Gene regulatory programmes of tissue regeneration

Parallels between wound healing, epimorphic regeneration and solid tumors

(2020) Alan Y. Wong et al.   DEVELOPMENT

Acquisition of a Unique Mesenchymal Precursor-like Blastema State Underlies Successful Adult Mammalian Digit Tip Regeneration

(2020) Mekayla A. Storer et al.   DEVELOPMENTAL CELL

Arid3a regulates nephric tubule regeneration via evolutionarily conserved regeneration signal-response enhancers

(2019) Nanoka Suzuki et al.   eLife

Slide-seq: A scalable technology for measuring genome-wide expression at high spatial resolution

(2019) Samuel G. Rodriques et al.   SCIENCE

Acoel genome reveals the regulatory landscape of whole-body regeneration

(2019) Andrew R. Gehrke et al.   SCIENCE

Stage-dependent cardiac regeneration in Xenopus is regulated by thyroid hormone availability

(2019) Lindsey N. Marshall et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Mitochondrial protein-induced stress triggers a global adaptive transcriptional programme

(2019) Felix Boos et al.   NATURE CELL BIOLOGY

Transcriptome-scale super-resolved imaging in tissues by RNA seqFISH+

(2019) Chee-Huat Linus Eng et al.   NATURE

Single-nucleotide human disease mutation inactivates a blood-regenerative GATA2 enhancer

(2019) Alexandra A. Soukup et al.   JOURNAL OF CLINICAL INVESTIGATION

The long noncoding RNA Falcor regulates Foxa2 expression to maintain lung epithelial homeostasis and promote regeneration

(2019) Daniel T. Swarr et al.   GENES & DEVELOPMENT

YAP Partially Reprograms Chromatin Accessibility to Directly Induce Adult Cardiogenesis In Vivo

(2019) Tanner O. Monroe et al.   DEVELOPMENTAL CELL

The Long Non-Coding RNA CPR Regulates Cardiomyocyte Proliferation and Cardiac Repair

(2019) Murugavel Ponnusamy et al.   CIRCULATION

Analysis of sea star larval regeneration reveals conserved processes of whole-body regeneration across the metazoa

(2019) Gregory A. Cary et al.   BMC BIOLOGY

Insulin Receptor Associates with Promoters Genome-wide and Regulates Gene Expression

(2019) Melissa L. Hancock et al.   CELL

Antisense lncRNA Transcription Mediates DNA Demethylation to Drive Stochastic Protocadherin α Promoter Choice

(2019) Daniele Canzio et al.   CELL

Profiling of Pluripotency Factors in Single Cells and Early Embryos

(2019) Sarah J. Hainer et al.   CELL

Somatic Mutations Increase Hepatic Clonal Fitness and Regeneration in Chronic Liver Disease

(2019) Min Zhu et al.   CELL

Dangerous liaisons: interplay between SWI/SNF, NuRD, and Polycomb in chromatin regulation and cancer

(2019) Adrian P. Bracken et al.   GENES & DEVELOPMENT

Single-cell transcriptomes of the regenerating intestine reveal a revival stem cell

(2019) Arshad Ayyaz et al.   NATURE

Identification of a regeneration-organizing cell in the Xenopus tail

(2019) C. Aztekin et al.   SCIENCE

Primed histone demethylation regulates shoot regenerative competency

(2019) Hiroya Ishihara et al.   Nature Communications

Adeno-Associated Viral Vectors as a Tool for Large Gene Delivery to the Retina

(2019) Trapani   Genes

The Translational Landscape of the Human Heart

(2019) Sebastiaan van Heesch et al.   CELL

Epigenetic Compensation Promotes Liver Regeneration

(2019) Shuang Wang et al.   DEVELOPMENTAL CELL

Stem cell differentiation trajectories in Hydra resolved at single-cell resolution

(2019) Stefan Siebert et al.   SCIENCE

Ets21c Governs Tissue Renewal, Stress Tolerance, and Aging in the Drosophila Intestine

(2019) Juliane Mundorf et al.   Cell Reports

Model systems for regeneration: planarians

(2019) Mario Ivankovic et al.   DEVELOPMENT

De novo genesis of retinal ganglion cells by targeted expression of Klf4 in vivo

(2019) Maurício Rocha-Martins et al.   DEVELOPMENT

H3K27me3-mediated silencing of structural genes is required for zebrafish heart regeneration

(2019) Raz Ben-Yair et al.   DEVELOPMENT

In Vivo Lineage Tracing of Polyploid Hepatocytes Reveals Extensive Proliferation during Liver Regeneration

(2019) Tomonori Matsumoto et al.   Cell Stem Cell

Phase separation of YAP reorganizes genome topology for long-term YAP target gene expression

(2019) Danfeng Cai et al.   NATURE CELL BIOLOGY

A systematic capsid evolution approach performed in vivo for the design of AAV vectors with tailored properties and tropism

(2019) Marcus Davidsson et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Single-cell analysis uncovers that metabolic reprogramming by ErbB2 signaling is essential for cardiomyocyte proliferation in the regenerating heart

(2019) Hessel Honkoop et al.   eLife

Functional Classification and Experimental Dissection of Long Noncoding RNAs

(2018) Florian Kopp et al.   CELL

Human Pluripotent Stem Cell-Derived Engineered Tissues: Clinical Considerations

(2018) Kelly R. Stevens et al.   Cell Stem Cell

A Muscle Stem Cell Support Group: Coordinated Cellular Responses in Muscle Regeneration

(2018) Michael N. Wosczyna et al.   DEVELOPMENTAL CELL

Myocardial Polyploidization Creates a Barrier to Heart Regeneration in Zebrafish

(2018) Juan Manuel González-Rosa et al.   DEVELOPMENTAL CELL

Assessing sufficiency and necessity of enhancer activities for gene expression and the mechanisms of transcription activation

(2018) Rui R. Catarino et al.   GENES & DEVELOPMENT

Cell type transcriptome atlas for the planarianSchmidtea mediterranea

(2018) Christopher T. Fincher et al.   SCIENCE

Activating the regenerative potential of Müller glia cells in a regeneration-deficient retina

(2018) Katharina Lust et al.   eLife

CtBP impedes JNK- and Upd/STAT-driven cell fate misspecifications in regenerating Drosophila imaginal discs

(2018) Melanie I Worley et al.   eLife

A Single-Cell Atlas of In Vivo Mammalian Chromatin Accessibility

(2018) Darren A. Cusanovich et al.   CELL

Hoxc-Dependent Mesenchymal Niche Heterogeneity Drives Regional Hair Follicle Regeneration

(2018) Zhou Yu et al.   Cell Stem Cell

Diverse mechanisms for endogenous regeneration and repair in mammalian organs

(2018) James M. Wells et al.   NATURE

Enhancer redundancy provides phenotypic robustness in mammalian development

(2018) Marco Osterwalder et al.   NATURE

The axolotl genome and the evolution of key tissue formation regulators

(2018) Sergej Nowoshilow et al.   NATURE

The Hippo pathway in the heart: pivotal roles in development, disease, and regeneration

(2018) Jun Wang et al.   Nature Reviews Cardiology

Joint profiling of chromatin accessibility and gene expression in thousands of single cells

(2018) Junyue Cao et al.   SCIENCE

Single-cell analysis uncovers convergence of cell identities during axolotl limb regeneration

(2018) Tobias Gerber et al.   SCIENCE

Two to Tango: Dialog between Immunity and Stem Cells in Health and Disease

(2018) Shruti Naik et al.   CELL

Mesenchymal Precursor Cells in Adult Nerves Contribute to Mammalian Tissue Repair and Regeneration

(2018) Matthew J. Carr et al.   Cell Stem Cell

Long non-coding RNAs regulate Wnt signaling during feather regeneration

(2018) Xiang Lin et al.   DEVELOPMENT

Transcriptional response to Wnt activation regulates the regenerative capacity of the mammalian cochlea

(2018) Anshula Samarajeewa et al.   DEVELOPMENT

A Regeneration Toolkit

(2018) Mayssa H. Mokalled et al.   DEVELOPMENTAL CELL

Immunosuppression overcomes insulin- and vector-specific immune responses that limit efficacy of AAV2/8-mediated insulin gene therapy in NOD mice

(2018) Asha Recino et al.   GENE THERAPY

Damage-responsive elements in Drosophila regeneration

(2018) Elena Vizcaya-Molina et al.   GENOME RESEARCH

Regulation of Neuroregeneration by Long Noncoding RNAs

(2018) Rotem Ben-Tov Perry et al.   MOLECULAR CELL

The SWI/SNF complex is a mechanoregulated inhibitor of YAP and TAZ

(2018) Lei Chang et al.   NATURE

Mechanoresponsive stem cells acquire neural crest fate in jaw regeneration

(2018) Ryan C. Ransom et al.   NATURE

Endothelial cell adaptation in regeneration

(2018) Jesus M. Gomez-Salinero et al.   SCIENCE

E-C coupling structural protein junctophilin-2 encodes a stress-adaptive transcription regulator

(2018) Ang Guo et al.   SCIENCE

Entering the Modern Era of Gene Therapy

(2018) Xavier M. Anguela et al.   Annual Review of Medicine

Stem cells: Aging and transcriptional fingerprints

(2017) Brice E. Keyes et al.   JOURNAL OF CELL BIOLOGY

Multiplexed Engineering and Analysis of Combinatorial Enhancer Activity in Single Cells

(2017) Shiqi Xie et al.   MOLECULAR CELL

Hippo pathway deficiency reverses systolic heart failure after infarction

(2017) John P. Leach et al.   NATURE

Frequency of mononuclear diploid cardiomyocytes underlies natural variation in heart regeneration

(2017) Michaela Patterson et al.   NATURE GENETICS

Single-Dose Gene-Replacement Therapy for Spinal Muscular Atrophy

(2017) Jerry R. Mendell et al.   NEW ENGLAND JOURNAL OF MEDICINE

Mutation of a nucleosome compaction region disrupts Polycomb-mediated axial patterning

(2017) Mei Sheng Lau et al.   SCIENCE

Inflammation and metabolism in tissue repair and regeneration

(2017) Sabine A. Eming et al.   SCIENCE

The careg element reveals a common regulation of regeneration in the zebrafish myocardium and fin

(2017) Catherine Pfefferli et al.   Nature Communications

Reading and editing the Pleurodeles waltl genome reveals novel features of tetrapod regeneration

(2017) Ahmed Elewa et al.   Nature Communications

The Molecular and Cellular Choreography of Appendage Regeneration

(2016) Elly M. Tanaka   CELL

Cell fate control by pioneer transcription factors

(2016) Makiko Iwafuchi-Doi et al.   DEVELOPMENT

Spatially Resolved Genome-wide Transcriptional Profiling Identifies BMP Signaling as Essential Regulator of Zebrafish Cardiomyocyte Regeneration

(2016) Chi-Chung Wu et al.   DEVELOPMENTAL CELL

Regeneration in bipinnaria larvae of the bat star Patiria miniata induces rapid and broad new gene expression

(2016) Nathalie Oulhen et al.   MECHANISMS OF DEVELOPMENT

Modulation of tissue repair by regeneration enhancer elements

(2016) Junsu Kang et al.   NATURE

Angiocrine functions of organ-specific endothelial cells

(2016) Shahin Rafii et al.   NATURE

Nerves Regulate Cardiomyocyte Proliferation and Heart Regeneration

(2015) Ahmed I. Mahmoud et al.   DEVELOPMENTAL CELL

The Role of Cell Plasticity in Tissue Repair: Adaptive Cellular Reprogramming

(2015) Kristjan R. Jessen et al.   DEVELOPMENTAL CELL

Taranis Protects Regenerating Tissue from Fate Changes Induced by the Wound Response in Drosophila

(2015) Keaton J. Schuster et al.   DEVELOPMENTAL CELL

Mechanical strain induces E-cadherin-dependent Yap1 and  -catenin activation to drive cell cycle entry

(2015) B. W. Benham-Pyle et al.   SCIENCE

Suboptimization of developmental enhancers

(2015) E. K. Farley et al.   SCIENCE

Signaling networks organizing regenerative growth of the zebrafish fin

(2015) Daniel Wehner et al.   TRENDS IN GENETICS

Liquid-Liquid Phase Separation in Biology

(2014) Anthony A. Hyman et al.   Annual Review of Cell and Developmental Biology

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

(2014) Luke A. Gilbert et al.   CELL

Hand2 elevates cardiomyocyte production during zebrafish heart development and regeneration

(2014) Y. L. Schindler et al.   DEVELOPMENT

Differential reparative phenotypes between zebrafish and medaka after cardiac injury

(2014) Kohei Ito et al.   DEVELOPMENTAL DYNAMICS

Epigenetics of Reprogramming to Induced Pluripotency

(2013) Bernadett Papp et al.   CELL

An Injury-Responsive Gata4 Program Shapes the Zebrafish Cardiac Ventricle

(2013) Vikas Gupta et al.   CURRENT BIOLOGY

In vivo monitoring of cardiomyocyte proliferation to identify chemical modifiers of heart regeneration

(2013) W.-Y. Choi et al.   DEVELOPMENT

The Hippo pathway: regulators and regulations

(2013) F.-X. Yu et al.   GENES & DEVELOPMENT

Plasmapheresis Eliminates the Negative Impact of AAV Antibodies on Microdystrophin Gene Expression Following Vascular Delivery

(2013) LG Chicoine et al.   MOLECULAR THERAPY

Meis1 regulates postnatal cardiomyocyte cell cycle arrest

(2013) Ahmed I. Mahmoud et al.   NATURE

Hippo pathway effector Yap promotes cardiac regeneration

(2013) Mei Xin et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

A Histone Mutant Reproduces the Phenotype Caused by Loss of Histone-Modifying Factor Polycomb

(2013) A. R. Pengelly et al.   SCIENCE

Proteomic Mapping of Mitochondria in Living Cells via Spatially Restricted Enzymatic Tagging

(2013) H.-W. Rhee et al.   SCIENCE

EZH2 couples pancreatic regeneration to neoplastic progression

(2012) J. Mallen-St. Clair et al.   GENES & DEVELOPMENT

Cis-regulatory control of corticospinal system development and evolution

(2012) Sungbo Shim et al.   NATURE

c-Jun Reprograms Schwann Cells of Injured Nerves to Generate a Repair Cell Essential for Regeneration

(2012) Peter J. Arthur-Farraj et al.   NEURON

YAP1, the nuclear target of Hippo signaling, stimulates heart growth through cardiomyocyte proliferation but not hypertrophy

(2012) A. von Gise et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Regulation of neonatal and adult mammalian heart regeneration by the miR-15 family

(2012) E. R. Porrello et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Bone Regenerates via Dedifferentiation of Osteoblasts in the Zebrafish Fin

(2011) Franziska Knopf et al.   DEVELOPMENTAL CELL

Epigenetic reprogramming during tissue regeneration

(2011) Tomonori Katsuyama et al.   FEBS LETTERS

The super elongation complex (SEC) and MLL in development and disease

(2011) E. Smith et al.   GENES & DEVELOPMENT

Regulation of Primary Response Genes

(2011) Trent Fowler et al.   MOLECULAR CELL

Histone code pathway involving H3 S28 phosphorylation and K27 acetylation activates transcription and antagonizes polycomb silencing

(2011) P. N. I. Lau et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Clonogenic Neoblasts Are Pluripotent Adult Stem Cells That Underlie Planarian Regeneration

(2011) D. E. Wagner et al.   SCIENCE

Transient Regenerative Potential of the Neonatal Mouse Heart

(2011) E. R. Porrello et al.   SCIENCE

TNF/p38α/Polycomb Signaling to Pax7 Locus in Satellite Cells Links Inflammation to the Epigenetic Control of Muscle Regeneration

(2010) Daniela Palacios et al.   Cell Stem Cell

IGF signaling between blastema and wound epidermis is required for fin regeneration

(2010) F. Chablais et al.   DEVELOPMENT

Functional convergence of signalling by GPI-anchored and anchorless forms of a salamander protein implicated in limb regeneration

(2010) R. A. Blassberg et al.   JOURNAL OF CELL SCIENCE

Conditional gene expression and lineage tracing of tuba1a expressing cells during zebrafish development and retina regeneration

(2010) Rajesh Ramachandran et al.   JOURNAL OF COMPARATIVE NEUROLOGY

Polycomb Group Protein Displacement and Gene Activation through MSK-Dependent H3K27me3S28 Phosphorylation

(2010) Simmi Suman Gehani et al.   MOLECULAR CELL

Primary contribution to zebrafish heart regeneration by gata4 + cardiomyocytes

(2010) Kazu Kikuchi et al.   NATURE

Zebrafish heart regeneration occurs by cardiomyocyte dedifferentiation and proliferation

(2010) Chris Jopling et al.   NATURE

A unique chromatin signature uncovers early developmental enhancers in humans

(2010) Alvaro Rada-Iglesias et al.   NATURE

Conversion of adult pancreatic α-cells to β-cells after extreme β-cell loss

(2010) Fabrizio Thorel et al.   NATURE

Advances in understanding tissue regenerative capacity and mechanisms in animals

(2010) Kenneth D. Poss   NATURE REVIEWS GENETICS

Cytokine/Jak/Stat Signaling Mediates Regeneration and Homeostasis in the Drosophila Midgut

(2009) Huaqi Jiang et al.   CELL

Recruitment of Polycomb group complexes and their role in the dynamic regulation of cell fate choice

(2009) B. Schuettengruber et al.   DEVELOPMENT

Epigenetic reprogramming during wound healing: loss of polycomb-mediated silencing may enable upregulation of repair genes

(2009) Tanya Shaw et al.   EMBO REPORTS

Polycomb protein Ezh2 regulates pancreatic  -cell Ink4a/Arf expression and regeneration in diabetes mellitus

(2009) H. Chen et al.   GENES & DEVELOPMENT

Effect of locally delivered IGF-1 on nerve regeneration during aging: An experimental study in rats

(2009) Peter J. Apel et al.   MUSCLE & NERVE

Cells keep a memory of their tissue origin during axolotl limb regeneration

(2009) Martin Kragl et al.   NATURE

A histone demethylase is necessary for regeneration in zebrafish

(2009) S. Stewart et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Complexity in Transcription Control at the Activation Domain-Mediator Interface

(2009) M. A. Balamotis et al.   Science Signaling

Hematopoietic Stem Cells Reversibly Switch from Dormancy to Self-Renewal during Homeostasis and Repair

(2008) Anne Wilson et al.   CELL