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DNA methylation dynamics during embryonic development and postnatal maturation of the mouse auditory organ of Corti

https://doi.org/10.1101/262832
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What this work says

Outgoing claims: the papers this work cites, builds on, or argues with.

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A deletion mutation in GJB6 cooperating with a GJB2 mutation in trans in non-syndromic deafness: A novel founder mutation in Ashkenazi Jews
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Bone marrow‐derived cells expressing Iba1 are constitutively present as resident tissue macrophages in the mouse cochlea
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The influence of NF‐κB signal‐transduction pathways on the murine inner ear by acoustic overstimulation
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The molecular basis of craniofacial placode development
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Multiple enhancers located in a 1-Mb region upstream of POU3F4 promote expression during inner ear development and may be required for hearing
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Applications for single cell trajectory analysis in inner ear development and regeneration
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Expression of Fractalkine Receptor CX3CR1 on Cochlear Macrophages Influences Survival of Hair Cells Following Ototoxic Injury
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Atoh1, an Essential Transcription Factor in Neurogenesis and Intestinal and Inner Ear Development: Function, Regulation, and Context Dependency
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Induction of Pluripotent Stem Cells from Mouse Embryonic and Adult Fibroblast Cultures by Defined Factors
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Hox2 Genes Are Required for Tonotopic Map Precision and Sound Discrimination in the Mouse Auditory Brainstem
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Global Chromatin State Analysis Reveals Lineage-Specific Enhancers during the Initiation of Human T helper 1 and T helper 2 Cell Polarization
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Apoptosis in inner ear sensory hair cells
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Simple Combinations of Lineage-Determining Transcription Factors Prime cis-Regulatory Elements Required for Macrophage and B Cell Identities
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Hearing Impairment: A Panoply of Genes and Functions
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Selective activation of nuclear factor kappa B in the cochlea by sensory and inflammatory stress
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MiR-182-5p protects inner ear hair cells from cisplatin-induced apoptosis by inhibiting FOXO3a
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DNA-binding factors shape the mouse methylome at distal regulatory regions
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A map of the cis-regulatory sequences in the mouse genome
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A comparative encyclopedia of DNA elements in the mouse genome
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Integrative analysis of 111 reference human epigenomes
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GREAT improves functional interpretation of cis-regulatory regions
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Identification of mouse cochlear progenitors that develop hair and supporting cells in the organ of Corti
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A gradient of Bmp7 specifies the tonotopic axis in the developing inner ear
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RFX transcription factors are essential for hearing in mice
inferredcites →https://doi.org/10.1038/ncomms9557openalex-snapshot
Single-cell RNA-Seq resolves cellular complexity in sensory organs from the neonatal inner ear
inferredcites →https://doi.org/10.1038/ng.2443openalex-snapshot
Epigenomic analysis detects widespread gene-body DNA hypomethylation in chronic lymphocytic leukemia
inferredcites →https://doi.org/10.1038/ng.2746openalex-snapshot
Epigenetic memory at embryonic enhancers identified in DNA methylation maps from adult mouse tissues
inferredcites →https://doi.org/10.1038/nprot.2008.211openalex-snapshot
Systematic and integrative analysis of large gene lists using DAVID bioinformatics resources
inferredcites →https://doi.org/10.1038/nprot.2014.114openalex-snapshot
MethylC-seq library preparation for base-resolution whole-genome bisulfite sequencing
inferredcites →https://doi.org/10.1038/nrg3354openalex-snapshot
DNA methylation: roles in mammalian development
inferredcites →https://doi.org/10.1038/nrn1987openalex-snapshot
Regulation of cell fate in the sensory epithelia of the inner ear
inferredcites →https://doi.org/10.1038/s41598-017-02960-1openalex-snapshot
XBP1-FoxO1 interaction regulates ER stress-induced autophagy in auditory cells
inferredcites →https://doi.org/10.1038/s41598-017-08320-3openalex-snapshot
Genome-wide identification and expression profiling of long non-coding RNAs in auditory and vestibular systems
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Exploring regulatory networks of miR-96 in the developing inner ear
inferredcites →https://doi.org/10.1046/j.1365-2273.2000.00327.xopenalex-snapshot
Non-syndromic autosomal dominant progressive non-specific mid-frequency sensorineural hearing impairment with childhood to late adolescence onset (DFNA21)
inferredcites →https://doi.org/10.1073/pnas.0707456104openalex-snapshot
The E-protein Tcf4 interacts with Math1 to regulate differentiation of a specific subset of neuronal progenitors
inferredcites →https://doi.org/10.1073/pnas.0808175105openalex-snapshot
Sox2 signaling in prosensory domain specification and subsequent hair cell differentiation in the developing cochlea
inferredcites →https://doi.org/10.1073/pnas.1003089107openalex-snapshot
Notch signaling is required for the generation of hair cells and supporting cells in the mammalian inner ear
inferredcites →https://doi.org/10.1073/pnas.1320308111openalex-snapshot
Global view of enhancer–promoter interactome in human cells
inferredcites →https://doi.org/10.1073/pnas.1411269112openalex-snapshot
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inferredcites →https://doi.org/10.1073/pnas.1605537113openalex-snapshot
Single-cell analysis delineates a trajectory toward the human early otic lineage
inferredcites →https://doi.org/10.1073/pnas.1703408114openalex-snapshot
Auditory cortex interneuron development requires cadherins operating hair-cell mechanoelectrical transduction
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The Sequence Alignment/Map format and SAMtools
inferredcites →https://doi.org/10.1093/bioinformatics/btr167openalex-snapshot
Bismark: a flexible aligner and methylation caller for Bisulfite-Seq applications
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Inhibitory synaptogenesis in mouse somatosensory cortex
inferredcites →https://doi.org/10.1093/hmg/ddu023openalex-snapshot
microRNA-224 regulates Pentraxin 3, a component of the humoral arm of innate immunity, in inner ear inflammation
inferredcites →https://doi.org/10.1093/nar/gkt599openalex-snapshot
Identification of active regulatory regions from DNA methylation data
inferredcites →https://doi.org/10.1093/nar/gkt997openalex-snapshot
JASPAR 2014: an extensively expanded and updated open-access database of transcription factor binding profiles
inferredcites →https://doi.org/10.1093/nar/gkw398openalex-snapshot
CHOPCHOP v2: a web tool for the next generation of CRISPR genome engineering
inferredcites →https://doi.org/10.1101/cshperspect.a008409openalex-snapshot
Molecular Mechanisms of Inner Ear Development
inferredcites →https://doi.org/10.1101/gad.1303905openalex-snapshot
Wnt-dependent regulation of inner ear morphogenesis is balanced by the opposing and supporting roles of Shh
inferredcites →https://doi.org/10.1101/gr.083451.108openalex-snapshot
Finding the fifth base: Genome-wide sequencing of cytosine methylation
inferredcites →https://doi.org/10.1101/gr.147942.112openalex-snapshot
Dynamic DNA methylation across diverse human cell lines and tissues
inferredcites →https://doi.org/10.1121/1.2180533openalex-snapshot
Frequency- and level-dependent changes in auditory brainstem responses (ABRs) in developing mice
inferredcites →https://doi.org/10.1126/science.1222794openalex-snapshot
Systematic Localization of Common Disease-Associated Variation in Regulatory DNA
inferredcites →https://doi.org/10.1126/science.1237905openalex-snapshot
Global Epigenomic Reconfiguration During Mammalian Brain Development
inferredcites →https://doi.org/10.1136/jmg.2003.010702openalex-snapshot
A novel locus for autosomal dominant non-syndromic hearing loss, DFNA31, maps to chromosome 6p21.3
inferredcites →https://doi.org/10.1158/0008-5472.can-12-4403openalex-snapshot
β-Catenin/POU5F1/SOX2 Transcription Factor Complex Mediates IGF-I Receptor Signaling and Predicts Poor Prognosis in Lung Adenocarcinoma
inferredcites →https://doi.org/10.1159/000335119openalex-snapshot
SLC26A4 Genotypes and Phenotypes Associated with Enlargement of the Vestibular Aqueduct
inferredcites →https://doi.org/10.1186/1471-2164-15-484openalex-snapshot
Next-generation sequencing of small RNAs from inner ear sensory epithelium identifies microRNAs and defines regulatory pathways
inferredcites →https://doi.org/10.1186/gb-2011-12-9-r89openalex-snapshot
Targeted genomic capture and massively parallel sequencing to identify genes for hereditary hearing loss in middle eastern families
inferredcites →https://doi.org/10.1186/preaccept-1176565312639289openalex-snapshot
Expanded identification and characterization of mammalian circular RNAs
inferredcites →https://doi.org/10.1186/s12859-015-0742-6openalex-snapshot
methylPipe and compEpiTools: a suite of R packages for the integrative analysis of epigenomics data
inferredcites →https://doi.org/10.1203/pdr.0b013e3181aabd7fopenalex-snapshot
Deafness Genes in Israel: Implications for Diagnostics in the Clinic
inferredcites →https://doi.org/10.1242/dev.00628openalex-snapshot
The role ofSix1in mammalian auditory system development
inferredcites →https://doi.org/10.1242/dev.067074openalex-snapshot
Shaping sound in space: the regulation of inner ear patterning
inferredcites →https://doi.org/10.1242/dev.069849openalex-snapshot
Dual embryonic origin of the mammalian otic vesicle forming the inner ear
inferredcites →https://doi.org/10.1242/dev.126.11.2335openalex-snapshot
Otx1 and Otx2 activities are required for the normal development of the mouse inner ear
inferredcites →https://doi.org/10.1242/dev.148494openalex-snapshot
A systems-level approach reveals new gene regulatory modules in the developing ear
inferredcites →https://doi.org/10.1371/journal.pgen.1002309openalex-snapshot
Cell Type–Specific Transcriptome Analysis Reveals a Major Role for Zeb1 and miR-200b in Mouse Inner Ear Morphogenesis
inferredcites →https://doi.org/10.1371/journal.pgen.1002389openalex-snapshot
Genomic Distribution and Inter-Sample Variation of Non-CpG Methylation across Human Cell Types
inferredcites →https://doi.org/10.1371/journal.pone.0069126openalex-snapshot
Nuclear Translocation of B-Cell-Specific Transcription Factor, BACH2, Modulates ROS Mediated Cytotoxic Responses in Mantle Cell Lymphoma
inferredcites →https://doi.org/10.1371/journal.pone.0094408openalex-snapshot
Tcf3 Represses Wnt–β-Catenin Signaling and Maintains Neural Stem Cell Population during Neocortical Development
inferredcites →https://doi.org/10.1523/jneurosci.5126-14.2015openalex-snapshot
Gene Expression by Mouse Inner Ear Hair Cells during Development
inferredcites →https://doi.org/10.1523/jneurosci.5785-10.2012openalex-snapshot
The stat3/socs3a Pathway Is a Key Regulator of Hair Cell Regeneration in Zebrafish stat3/socs3a Pathway: Regulator of Hair Cell Regeneration
inferredcites →https://doi.org/10.3389/fphar.2014.00205openalex-snapshot
Immune system of the inner ear as a novel therapeutic target for sensorineural hearing loss
inferredcites →https://doi.org/10.4161/epi.29676openalex-snapshot
Aberrant signature methylome by DNMT1 hot spot mutation in hereditary sensory and autonomic neuropathy 1E
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Discovery and validation of sub-threshold genome-wide association study loci using epigenomic signatures

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Incoming claims: where this work appears in other papers’ reference lists and arguments.

inferred← citeshttps://doi.org/10.1038/s41598-019-45515-2openalex-snapshot
Open chromatin dynamics in prosensory cells of the embryonic mouse cochlea
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