.03.14.643362
  
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The carnosinase dipeptidase CNDP1 is a novel metabolic vulnerability in brain metastasis

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  DOI: 10.1101/2025.03.18.644053
  
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Glucose modulates IRF6 transcription factor dimerization to enable epidermal differentiation

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  DOI: 10.1016/j.stem.2025.02.017
  
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cell.com/cell-stem-cell/fulltext/S1934-5909(25)00088-8
Feb 2025
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Fusion oncoproteins and cooperating mutations define disease phenotypes in NUP98-rearranged leukemia

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1. scibot 27 Feb 2025
  
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  DOI: 10.1101/2025.01.21.25320683
  
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Pcf11/Spt5 condensates stall RNA polymerase II to facilitate termination and piRNA-guided heterochromatin formation

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1. scibot 27 Feb 2025
  
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  DOI: 10.1016/j.molcel.2025.01.023
  
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Systematic characterization of p53-regulated long non-coding RNAs across human cancers reveals remarkable heterogeneity among different tumor types

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  DOI: 10.1158/1541-7786.MCR-23-0295
  
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Epigenome reprogramming through H3K27 and H3K4 trimethylation as a resistance mechanism to DNA methylation inhibition in BRAFV600E-mutated colorectal cancer

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Histone H4 acetylation differentially modulates proliferation in adult oligodendrocyte progenitors

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FOXR2 Targets LHX6+/DLX+ Neural Lineages to Drive Central Nervous System Neuroblastoma

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KDM6B-dependent epigenetic programming of uterine fibroblasts in early pregnancy regulates parturition timing in mice

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BPDCN MYB fusions regulate cell cycle genes, impair differentiation, and induce myeloid–dendritic cell leukemia

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3D chromatin hubs as regulatory units of identity and survival in human acute leukemia

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ZNF143 is a transcriptional regulator of nuclear-encoded mitochondrial genes that acts independently of looping and CTCF

1
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PAD2-Mediated Citrullination Contributes to Efficient Oligodendrocyte Differentiation and Myelination

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Epigenetic and Oncogenic Inhibitors Cooperatively Drive Differentiation and Kill KRAS-Mutant Colorectal Cancers

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can-24-2248-html.html

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HOXDeRNA activates a cancerous transcription program and super enhancers via genome-wide binding

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Streamlined regulation of chloroplast development in the liverwort Marchantia polymorpha

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Detecting Small Cell Transformation in Patients with Advanced EGFR Mutant Lung Adenocarcinoma through Epigenomic cfDNA Profiling

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Characterizing Relationships between T-cell Inflammation and Outcomes in Patients with High-Risk Neuroblastoma According to Mesenchymal and Adrenergic Signatures

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CRISPR screening uncovers a long-range enhancer for ONECUT1 in pancreatic differentiation and links a diabetes risk variant

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Members of an array of zinc-finger proteins specify distinct Hox chromatin boundaries

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HLTF resolves G4s and promotes G4-induced replication fork slowing to maintain genome stability

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A replisome-associated histone H3-H4 chaperone required for epigenetic inheritance

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Innate immune training restores pro-reparative myeloid functions to promote remyelination in the aged central nervous system

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MYB-related transcription factors control chloroplast biogenesis

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Rapid Dynamics of Signal-Dependent Transcriptional Repression by Capicua

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The TERT Promoter is Polycomb-Repressed in Neuroblastoma Cells with Long Telomeres

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A chronic signaling TGFb zebrafish reporter identifies immune response in melanoma

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Diversifying the anthracycline class of anti-cancer drugs identifies aclarubicin for superior survival of acute myeloid leukemia patients

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Heterochromatic 3D genome organization is directed by HP1a- and H3K9-dependent and independent mechanisms

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Reciprocal conversion between annual and polycarpic perennial flowering behavior in the Brassicaceae

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ZNF143 is a transcriptional regulator of nuclear-encoded mitochondrial genes that acts independently of looping and CTCF

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mcr-23-0295-html.html

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T-bet deficiency and Hic1 induction override TGF-β-dependency in the formation of CD103+ intestine-resident memory CD8+ T cells

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Osr2 functions as a biomechanical checkpoint to aggravate CD8+ T cell exhaustion in tumor

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Transcription factor dynamics, oscillation, and functions in human enteroendocrine cell differentiation

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The MYCN oncoprotein is an RNA-binding accessory factor of the nuclear exosome targeting complex

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MECP2 directly interacts with RNA polymerase II to modulate transcription in human neurons

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Enhanced bovine genome annotation through integration of transcriptomics and epi-transcriptomics datasets facilitates genomic biology

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Class I HDAC inhibitors enhance antitumor efficacy and persistence of CAR-T cells by activation of the Wnt pathway

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A senescence restriction point acting on chromatin integrates oncogenic signals

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STAT3 couples activated tyrosine kinase signaling to the oncogenic core transcriptional regulatory circuitry of anaplastic large cell lymphoma

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From degraded to deciphered: ATAC-seq’s application potential in forensic diagnosis

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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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Mitochondrial isocitrate dehydrogenase impedes CAR T cell function by restraining antioxidant metabolism and histone acetylation

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The EstroGene database reveals diverse temporal, context-dependent, and bidirectional estrogen receptor regulomes in breast cancer

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SLAM-ITseq identifies that Nrf2 induces liver regeneration through the pentose phosphate pathway

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A Mutation-driven oncofetal regression fuels phenotypic plasticity in colorectal cancer

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Parkinson’s Disease Risk Enhancers in Microglia

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The androgen receptor interacts with GATA3 to transcriptionally regulate a luminal epithelial cell phenotype in breast cancer

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Genome-wide p63-target gene analyses reveal TAp63/NRF2-dependent oxidative stress responses

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Development of sexual dimorphism of skeletal muscles through the adrenal cortex, caused by androgen-induced global gene suppression

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Cell-type-directed design of synthetic enhancers

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PRDM3/16 Regulate Chromatin Accessibility Required for NKX2-1 Mediated Alveolar Epithelial Differentiation and Function

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Genomic exploration of the targets of FOXL2 and ESR2 unveils their implication in cell migration, invasion, and adhesion

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Inherited blood cancer predisposition through altered transcription elongation

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An exhausted-like microglial population accumulates in aged and APOE4 genotype Alzheimer’s brains

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Mitochondrial isocitrate dehydrogenase impedes CAR T cell function by restraining antioxidant metabolism and histone acetylation

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Multi-omics integration identifies cell-state-specific repression by PBRM1-PIAS1 cooperation

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Leveraging tissue-specific enhancer-target gene regulatory networks identifies enhancer somatic mutations that functionally impact lung cancer

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Pluripotency state transition of embryonic stem cells requires the turnover of histone chaperone FACT on chromatin

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Integrated multi-omics profiling to dissect the spatiotemporal evolution of metastatic hepatocellular carcinoma

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Blimp-1 and c-Maf regulate Il10 and negatively regulate common and unique proinflammatory gene networks in IL-12 plus IL-27-driven T helper-1 cells

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A single-cell multi-omic atlas spanning the adult rhesus macaque brain

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can-23-1129-html.html

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Selective inhibition of CDK9 in triple negative breast cancer

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Blimp-1 and c-Maf regulate Il10 and negatively regulate common and unique proinflammatory gene networks in IL-12 plus IL-27-driven T helper-1 cells

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Tissue-specific and tissue-agnostic effects of genome sequence variation modulating blood pressure

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Active maintenance of CD8+ T cell naivety through regulation of global genome architecture

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Loss of succinyl-CoA synthetase in mouse forebrain results in hypersuccinylation with perturbed neuronal transcription and metabolism

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A single-cell multi-omic atlas spanning the adult rhesus macaque brain

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TET2 lesions enhance the aggressiveness of CEBPA-mutant acute myeloid leukemia by rebalancing GATA2 expression

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Acquisition of Neural Fate by Combination of BMP Blockade and Chromatin Modification

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Perturbations in 3D genome organization can promote acquired drug resistance

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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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Aberrant accumulation of Kras-dependent pervasive transcripts during tumor progression renders cancer cells dependent on PAF1 expression

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The stability of the myelinating oligodendrocyte transcriptome is regulated by the nuclear lamina

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Pharmacological HDAC inhibition impairs pancreatic β-cell function through an epigenome-wide reprogramming

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Prenatal Δ9-tetrahydrocannabinol exposure in males leads to motivational disturbances related to striatal epigenetic dysregulation

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Low-level repressive histone marks fine-tune gene transcription in neural stem cells

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DOT1L bridges transcription and heterochromatin formation at mammalian pericentromeres

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5-Azacytidine- and retinoic-acid-induced reprogramming of DCCs into dormancy suppresses metastasis via restored TGF-β-SMAD4 signaling

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Developmental dynamics of chromatin accessibility during post-implantation development of monkey embryos

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bqad083-html.html

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Apr 2023
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Comprehensive epigenomic profiling reveals the extent of disease-specific chromatin states and informs target discovery in ankylosing spondylitis

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Novel enhancers conferring compensatory transcriptional regulation of Nkx2-5 in heart development

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Complementary gene regulation by NRF1 and NRF2 protects against hepatic cholesterol overload

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Elevated enhancer-oncogene contacts and higher oncogene expression levels by recurrent CTCF inactivating mutations in acute T cell leukemia

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Active maintenance of CD8+ T cell naïvety through regulation of global genome architecture

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SWI/SNF Blockade Disrupts PU.1-Directed Enhancer Programs in Normal Hematopoietic Cells and Acute Myeloid Leukemia

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Asparagine starvation suppresses histone demethylation through iron depletion

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Stepwise activities of mSWI/SNF family chromatin remodeling complexes direct T cell activation and exhaustion

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Jarid2 promotes temporal progression of retinal progenitors via repression of Foxp1

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MeCP2 regulates Gdf11, a dosage-sensitive gene critical for neurological function

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Genome-wide epigenetic and mRNA-expression profiling followed by CRISPR/Cas9-mediated gene-disruptions corroborate the MIR141/MIR200C-ZEB1/ZEB2-FGFR1 axis in acquired EMT-associated EGFR TKI-resistance in NSCLC cells

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Loss of PBRM1 alters promoter histone modifications and activates ALDH1A1 to drive renal cell carcinoma

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SMN promotes mitochondrial metabolic maturation during myogenesis by regulating the MYOD-miRNA axis

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Prevalent and dynamic binding of the cell cycle checkpoint kinase Rad53 to gene promoters

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BAF complex maintains glioma stem cells in pediatric H3K27M-glioma

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Nov 2022
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Tip60-mediated H2A.Z acetylation promotes neuronal fate specification and bivalent gene activation

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Essential role of MESP1-RING1A complex in cardiac differentiation

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Transcription factor antagonism regulates heterogeneity in embryonic stem cell states

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Oct 2022
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CircIPO7 Promotes Nasopharyngeal Carcinoma Metastasis and Cisplatin Chemoresistance by Facilitating YBX1 Nuclear Localization

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A cis-regulatory lexicon of DNA motif combinations mediating cell-type-specific gene regulation

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In Vivo Genome-Wide CRISPR Activation Screening Identifies Functionally Important Long Noncoding RNAs in Hepatocellular Carcinoma

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STAG2 promotes the myelination transcriptional program in oligodendrocytes

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Intracellular cholesterol pools regulate oncogenic signaling and epigenetic circuitries in Early T-cell Precursor Acute Lymphoblastic Leukemia

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Npas3 deficiency impairs cortical astrogenesis and induces autistic-like behaviors

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SMNDC1 links chromatin remodeling and splicing to regulate pancreatic hormone expression

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Inflammaging is driven by upregulation of innate immune receptors and systemic interferon signaling and is ameliorated by dietary restriction

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Direct epitranscriptomic regulation of mammalian translation initiation through N4-acetylcytidine

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JAZF1-SUZ12 dysregulates PRC2 function and gene expression during cell differentiation

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Mediator recruits the cohesin loader Scc2 to RNA Pol II-transcribed genes and promotes sister chromatid cohesion

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Oct4 differentially regulates chromatin opening and enhancer transcription in pluripotent stem cells

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An adult-stage transcriptional program for survival of serotonergic connectivity

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HNF4A modulates glucocorticoid action in the liver

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Presence of H3K4me3 on Paternally Expressed Genes of the Paternal Genome From Sperm to Implantation

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Novel insights from a multiomics dissection of the Hayflick limit

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Placental uptake and metabolism of 25(OH)vitamin D determine its activity within the fetoplacental unit

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EP300 Selectively Controls the Enhancer Landscape of MYCN-Amplified Neuroblastoma

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A test of the pioneer factor hypothesis using ectopic liver gene activation

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A genetic compensatory mechanism regulated by Jun and Mef2d modulates the expression of distinct class IIa Hdacs to ensure peripheral nerve myelination and repair

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HiCAR is a robust and sensitive method to analyze open-chromatin-associated genome organization

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

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Simultaneous cellular and molecular phenotyping of embryonic mutants using single-cell regulatory trajectories

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Uncovering the mesendoderm gene regulatory network through multi-omic data integration

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Dynamic chromatin state profiling reveals regulatory roles of auxin and cytokinin in shoot regeneration

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Establishment of developmental gene silencing by ordered polycomb complex recruitment in early zebrafish embryos

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Multimodal regulatory elements within a hormone-specific super enhancer control a heterogeneous transcriptional response

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PRC1 sustains the integrity of neural fate in the absence of PRC2 function

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Enhancer RNA Expression in Response to Glucocorticoid Treatment in Murine Macrophages

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Heat shock factor 1 (HSF1) cooperates with estrogen receptor α (ERα) in the regulation of estrogen action in breast cancer cells

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MAP3K7 loss drives enhanced androgen signaling and independently confers risk of recurrence in prostate cancer with joint loss of CHD1

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PEGS: An efficient tool for gene set enrichment within defined sets of genomic intervals

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MYC assembles and stimulates topoisomerases 1 and 2 in a “topoisome”

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Parity-induced changes to mammary epithelial cells control NKT cell expansion and mammary oncogenesis

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Altered H3 histone acetylation impairs high-fidelity DNA repair to promote cerebellar degeneration in spinocerebellar ataxia type 7

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Identification of a novel FUS/ETV4 fusion and comparative analysis with other Ewing sarcoma fusion proteins

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Kr-h1 maintains distinct caste-specific neurotranscriptomes in response to socially regulated hormones

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Acute depletion of the ARID1A subunit of SWI/SNF complexes reveals distinct pathways for activation and repression of transcription

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BPS Publications

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  DOI: 10.1002/prp2.749
  
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DREAM represses distinct targets by cooperating with different THAP domain proteins

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A transcriptomic and epigenomic cell atlas of the mouse primary motor cortex

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  DOI: 10.1038/s41586-021-03500-8
  
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PIWI-mediated control of tissue-specific transposons is essential for somatic cell differentiation

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Spt4 facilitates the movement of RNA polymerase II through the +2 nucleosomal barrier

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H3K4 di-methylation governs smooth muscle lineage identity and promotes vascular homeostasis by restraining plasticity

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SATB2 preserves colon stem cell identity and mediates ileum-colon conversion via enhancer remodeling

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Leveraging the Mendelian disorders of the epigenetic machinery to systematically map functional epigenetic variation

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SPT5 stabilizes RNA polymerase II, orchestrates transcription cycles, and maintains the enhancer landscape

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Multiplatform discovery and regulatory function analysis of structural variations in non-small cell lung carcinoma

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Nascent transcript and single-cell RNA-seq analysis defines the mechanism of action of the LSD1 inhibitor INCB059872 in myeloid leukemia

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Genome-wide and sister chromatid-resolved profiling of protein occupancy in replicated chromatin with ChOR-seq and SCAR-seq

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A composite DNA element that functions as a maintainer required for epigenetic inheritance of heterochromatin

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Glucocorticoid Receptor–Tethered Mineralocorticoid Receptors Increase Glucocorticoid-Induced Transcriptional Responses

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Untitled document

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The Polycomb-Dependent Epigenome Controls β Cell Dysfunction, Dedifferentiation, and Diabetes

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  DOI: 10.1016/j.cmet.2018.04.013
  
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Evolution of reduced co-activator dependence led to target expansion of a starvation response pathway

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Untitled document

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