Single-cell multi-omics of human clonal hematopoiesis reveals that DNMT3A R882 mutations perturb early progenitor states through selective hypomethylation

Chromatin accessibility maps provide evidence of multilineage gene priming in hematopoietic stem cells

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Enzymatic methyl sequencing detects DNA methylation at single-base resolution from picograms of DNA

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Somatic Mutations in “Benign” Disease

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Convergence of oncogenic cooperation at single-cell and single-gene levels drives leukemic transformation

(2021) Yuxuan Liu et al.   Nature Communications

Cell-Extrinsic Stressors from the Aging Bone Marrow (BM) Microenvironment Promote Dnmt3a-Mutant Clonal Hematopoiesis

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Tobacco smoking and somatic mutations in human bronchial epithelium

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Chronic activation of endothelial MAPK disrupts hematopoiesis via NFKB dependent inflammatory stress reversible by SCGF

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Large DNA Methylation Nadirs Anchor Chromatin Loops Maintaining Hematopoietic Stem Cell Identity

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DNA methylation disruption reshapes the hematopoietic differentiation landscape

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The evolutionary dynamics and fitness landscape of clonal hematopoiesis

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Structural basis for impairment of DNA methylation by the DNMT3A R882H mutation

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Divergent Effects of Dnmt3a and Tet2 Mutations on Hematopoietic Progenitor Cell Fitness

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Generalizing RNA velocity to transient cell states through dynamical modeling

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Clonal hematopoiesis is associated with adverse outcomes in multiple myeloma patients undergoing transplant

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Integrating genetic and non-genetic determinants of cancer evolution by single-cell multi-omics

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Predicting transcription factor binding in single cells through deep learning

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Deciphering the genomic, epigenomic, and transcriptomic landscapes of pre-invasive lung cancer lesions

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Integrin alpha11 is an Osteolectin receptor and is required for the maintenance of adult skeletal bone mass

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Unravelling Intratumoral Heterogeneity through High-Sensitivity Single-Cell Mutational Analysis and Parallel RNA Sequencing

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Lineage Tracing in Humans Enabled by Mitochondrial Mutations and Single-Cell Genomics

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New Insights Into the Differentiation of Megakaryocytes From Hematopoietic Progenitors

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Establishment of an erythroid progenitor cell line capable of enucleation achieved with an inducible c-Myc vector

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Aging Human Hematopoietic Stem Cells Manifest Profound Epigenetic Reprogramming of Enhancers That May Predispose to Leukemia

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A Model System for Studying the DNMT3A Hotspot Mutation (DNMT3AR882) Demonstrates a Causal Relationship between Its Dominant-Negative Effect and Leukemogenesis

(2019) Rui Lu et al.   CANCER RESEARCH

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Somatic mutations and cell identity linked by Genotyping of Transcriptomes

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High-throughput single-cell ChIP-seq identifies heterogeneity of chromatin states in breast cancer

(2019) Kevin Grosselin et al.   NATURE GENETICS

RNA sequence analysis reveals macroscopic somatic clonal expansion across normal tissues

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A comprehensive single cell transcriptional landscape of human hematopoietic progenitors

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Clonal haematopoiesis: connecting ageing and inflammation in cardiovascular disease

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Mutations of R882 change flanking sequence preferences of the DNA methyltransferase DNMT3A and cellular methylation patterns

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A general approach for detecting expressed mutations in AML cells using single cell RNA-sequencing

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Single-cell multiomic analysis identifies regulatory programs in mixed-phenotype acute leukemia

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Somatic mutations precede acute myeloid leukemia years before diagnosis

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Loss of Dnmt3a Immortalizes Hematopoietic Stem Cells In Vivo

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(2018) Gioele La Manno et al.   NATURE

Prediction of acute myeloid leukaemia risk in healthy individuals

(2018) Sagi Abelson et al.   NATURE

Age-related remodelling of oesophageal epithelia by mutated cancer drivers

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Somatic mutant clones colonize the human esophagus with age

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UMI-tools: modeling sequencing errors in Unique Molecular Identifiers to improve quantification accuracy

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Human haematopoietic stem cell lineage commitment is a continuous process

(2017) Lars Velten et al.   NATURE CELL BIOLOGY

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Clonal Hematopoiesis and Risk of Atherosclerotic Cardiovascular Disease

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Conditional knockin of Dnmt3a R878H initiates acute myeloid leukemia with mTOR pathway involvement

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Dnmt3arestrains mast cell inflammatory responses

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Clonal hematopoiesis associated with TET2 deficiency accelerates atherosclerosis development in mice

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Epigenetic Identity in AML Depends on Disruption of Nonpromoter Regulatory Elements and Is Affected by Antagonistic Effects of Mutations in Epigenetic Modifiers

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DNMT3A mutations promote anthracycline resistance in acute myeloid leukemia via impaired nucleosome remodeling

(2016) Olga A Guryanova et al.   NATURE MEDICINE

Dissecting the multicellular ecosystem of metastatic melanoma by single-cell RNA-seq

(2016) I. Tirosh et al.   SCIENCE

DNMT3A R882 mutants interact with polycomb proteins to block haematopoietic stem and leukaemic cell differentiation

(2016) Junji Koya et al.   Nature Communications

Clonal haematopoiesis harbouring AML-associated mutations is ubiquitous in healthy adults

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The aryl hydrocarbon receptor nuclear translocator is an essential regulator of murine hematopoietic stem cell viability

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Single-cell ChIP-seq reveals cell subpopulations defined by chromatin state

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High burden and pervasive positive selection of somatic mutations in normal human skin

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Progressive Chromatin Condensation and H3K9 Methylation Regulate the Differentiation of Embryonic and Hematopoietic Stem Cells

(2015) Fernando Ugarte et al.   Stem Cell Reports

The R882H DNMT3A Mutation Associated with AML Dominantly Inhibits Wild-Type DNMT3A by Blocking Its Ability to Form Active Tetramers

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Dnmt3a and Dnmt3b Have Overlapping and Distinct Functions in Hematopoietic Stem Cells

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The unfolded protein response governs integrity of the haematopoietic stem-cell pool during stress

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An atlas of active enhancers across human cell types and tissues

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Identification of pre-leukaemic haematopoietic stem cells in acute leukaemia

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The dynamics and regulators of cell fate decisions are revealed by pseudotemporal ordering of single cells

(2014) Cole Trapnell et al.   NATURE BIOTECHNOLOGY

Age-related mutations associated with clonal hematopoietic expansion and malignancies

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Clonal Hematopoiesis and Blood-Cancer Risk Inferred from Blood DNA Sequence

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Age-Related Clonal Hematopoiesis Associated with Adverse Outcomes

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DNMT3A Arg882 mutation drives chronic myelomonocytic leukemia through disturbing gene expression/DNA methylation in hematopoietic cells

(2014) J. Xu et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

TET1-Mediated Hydroxymethylation Facilitates Hypoxic Gene Induction in Neuroblastoma

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A DNMT3A mutation common in AML exhibits dominant-negative effects in murine ES cells

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Double restriction-enzyme digestion improves the coverage and accuracy of genome-wide CpG methylation profiling by reduced representation bisulfite sequencing

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Polycomb Repressive Complex 2 Regulates Normal Hematopoietic Stem Cell Function in a Developmental-Stage-Specific Manner

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Large conserved domains of low DNA methylation maintained by Dnmt3a

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Genomic and Epigenomic Landscapes of Adult De Novo Acute Myeloid Leukemia

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An integrated encyclopedia of DNA elements in the human genome

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clusterProfiler: an R Package for Comparing Biological Themes Among Gene Clusters

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Incidence and Prognostic Influence of DNMT3A Mutations in Acute Myeloid Leukemia

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The Polycomb complex PRC2 and its mark in life

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Dnmt3a is essential for hematopoietic stem cell differentiation

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A Dominant Mutation in the Gene Encoding the Erythroid Transcription Factor KLF1 Causes a Congenital Dyserythropoietic Anemia

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Distinct Epigenomic Landscapes of Pluripotent and Lineage-Committed Human Cells

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Regulation of the HIF-1α Level Is Essential for Hematopoietic Stem Cells

(2010) Keiyo Takubo et al.   Cell Stem Cell

OX40 Ligand Regulates Inflammation and Mortality in the Innate Immune Response to Sepsis

(2010) M. Karulf et al.   JOURNAL OF IMMUNOLOGY

Identification of Therapeutic Targets for Quiescent, Chemotherapy-Resistant Human Leukemia Stem Cells

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Human Neutrophil Fcγ Receptors Initiate and Play Specialized Nonredundant Roles in Antibody-Mediated Inflammatory Diseases

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Lineage-Specific Polycomb Targets and De Novo DNA Methylation Define Restriction and Potential of Neuronal Progenitors

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