Allelic chromatin structure precedes imprinted expression ofKcnk9during neurogenesis

Gli2-induced lncRNA Peg13 alleviates cerebral ischemia-reperfusion injury by suppressing Yy1 transcription in a PRC2 complex-dependent manner

(2023) Yanling Li et al.   METABOLIC BRAIN DISEASE

Long Non-coding RNA Peg13 Alleviates Hypoxic-Ischemic Brain Damage in Neonatal Mice via miR-20a-5p/XIAP Axis

(2022) Huan Gao et al.   NEUROCHEMICAL RESEARCH

The contribution of imprinted genes to neurodevelopmental and neuropsychiatric disorders

(2022) Anthony R. Isles   Translational Psychiatry

Tissue-specific Grb10/Ddc insulator drives allelic architecture for cardiac development

(2022) Aimee M. Juan et al.   MOLECULAR CELL

Effects of DNA Methylation on TFs in Human Embryonic Stem Cells

(2021) Ximei Luo et al.   Frontiers in Genetics

Deletion of CTCF sites in the SHH locus alters enhancer–promoter interactions and leads to acheiropodia

(2021) Aki Ushiki et al.   Nature Communications

Imprinted Maternally Expressed microRNAs Antagonize Paternally Driven Gene Programs in Neurons

(2020) Amanda J. Whipple et al.   MOLECULAR CELL

Inhibition of histone deacetylation rescues phenotype in a mouse model of Birk-Barel intellectual disability syndrome

(2020) Alexis Cooper et al.   Nature Communications

Parental-to-embryo switch of chromosome organization in early embryogenesis

(2020) Samuel Collombet et al.   NATURE

CTCF loss mediates unique DNA hypermethylation landscapes in human cancers

(2020) Nathan A. Damaschke et al.   Clinical Epigenetics

Long non-coding RNA Peg13 attenuates the sevoflurane toxicity against neural stem cells by sponging microRNA-128-3p to preserve Sox13 expression

(2020) Yunfeng Jiang et al.   PLoS One

Using long-read sequencing to detect imprinted DNA methylation

(2019) Scott Gigante et al.   NUCLEIC ACIDS RESEARCH

Genomic Imprinting and Physiological Processes in Mammals

(2019) Valter Tucci et al.   CELL

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

(2019) Judith Hyle et al.   NUCLEIC ACIDS RESEARCH

lncRNA-Induced Spread of Polycomb Controlled by Genome Architecture, RNA Abundance, and CpG Island DNA

(2019) Megan D. Schertzer et al.   MOLECULAR CELL

Methods for mapping 3D chromosome architecture

(2019) Rieke Kempfer et al.   NATURE REVIEWS GENETICS

Minimap2: pairwise alignment for nucleotide sequences

(2018) Heng Li   BIOINFORMATICS

Meg3 Non-coding RNA Expression Controls Imprinting by Preventing Transcriptional Upregulation in cis

(2018) Ildem Sanli et al.   Cell Reports

The discovery and importance of genomic imprinting

(2018) Anne C Ferguson-Smith et al.   eLife

The role of CNVs in the etiology of rare autosomal recessive disorders: the example of TRAPPC9-associated intellectual disability

(2017) Jérémie Mortreux et al.   EUROPEAN JOURNAL OF HUMAN GENETICS

Detecting DNA cytosine methylation using nanopore sequencing

(2017) Jared T Simpson et al.   NATURE METHODS

New Perspectives on Genomic Imprinting, an Essential and Multifaceted Mode of Epigenetic Control in the Developing and Adult Brain

(2016) Julio D. Perez et al.   Annual Review of Neuroscience

Juicer Provides a One-Click System for Analyzing Loop-Resolution Hi-C Experiments

(2016) Neva C. Durand et al.   Cell Systems

Juicebox Provides a Visualization System for Hi-C Contact Maps with Unlimited Zoom

(2016) Neva C. Durand et al.   Cell Systems

Disruptions of Topological Chromatin Domains Cause Pathogenic Rewiring of Gene-Enhancer Interactions

(2015) Darío G. Lupiáñez et al.   CELL

Germline-derived DNA methylation and early embryo epigenetic reprogramming: The selected survival of imprints

(2015) David Monk   INTERNATIONAL JOURNAL OF BIOCHEMISTRY & CELL BIOLOGY

WhatsHap: Weighted Haplotype Assembly for Future-Generation Sequencing Reads

(2015) Murray Patterson et al.   JOURNAL OF COMPUTATIONAL BIOLOGY

TRIM28 Controls Genomic Imprinting through Distinct Mechanisms during and after Early Genome-wide Reprogramming

(2015) Katherine A. Alexander et al.   Cell Reports

Quantitative and functional interrogation of parent-of-origin allelic expression biases in the brain

(2015) Julio D Perez et al.   eLife

A 3D Map of the Human Genome at Kilobase Resolution Reveals Principles of Chromatin Looping

(2014) Suhas S.P. Rao et al.   CELL

Multiplex CRISPR/Cas9-based genome engineering from a single lentiviral vector

(2014) Ami M. Kabadi et al.   NUCLEIC ACIDS RESEARCH

deepTools: a flexible platform for exploring deep-sequencing data

(2014) Fidel Ramírez et al.   NUCLEIC ACIDS RESEARCH

The PEG13-DMR and brain-specific enhancers dictate imprinted expression within the 8q24 intellectual disability risk locus

(2014) Franck Court et al.   Epigenetics & Chromatin

Genome-wide and parental allele-specific analysis of CTCF and cohesin DNA binding in mouse brain reveals a tissue-specific binding pattern and an association with imprinted differentially methylated regions

(2013) A. R. Prickett et al.   GENOME RESEARCH

Genome engineering using the CRISPR-Cas9 system

(2013) F Ann Ran et al.   Nature Protocols

Truncation of Ube3a-ATS Unsilences Paternal Ube3a and Ameliorates Behavioral Defects in the Angelman Syndrome Mouse Model

(2013) Linyan Meng et al.   PLoS Genetics

STAR: ultrafast universal RNA-seq aligner

(2012) Alexander Dobin et al.   BIOINFORMATICS

Base-Resolution Analyses of Sequence and Parent-of-Origin Dependent DNA Methylation in the Mouse Genome

(2012) Wei Xie et al.   CELL

TRAPPC9-related autosomal recessive intellectual disability: report of a new mutation and clinical phenotype

(2012) Giuseppe Marangi et al.   EUROPEAN JOURNAL OF HUMAN GENETICS

Global profiling of DNA methylation erasure in mouse primordial germ cells

(2012) S. Guibert et al.   GENOME RESEARCH

Widespread plasticity in CTCF occupancy linked to DNA methylation

(2012) H. Wang et al.   GENOME RESEARCH

A unique regulatory phase of DNA methylation in the early mammalian embryo

(2012) Zachary D. Smith et al.   NATURE

Fast gapped-read alignment with Bowtie 2

(2012) Ben Langmead et al.   NATURE METHODS

Trim28 Is Required for Epigenetic Stability During Mouse Oocyte to Embryo Transition

(2012) D. M. Messerschmidt et al.   SCIENCE

Airn Transcriptional Overlap, But Not Its lncRNA Products, Induces Imprinted Igf2r Silencing

(2012) P. A. Latos et al.   SCIENCE

More than insulator: multiple roles of CTCF at the H19-Igf2 imprinted domain

(2012) Purnima Singh et al.   Frontiers in Genetics

BamTools: a C++ API and toolkit for analyzing and managing BAM files

(2011) D. W. Barnett et al.   BIOINFORMATICS

Zinc Finger Protein ZFP57 Requires Its Co-factor to Recruit DNA Methyltransferases and Maintains DNA Methylation Imprint in Embryonic Stem Cells via Its Transcriptional Repression Domain

(2011) Xiaopan Zuo et al.   JOURNAL OF BIOLOGICAL CHEMISTRY

Chromosome-Wide Analysis of Parental Allele-Specific Chromatin and DNA Methylation

(2011) P. Singh et al.   MOLECULAR AND CELLULAR BIOLOGY

Distinct physiological and behavioural functions for parental alleles of imprinted Grb10

(2011) Alastair S. Garfield et al.   NATURE

Integrative genomics viewer

(2011) James T Robinson et al.   NATURE BIOTECHNOLOGY

BISMA - Fast and accurate bisulfite sequencing data analysis of individual clones from unique and repetitive sequences

(2010) Christian Rohde et al.   BMC BIOINFORMATICS

Targeted Deletion of Multiple CTCF-Binding Elements in the Human C-MYC Gene Reveals a Requirement for CTCF in C-MYC Expression

(2009) Wendy M. Gombert et al.   PLoS One

Maternally Inherited Birk Barel Mental Retardation Dysmorphism Syndrome Caused by a Mutation in the Genomically Imprinted Potassium Channel KCNK9

(2008) Ortal Barel et al.   AMERICAN JOURNAL OF HUMAN GENETICS

A Maternal-Zygotic Effect Gene, Zfp57, Maintains Both Maternal and Paternal Imprints

(2008) Xiajun Li et al.   DEVELOPMENTAL CELL

Polycomb Group Proteins Ezh2 and Rnf2 Direct Genomic Contraction and Imprinted Repression in Early Mouse Embryos

(2008) Rémi Terranova et al.   DEVELOPMENTAL CELL

Kcnq1ot1/Lit1 Noncoding RNA Mediates Transcriptional Silencing by Targeting to the Perinucleolar Region

(2008) F. Mohammad et al.   MOLECULAR AND CELLULAR BIOLOGY

Kcnq1ot1 Antisense Noncoding RNA Mediates Lineage-Specific Transcriptional Silencing through Chromatin-Level Regulation

(2008) Radha Raman Pandey et al.   MOLECULAR CELL

The Air Noncoding RNA Epigenetically Silences Transcription by Targeting G9a to Chromatin

(2008) T. Nagano et al.   SCIENCE