4.8 Article

An alternative NURF complex sustains acute myeloid leukemia by regulating the accessibility of insulator regions

相关参考文献

注意:仅列出部分参考文献,下载原文获取全部文献信息。
Review Biochemistry & Molecular Biology

Choosing the Right Cell Line for Acute Myeloid Leukemia (AML) Research

Rafal Skopek et al.

Summary: Choosing the appropriate cell line is crucial for AML research, considering factors such as specific markers, genetic abnormalities, karyotype, and mutational profile.

INTERNATIONAL JOURNAL OF MOLECULAR SCIENCES (2023)

Article Oncology

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

Courtney Chambers et al.

Summary: In acute myeloid leukemia (AML), SWI/SNF chromatin remodeling complexes sustain leukemic identity by driving high levels of MYC. PU.1 binds to most of its targets in a SWI/SNF-independent manner and recruits SWI/SNF to promote accessibility for other AML core regulatory factors. SWI/SNF inhibition induces therapeutic response in AML but also impairs PU.1-dependent B-cell and monocyte populations, revealing the on-and off-tumor effects of SWI/SNF blockade.

CANCER RESEARCH (2023)

Article Chemistry, Medicinal

Discovery of a Chemical Probe to Study Implications of BPTF Bromodomain Inhibition in Cellular and in vivo Experiments

Paola Martinelli et al.

Summary: In this study, a potent and selective chemical probe targeting the bromodomain of BPTF was discovered, which has an attractive pharmacokinetic profile enabling cellular and in vivo experiments in mice. Transcriptomic analysis showed minor effects on the transcriptome when the probe was present in lung cancer cell lines. The antiproliferative effect was found to be independent of BPTF dependency score in depletion screens, suggesting that protein depletion using PROTACs could be a promising strategy to target cancer cell proliferation. The chemical probe and related negative control presented in this study will facilitate further exploration of scientific hypotheses related to BPTF bromodomain inhibition.

CHEMMEDCHEM (2023)

Article Biochemistry & Molecular Biology

Distinct layers of BRD4-PTEFb reveal bromodomain-independent function in transcriptional regulation

Bin Zheng et al.

Summary: Bromodomains of BRD4 are not necessary for Pol II pause release, instead, a C-terminal motif that interacts with PTEFb is both necessary and sufficient for this function.

MOLECULAR CELL (2023)

Article Oncology

Exquisite Sensitivity to Dual BRG1/BRMATPase Inhibitors Reveals Broad SWI/SNF Dependencies in Acute Myeloid Leukemia

Florencia Rago et al.

Summary: Various subunits of mammalian SWI/SNF chromatin remodeling complexes display loss-of-function mutations characteristic of tumor suppressors in different cancers, indicating their importance in cancer development. In this study, the researchers found that hematopoietic cancer cell lines were particularly sensitive to dual BRG1/BRM ATPase inhibitors compared to other cancer cell lines. They also discovered that the combined knockdown of BRG1 and BRM was necessary to replicate the effects of the dual inhibitors, suggesting that SWI/SNF dependency in human leukemia is not solely driven by BRG1. Additionally, the researchers identified specific genomic loci associated with oncogenic transcription factors that were targeted by the dual inhibitors, resulting in the downregulation of leukemic pathway genes.

MOLECULAR CANCER RESEARCH (2022)

Article Oncology

BPTF activates the MAPK pathway through coexpression with Raf1 to promote proliferation of T-cell lymphoma

Dongyu Bai et al.

Summary: The aim of this study was to investigate the role and function of BPTF in T-cell lymphoma. The results showed that BPTF and Raf1 were overexpressed in T-cell lymphoma tissues and promoted MAPK pathway activation. Silencing BPTF or Raf1 inhibited cell proliferation and induced apoptosis. These findings suggest that BPTF may serve as a novel therapeutic target in T-cell lymphoma.

ONCOLOGY LETTERS (2022)

Article Oncology

Targeting BPTF Sensitizes Pancreatic Ductal Adenocarcinoma to Chemotherapy by Repressing ABC-Transporters and Impairing Multidrug Resistance (MDR)

Raul Munoz Velasco et al.

Summary: This study explores the role of the chromatin remodeler BPTF in pancreatic ductal adenocarcinoma (PDA). The findings suggest that reducing BPTF levels can inhibit cell proliferation and migration in PDA, as well as enhance the therapeutic effect of gemcitabine. The study also reveals that BPTF is required for c-MYC recruitment to the promoter of ABC-transporters, which affects gemcitabine accumulation in tumor cells and DNA damage.

CANCERS (2022)

Article Multidisciplinary Sciences

Decoding the spatial chromatin organization and dynamic epigenetic landscapes of macrophage cells during differentiation and immune activation

Da Lin et al.

Summary: We developed a single-cell Hi-C method to investigate the 3D genome and dynamic epigenetic atlas of macrophages during differentiation and immunoresponse. We found that the degree of disorder is correlated with chromatin epigenetic states, gene expression, and chromatin structure variability. NF-kappa B was identified to initiate systematic chromatin conformation reorganization upon Mycobacterium tuberculosis infection. Integration of Hi-C, eQTL, and GWAS analysis revealed the long-range target genes of mycobacterial disease susceptible loci, including a potential anti-tuberculosis drug candidate.

NATURE COMMUNICATIONS (2022)

Article Biochemistry & Molecular Biology

Upregulation of bromodomain PHD finger transcription factor in ovarian cancer and its critical role for cancer cell proliferation and survival

Juan Miao et al.

Summary: BPTF, a core subunit of the nucleosome-remodeling factor complex, is highly expressed in OC cell lines and tissues, correlating with a poor prognosis for patient survival. It affects OC cell proliferation, migration, invasiveness, and apoptosis through modulation of multiple signaling pathways. BPTF acts as a potential therapeutic target for OC.

BIOCHEMISTRY AND CELL BIOLOGY (2021)

Review Oncology

The emerging role of ISWI chromatin remodeling complexes in cancer

Yanan Li et al.

Summary: The ISWI family, essential ATP-dependent chromatin remodeling complexes, play crucial roles in cancer development. Aberrant expression of ISWI family members is closely associated with patient prognosis and drug response. Functional or componential alterations in ISWI-containing complexes are critical for tumor initiation and development.

JOURNAL OF EXPERIMENTAL & CLINICAL CANCER RESEARCH (2021)

Review Genetics & Heredity

BAZ1B the Protean Protein

Shahin Behrouz Sharif et al.

Summary: The protein BAZ1B, encoded by the WBSCR9 gene, is associated with Williams syndrome, leading to a range of symptoms. Studies suggest that BAZ1B hemizygosity may contribute to some phenotypes, with roles in chromatin remodeling, DNA replication and repair.
Review Biochemistry & Molecular Biology

Opportunity knocks for uncovering the new function of an understudied nucleosome remodeling complex member, the bromodomain PHD finger transcription factor, BPTF

Huda Zahid et al.

Summary: Nucleosome remodeling is crucial for gene expression and has been linked to cancer. BPTF, the largest member of the NURF complex, is identified as a protumorigenic factor, leading to investigations into its molecular mechanisms and potential therapeutic interventions. Despite a druggable bromodomain, research on small molecule inhibitors for BPTF is still in its early stages.

CURRENT OPINION IN CHEMICAL BIOLOGY (2021)

Article Chemistry, Medicinal

Discovery of High-Affinity Inhibitors of the BPTF Bromodomain

Tian Lu et al.

Summary: A new BPTF-BRD inhibitor, DC-BPi-03, was identified with moderate potency, and further structural modifications led to the discovery of two inhibitors, DC-BPi-07 and DC-BPi-11, with much higher affinities. These inhibitors showed 100-fold selectivities over other BRD targets, and the cocrystal structures demonstrated the rationale behind the chemical efforts at atomic level. DC-BPi-11 was notably effective in inhibiting leukemia cell proliferation.

JOURNAL OF MEDICINAL CHEMISTRY (2021)

Article Biochemical Research Methods

Protocol Generation of locus-specific degradable tag knock-ins in mouse and human cell lines

Helene Damhofer et al.

Summary: Protein degradation technologies, such as CRISPR-Cas9, allow for efficient depletion of target proteins by knocking in degradation tags into both endogenous alleles. This step-by-step protocol demonstrates the generation of biallelic degradation tag knock-ins in mouse and human cell lines, with a specific example provided for mouse embryonic stem cells. For detailed instructions, refer to the study by Radzisheuskaya et al. (2021).

STAR PROTOCOLS (2021)

Article Oncology

Superior efficacy of co-targeting GFI1/KDM1A and BRD4 against AML and post-MPN secondary AML cells

Warren Fiskus et al.

Summary: The study demonstrates the potential of targeting GFI1/LSD1, BRD4, MOZ, HDAC3, and DOT1L to improve outcomes in AML and MPN sAML cells. Combination therapy of LSD1i and JAKi ruxolitinib shows synergistic lethality in post-MPN sAML cells, with LSD1i pre-treatment overcoming nongenetic resistance to ruxolitinib or BETi. This highlights the importance of LSD1i-based combination therapy in overcoming nongenetic therapy-resistance in AML and post-MPN sAML.

BLOOD CANCER JOURNAL (2021)

Article Biochemistry & Molecular Biology

Chromatin remodellers Brg1 and Bptf are required for normal gene expression and progression of oncogenic Braf-driven mouse melanoma

Patrick Laurette et al.

CELL DEATH AND DIFFERENTIATION (2020)

Article Biochemistry & Molecular Biology

BPTF regulates growth of adult and pediatric high-grade glioma through the MYC pathway

Adam L. Green et al.

ONCOGENE (2020)

Article Biochemistry & Molecular Biology

Bptf determines oncogenic addiction in aggressive B-cell lymphomas

Laia Richart et al.

ONCOGENE (2020)

Review Biochemistry & Molecular Biology

The Self-Organizing Genome: Principles of Genome Architecture and Function

Tom Misteli

Review Genetics & Heredity

Mammalian SWI/SNF Chromatin Remodeling Complexes: Emerging Mechanisms and Therapeutic Strategies

Richard C. Centore et al.

TRENDS IN GENETICS (2020)

Article Biochemistry & Molecular Biology

Acute depletion of CTCF directly affects MYC regulation through loss of enhancer-promoter looping

Judith Hyle et al.

NUCLEIC ACIDS RESEARCH (2019)

Article Biochemistry & Molecular Biology

PRMT5 methylome profiling uncovers a direct link to splicing regulation in acute myeloid leukemia

Aliaksandra Radzisheuskaya et al.

NATURE STRUCTURAL & MOLECULAR BIOLOGY (2019)

Article Multidisciplinary Sciences

De novo identification of essential protein domains from CRISPR-Cas9 tiling-sgRNA knockout screens

Wei He et al.

NATURE COMMUNICATIONS (2019)

Review Cell Biology

Chromatin regulatory mechanisms and therapeutic opportunities in cancer

Alfredo M. Valencia et al.

NATURE CELL BIOLOGY (2019)

Article Biochemistry & Molecular Biology

The dTAG system for immediate and target-specific protein degradation

Behnam Nabet et al.

NATURE CHEMICAL BIOLOGY (2018)

Article Multidisciplinary Sciences

High-resolution TADs reveal DNA sequences underlying genome organization in flies

Fidel Ramirez et al.

NATURE COMMUNICATIONS (2018)

Article Biochemistry & Molecular Biology

BET Bromodomain Proteins Function as Master Transcription Elongation Factors Independent of CDK9 Recruitment

Georg E. Winter et al.

MOLECULAR CELL (2017)

Article Biochemical Research Methods

An improved ATAC-seq protocol reduces background and enables interrogation of frozen tissues

M. Ryan Corces et al.

NATURE METHODS (2017)

Review Pediatrics

MLL-Rearranged Leukemias-An Update on Science and Clinical Approaches

Amanda C. Winters et al.

FRONTIERS IN PEDIATRICS (2017)

Article Biochemistry & Molecular Biology

Expansion of the ISWI chromatin remodeler family with new active complexes

Mariano Oppikofer et al.

EMBO REPORTS (2017)

Review Biochemistry & Molecular Biology

Chromatin deregulation in disease

Anne C. Mirabella et al.

CHROMOSOMA (2016)

Review Biochemistry & Molecular Biology

The 3D Genome as Moderator of Chromosomal Communication

Job Dekker et al.

Article Biotechnology & Applied Microbiology

Optimized sgRNA design to maximize activity and minimize off-target effects of CRISPR-Cas9

John G. Doench et al.

NATURE BIOTECHNOLOGY (2016)

Article Biochemistry & Molecular Biology

An interactive environment for agile analysis and visualization of ChIP-sequencing data

Mads Lerdrup et al.

NATURE STRUCTURAL & MOLECULAR BIOLOGY (2016)

Article Medicine, General & Internal

Genomic Classification and Prognosis in Acute Myeloid Leukemia

Elli Papaemmanuil et al.

NEW ENGLAND JOURNAL OF MEDICINE (2016)

Article Biochemistry & Molecular Biology

Optimizing sgRNA position markedly improves the efficiency of CRISPR/dCas9-mediated transcriptional repression

Aliaksandra Radzisheuskaya et al.

NUCLEIC ACIDS RESEARCH (2016)

Article Multidisciplinary Sciences

BPTF is required for c-MYC transcriptional activity and in vivo tumorigenesis

Laia Richart et al.

NATURE COMMUNICATIONS (2016)

Article Biochemistry & Molecular Biology

An interactive environment for agile analysis and visualization of ChIP-sequencing data

Mads Lerdrup et al.

NATURE STRUCTURAL & MOLECULAR BIOLOGY (2016)

Article Biochemistry & Molecular Biology

Dual Screening of BPTF and Brd4 Using Protein-Observed Fluorine NMR Uncovers New Bromodomain Probe Molecules

Andrew K. Urick et al.

ACS CHEMICAL BIOLOGY (2015)

Article Biochemistry & Molecular Biology

Sequence determinants of improved CRISPR sgRNA design

Han Xu et al.

GENOME RESEARCH (2015)

Article Multidisciplinary Sciences

Condensin-driven remodelling of X chromosome topology during dosage compensation

Emily Crane et al.

NATURE (2015)

Article Biochemistry & Molecular Biology

Functional Interactions between NURF and Ctcf Regulate Gene Expression

Zhijun Qiu et al.

MOLECULAR AND CELLULAR BIOLOGY (2015)

Article Multidisciplinary Sciences

SWI/SNF Subunits SMARCA4, SMARCD2 and DPF2 Collaborate in MLL-Rearranged Leukaemia Maintenance

V. Adam Cruickshank et al.

PLOS ONE (2015)

Article Biotechnology & Applied Microbiology

HiC-Pro: an optimized and flexible pipeline for Hi-C data processing

Nicolas Servant et al.

GENOME BIOLOGY (2015)

Editorial Material Hematology

AML drug resistance: c-Myc comes into play

Cyril Fauriat et al.

Article Biochemistry & Molecular Biology

Genome-Scale CRISPR-Mediated Control of Gene Repression and Activation

Luke A. Gilbert et al.

Review Immunology

THP-1 cell line: An in vitro cell model for immune modulation approach

Wasaporn Chanput et al.

INTERNATIONAL IMMUNOPHARMACOLOGY (2014)

Article Biochemistry & Molecular Biology

Easy quantitative assessment of genome editing by sequence trace decomposition

Eva K. Brinkman et al.

NUCLEIC ACIDS RESEARCH (2014)

Letter Biochemical Research Methods

ChromHMM: automating chromatin-state discovery and characterization

Jason Ernst et al.

NATURE METHODS (2012)

Article Biochemical Research Methods

Fast gapped-read alignment with Bowtie 2

Ben Langmead et al.

NATURE METHODS (2012)

Article Biochemistry & Molecular Biology

Recognition of a Mononucleosomal Histone Modification Pattern by BPTF via Multivalent Interactions

Alexander J. Ruthenburg et al.

Review Biochemistry & Molecular Biology

The Nucleosome Remodeling Factor

Suehyb G. Alkhatib et al.

FEBS LETTERS (2011)

Article Multidisciplinary Sciences

Mapping and analysis of chromatin state dynamics in nine human cell types

Jason Ernst et al.

NATURE (2011)

Article Biotechnology & Applied Microbiology

Discovery and characterization of chromatin states for systematic annotation of the human genome

Jason Ernst et al.

NATURE BIOTECHNOLOGY (2010)

Article Developmental Biology

The nucleosome remodeling factor (NURF) regulates genes involved in Drosophila innate immunity

So Yeon Kwon et al.

DEVELOPMENTAL BIOLOGY (2008)

Review Oncology

MLL translocations, histone modifications and leukaemia stem-cell development

Andrei V. Krivtsov et al.

NATURE REVIEWS CANCER (2007)

Article Biochemistry & Molecular Biology

Spatial contacts and nucleosome step movements induced by the NURF chromatin remodeling complex

R Schwanbeck et al.

JOURNAL OF BIOLOGICAL CHEMISTRY (2004)

Article Biochemistry & Molecular Biology

Leukemia proto-oncoprotein MLL forms a SET1-like histone methyltransferase complex with menin to regulate Hox gene expression

A Yokoyama et al.

MOLECULAR AND CELLULAR BIOLOGY (2004)

Article Biochemistry & Molecular Biology

ACF1 improves the effectiveness of nucleosome mobilization by ISWI through PHD-histone contacts

A Eberharter et al.

EMBO JOURNAL (2004)

Article Biochemistry & Molecular Biology

Isolation of human NURF:: a regulator of Engrailed gene expression

O Barak et al.

EMBO JOURNAL (2003)

Article Cell Biology

Biological functions of the ISWI chromatin remodeling complex NURF

P Badenhorst et al.

GENES & DEVELOPMENT (2002)

Article Biochemistry & Molecular Biology

DDT - a novel domain in different transcription and chromosome remodeling factors

T Doerks et al.

TRENDS IN BIOCHEMICAL SCIENCES (2001)