Changes in chromatin accessibility ensure robust cell cycle exit in terminally differentiated cells

Regulation of Cell Cycle to Stimulate Adult Cardiomyocyte Proliferation and Cardiac Regeneration

(2018) Tamer M.A. Mohamed et al.   CELL

Chromatin organization changes during the establishment and maintenance of the postmitotic state

(2017) Yiqin Ma et al.   Epigenetics & Chromatin

Coordinating cell proliferation and differentiation: Antagonism between cell cycle regulators and cell type-specific gene expression

(2016) Suzan Ruijtenberg et al.   CELL CYCLE

Cycling through developmental decisions: how cell cycle dynamics control pluripotency, differentiation and reprogramming

(2016) Abdenour Soufi et al.   DEVELOPMENT

A biological timer in the fat body comprising Blimp-1, βFtz-f1 and Shade regulates pupation timing inDrosophila melanogaster

(2016) Kazutaka Akagi et al.   DEVELOPMENT

Alternate transcripts of the Drosophila “activator” E2F are necessary for maintenance of cell cycle exit during development

(2016) Mary-Rose Bradley-Gill et al.   DEVELOPMENTAL BIOLOGY

deepTools2: a next generation web server for deep-sequencing data analysis

(2016) Fidel Ramírez et al.   NUCLEIC ACIDS RESEARCH

Structural basis for LIN54 recognition of CHR elements in cell cycle-regulated promoters

(2016) Aimee H. Marceau et al.   Nature Communications

The Gene Expression Program for the Formation of Wing Cuticle in Drosophila

(2016) Lukasz F. Sobala et al.   PLoS Genetics

A feedback mechanism converts individual cell features into a supracellular ECM structure in Drosophila trachea

(2016) Arzu Öztürk-Çolak et al.   eLife

Ecdysone signaling induces two phases of cell cycle exit inDrosophilacells

(2016) Yongfeng Guo et al.   Biology Open

G1/S Inhibitors and the SWI/SNF Complex Control Cell-Cycle Exit during Muscle Differentiation

(2015) Suzan Ruijtenberg et al.   CELL

Invasive Cell Fate Requires G1 Cell-Cycle Arrest and Histone Deacetylase-Mediated Changes in Gene Expression

(2015) David Q. Matus et al.   DEVELOPMENTAL CELL

Brahma is required for cell cycle arrest and late muscle gene expression during skeletal myogenesis

(2015) S. Albini et al.   EMBO REPORTS

Structural mechanisms of DREAM complex assembly and regulation

(2015) Keelan Z. Guiley et al.   GENES & DEVELOPMENT

Rb and FZR1/Cdh1 determine CDK4/6-cyclin D requirement in C. elegans and human cancer cells

(2015) Inge The et al.   Nature Communications

Genome-Wide Analysis of Drosophila RBf2 Protein Highlights the Diversity of RB Family Targets and Possible Role in Regulation of Ribosome Biosynthesis

(2015) Yiliang Wei et al.   G3-Genes Genomes Genetics

HTSeq--a Python framework to work with high-throughput sequencing data

(2014) S. Anders et al.   BIOINFORMATICS

PePr: a peak-calling prioritization pipeline to identify consistent or differential peaks from replicated ChIP-Seq data

(2014) Yanxiao Zhang et al.   BIOINFORMATICS

A Retinoblastoma Allele That Is Mutated at Its Common E2F Interaction Site Inhibits Cell Proliferation in Gene-Targeted Mice

(2014) M. J. Cecchini et al.   MOLECULAR AND CELLULAR BIOLOGY

Enhancer–core-promoter specificity separates developmental and housekeeping gene regulation

(2014) Muhammad A. Zabidi et al.   NATURE

Modelling mammalian cellular quiescence

(2014) G. Yao   Interface Focus

The bHLH Factors Extramacrochaetae and Daughterless Control Cell Cycle in Drosophila Imaginal Discs through the Transcriptional Regulation of the cdc25 Phosphatase string

(2014) Irene Andrade-Zapata et al.   PLoS Genetics

Distinct mechanisms of transcriptional pausing orchestrated by GAGA factor and M1BP, a novel transcription factor

(2013) Jian Li et al.   EMBO JOURNAL

Fbw7-dependent cyclin E regulation ensures terminal maturation of bone marrow erythroid cells by restraining oxidative metabolism

(2013) Y Xu et al.   ONCOGENE

Genome-Wide Quantitative Enhancer Activity Maps Identified by STARR-seq

(2013) C. D. Arnold et al.   SCIENCE

Genome-wide Association of Yorkie with Chromatin and Chromatin-Remodeling Complexes

(2013) Hyangyee Oh et al.   Cell Reports

STAR: ultrafast universal RNA-seq aligner

(2012) Alexander Dobin et al.   BIOINFORMATICS

Combinatorial control of temporal gene expression in the Drosophila wing by enhancers and core promoters

(2012) David D O’Keefe et al.   BMC GENOMICS

Dissecting the mechanisms of Notch induced hyperplasia

(2012) Alexandre Djiane et al.   EMBO JOURNAL

RBF Binding to both Canonical E2F Targets and Noncanonical Targets Depends on Functional dE2F/dDP Complexes

(2012) M. Korenjak et al.   MOLECULAR AND CELLULAR BIOLOGY

Fast gapped-read alignment with Bowtie 2

(2012) Ben Langmead et al.   NATURE METHODS

Open chromatin defined by DNaseI and FAIRE identifies regulatory elements that shape cell-type identity

(2011) L. Song et al.   GENOME RESEARCH

Knockdown of Cyclin-dependent Kinase Inhibitors Induces Cardiomyocyte Re-entry in the Cell Cycle

(2011) Valeria Di Stefano et al.   JOURNAL OF BIOLOGICAL CHEMISTRY

Rb and p130 control cell cycle gene silencing to maintain the postmitotic phenotype in cardiac myocytes

(2011) Patima Sdek et al.   JOURNAL OF CELL BIOLOGY

A cis-regulatory map of the Drosophila genome

(2011) Nicolas Nègre et al.   NATURE

Integrative genomics viewer

(2011) James T Robinson et al.   NATURE BIOTECHNOLOGY

Quiescence: early evolutionary origins and universality do not imply uniformity

(2011) P. H. O'Farrell   PHILOSOPHICAL TRANSACTIONS OF THE ROYAL SOCIETY B-BIOLOGICAL SCIENCES

Caenorhabditis elegans Cyclin D/CDK4 and Cyclin E/CDK2 Induce Distinct Cell Cycle Re-Entry Programs in Differentiated Muscle Cells

(2011) Jerome Korzelius et al.   PLoS Genetics

ChIPpeakAnno: a Bioconductor package to annotate ChIP-seq and ChIP-chip data

(2010) Lihua J Zhu et al.   BMC BIOINFORMATICS

Retinoids Regulate a Developmental Checkpoint for Tissue Regeneration in Drosophila

(2010) Adrian Halme et al.   CURRENT BIOLOGY

A robust cell cycle control mechanism limits E2F-induced proliferation of terminally differentiated cells in vivo

(2010) Laura A. Buttitta et al.   JOURNAL OF CELL BIOLOGY

Molecular Maps of the Reorganization of Genome-Nuclear Lamina Interactions during Differentiation

(2010) Daan Peric-Hupkes et al.   MOLECULAR CELL

Transcript assembly and quantification by RNA-Seq reveals unannotated transcripts and isoform switching during cell differentiation

(2010) Cole Trapnell et al.   NATURE BIOTECHNOLOGY

Combined Inactivation of pRB and Hippo Pathways Induces Dedifferentiation in the Drosophila Retina

(2010) Brandon N. Nicolay et al.   PLoS Genetics

Systematic and integrative analysis of large gene lists using DAVID bioinformatics resources

(2009) Da Wei Huang et al.   Nature Protocols

MEME SUITE: tools for motif discovery and searching

(2009) T. L. Bailey et al.   NUCLEIC ACIDS RESEARCH

E2F2 expression induces proliferation of terminally differentiated cardiomyocytes in vivo

(2008) H. Ebelt et al.   CARDIOVASCULAR RESEARCH

Conserved functions of the pRB and E2F families

(2008) Sander van den Heuvel et al.   NATURE REVIEWS MOLECULAR CELL BIOLOGY

Model-based Analysis of ChIP-Seq (MACS)

(2008) Yong Zhang et al.   GENOME BIOLOGY

The DRE/DREF transcriptional regulatory system: a master key for cell proliferation

(2007) A MATSUKAGE et al.   Biochimica et Biophysica Acta-Gene Regulatory Mechanisms

Cell rearrangement and cell division during the tissue level morphogenesis of evaginating Drosophila imaginal discs

(2007) Job Taylor et al.   DEVELOPMENTAL BIOLOGY