Epigenetic perturbations in aging stem cells

Aging and DNA methylation

(2015) Marc Jung et al.   BMC BIOLOGY

Genetic Control of Chromatin States in Humans Involves Local and Distal Chromosomal Interactions

(2015) Fabian Grubert et al.   CELL

Epigenetic Control of Stem Cell Potential during Homeostasis, Aging, and Disease

(2015) Isabel Beerman et al.   Cell Stem Cell

Aging-Induced Stem Cell Mutations as Drivers for Disease and Cancer

(2015) Peter D. Adams et al.   Cell Stem Cell

Integrative analysis of 111 reference human epigenomes

(2015) Anshul Kundaje et al.   NATURE

Integrative analysis of haplotype-resolved epigenomes across human tissues

(2015) Danny Leung et al.   NATURE

Conserved epigenomic signals in mice and humans reveal immune basis of Alzheimer’s disease

(2015) Elizabeta Gjoneska et al.   NATURE

Cell-of-origin chromatin organization shapes the mutational landscape of cancer

(2015) Paz Polak et al.   NATURE

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

(2015) Assaf Rotem et al.   NATURE BIOTECHNOLOGY

ChIPmentation: fast, robust, low-input ChIP-seq for histones and transcription factors

(2015) Christian Schmidl et al.   NATURE METHODS

Profiling DNA methylome landscapes of mammalian cells with single-cell reduced-representation bisulfite sequencing

(2015) Hongshan Guo et al.   Nature Protocols

Epigenetic regulation of ageing: linking environmental inputs to genomic stability

(2015) Bérénice A. Benayoun et al.   NATURE REVIEWS MOLECULAR CELL BIOLOGY

A matter of scale: how emerging technologies are redefining our view of chromosome architecture

(2015) Diego I. Cattoni et al.   TRENDS IN GENETICS

An ultra-low-input native ChIP-seq protocol for genome-wide profiling of rare cell populations

(2015) Julie Brind’Amour et al.   Nature Communications

Single-Cell DNA Methylome Sequencing and Bioinformatic Inference of Epigenomic Cell-State Dynamics

(2015) Matthias Farlik et al.   Cell Reports

Dnmt3a loss predisposes murine hematopoietic stem cells to malignant transformation

(2014) A. Mayle et al.   BLOOD

H3K4me3 Breadth Is Linked to Cell Identity and Transcriptional Consistency

(2014) Bérénice A. Benayoun et al.   CELL

Epigenomic Profiling of Young and Aged HSCs Reveals Concerted Changes during Aging that Reinforce Self-Renewal

(2014) Deqiang Sun et al.   Cell Stem Cell

Dissecting neural differentiation regulatory networks through epigenetic footprinting

(2014) Michael J. Ziller et al.   NATURE

Identification of pre-leukaemic haematopoietic stem cells in acute leukaemia

(2014) Liran I. Shlush et al.   NATURE

Genetic and epigenetic fine mapping of causal autoimmune disease variants

(2014) Kyle Kai-How Farh et al.   NATURE

Impact of genomic damage and ageing on stem cell function

(2014) Axel Behrens et al.   NATURE CELL BIOLOGY

Single-cell genome-wide bisulfite sequencing for assessing epigenetic heterogeneity

(2014) Sébastien A Smallwood et al.   NATURE METHODS

Advances in the profiling of DNA modifications: cytosine methylation and beyond

(2014) Nongluk Plongthongkum et al.   NATURE REVIEWS GENETICS

SIRT6 represses LINE1 retrotransposons by ribosylating KAP1 but this repression fails with stress and age

(2014) Michael Van Meter et al.   Nature Communications

Aging of blood can be tracked by DNA methylation changes at just three CpG sites

(2014) Carola Weidner et al.   GENOME BIOLOGY

Genome-wide DNA methylation changes with age in disease-free human skeletal muscle

(2013) Artem Zykovich et al.   AGING CELL

The Hallmarks of Aging

(2013) Carlos López-Otín et al.   CELL

Sirt1 Extends Life Span and Delays Aging in Mice through the Regulation of Nk2 Homeobox 1 in the DMH and LH

(2013) Akiko Satoh et al.   Cell Metabolism

Proliferation-Dependent Alterations of the DNA Methylation Landscape Underlie Hematopoietic Stem Cell Aging

(2013) Isabel Beerman et al.   Cell Stem Cell

Cross-sectional and longitudinal changes in DNA methylation with age: an epigenome-wide analysis revealing over 60 novel age-associated CpG sites

(2013) I. Florath et al.   HUMAN MOLECULAR GENETICS

SIRT6 Recruits SNF2H to DNA Break Sites, Preventing Genomic Instability through Chromatin Remodeling

(2013) Debra Toiber et al.   MOLECULAR CELL

Polycomb Cbx family members mediate the balance between haematopoietic stem cell self-renewal and differentiation

(2013) Karin Klauke et al.   NATURE CELL BIOLOGY

Identification of Genetic Variants That Affect Histone Modifications in Human Cells

(2013) G. McVicker et al.   SCIENCE

Chromatin Modifications as Determinants of Muscle Stem Cell Quiescence and Chronological Aging

(2013) Ling Liu et al.   Cell Reports

DNA methylation age of human tissues and cell types

(2013) Steve Horvath   GENOME BIOLOGY

Ezh1 Is Required for Hematopoietic Stem Cell Maintenance and Prevents Senescence-like Cell Cycle Arrest

(2012) Isabel Hidalgo et al.   Cell Stem Cell

Cdc42 Activity Regulates Hematopoietic Stem Cell Aging and Rejuvenation

(2012) Maria Carolina Florian et al.   Cell Stem Cell

Ezh2 maintains a key phase of muscle satellite cell expansion but does not regulate terminal differentiation

(2012) S. Woodhouse et al.   JOURNAL OF CELL SCIENCE

DNA Methylation Dynamics during In Vivo Differentiation of Blood and Skin Stem Cells

(2012) Christoph Bock et al.   MOLECULAR CELL

The sirtuin SIRT6 regulates lifespan in male mice

(2012) Yariv Kanfi et al.   NATURE

Distinct DNA methylomes of newborns and centenarians

(2012) H. Heyn et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

The H3K27 demethylase UTX-1 regulates C. elegans lifespan in a germline-independent, insulin-dependent manner

(2011) Travis J. Maures et al.   AGING CELL

Two SET domain containing genes link epigenetic changes and aging in Caenorhabditis elegans

(2011) Zhuoyu Ni et al.   AGING CELL

Histone Demethylase UTX-1 Regulates C. elegans Life Span by Targeting the Insulin/IGF-1 Signaling Pathway

(2011) Chunyu Jin et al.   Cell Metabolism

Manifestations and mechanisms of stem cell aging

(2011) Ling Liu et al.   JOURNAL OF CELL BIOLOGY

Single-tube linear DNA amplification (LinDA) for robust ChIP-seq

(2011) Pattabhiraman Shankaranarayanan et al.   NATURE METHODS

Neuronal activity modifies the DNA methylation landscape in the adult brain

(2011) Junjie U Guo et al.   NATURE NEUROSCIENCE

Whole-genome chromatin profiling from limited numbers of cells using nano-ChIP-seq

(2011) Mazhar Adli et al.   Nature Protocols

Histone H4 lysine 16 hypoacetylation is associated with defective DNA repair and premature senescence in Zmpste24-deficient mice

(2011) V. Krishnan et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

The challenge of hair cell regeneration

(2010) Andrew K Groves   EXPERIMENTAL BIOLOGY AND MEDICINE

Human aging-associated DNA hypermethylation occurs preferentially at bivalent chromatin domains

(2010) V. K. Rakyan et al.   GENOME RESEARCH

Widespread and tissue specific age-related DNA methylation changes in mice

(2010) S. Maegawa et al.   GENOME RESEARCH

Elevated Histone Expression Promotes Life Span Extension

(2010) Jason Feser et al.   MOLECULAR CELL

Molecular Signals of Epigenetic States

(2010) Roberto Bonasio et al.   SCIENCE

Aging in inbred strains of mice: study design and interim report on median lifespans and circulating IGF1 levels

(2009) Rong Yuan et al.   AGING CELL

An operational definition of epigenetics

(2009) S. L. Berger et al.   GENES & DEVELOPMENT

DNA methylation protects hematopoietic stem cell multipotency from myeloerythroid restriction

(2009) Ann-Marie Bröske et al.   NATURE GENETICS

Polycomb Repressive Complex 2 and Trithorax modulate Drosophila longevity and stress resistance

(2009) A. P. Siebold et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

A Functional Role for Adult Hippocampal Neurogenesis in Spatial Pattern Separation

(2009) C. D. Clelland et al.   SCIENCE

A new mechanism for the aging of hematopoietic stem cells: aging changes the clonal composition of the stem cell compartment but not individual stem cells

(2008) R. H. Cho et al.   BLOOD

Impaired DNA Damage Response, Genome Instability, and Tumorigenesis in SIRT1 Mutant Mice

(2008) Rui-Hong Wang et al.   CANCER CELL

SIRT1 Redistribution on Chromatin Promotes Genomic Stability but Alters Gene Expression during Aging

(2008) Philipp Oberdoerffer et al.   CELL

Stem Cells, Their Niches and the Systemic Environment: An Aging Network

(2008) D. Drummond-Barbosa   GENETICS

DNA damage and ageing: new-age ideas for an age-old problem

(2008) George A. Garinis et al.   NATURE CELL BIOLOGY

Aging does not alter the number or phenotype of putative stem/progenitor cells in the neurogenic region of the hippocampus

(2006) Bharathi Hattiangady et al.   NEUROBIOLOGY OF AGING