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Article
Open AccessCohesin couples transcriptional bursting probabilities of inducible enhancers and promoters
Innate immune responses rely on inducible gene expression programmes which, in contrast to steady-state transcription, are highly dependent on cohesin. Here we address transcriptional parameters underlying thi...
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Chapter and Conference Paper
Application of Activated Carbon on Induced Heating-Healing Characteristics of Aged Mixes
Aging phenomenon reduces the flexibility of asphalt pavements. Excessive loading and environmental conditions make asphalt mixes more prone to cracks/micro-cracks initiation and propagation. Cracks/micro-crack...
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Article
Cell competition acts as a purifying selection to eliminate cells with mitochondrial defects during early mouse development
Cell competition is emerging as a quality-control mechanism that eliminates unfit cells in a wide range of settings from development to the adult. However, the nature of the cells normally eliminated by cell c...
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Article
Open AccessThe order and logic of CD4 versus CD8 lineage choice and differentiation in mouse thymus
CD4 and CD8 mark helper and cytotoxic T cell lineages, respectively, and serve as coreceptors for MHC-restricted TCR recognition. How coreceptor expression is matched with TCR specificity is central to underst...
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Article
Open AccessSurveillance of cohesin-supported chromosome structure controls meiotic progression
Chromosome movements and programmed DNA double-strand breaks (DSBs) promote homologue pairing and initiate recombination at meiosis onset. Meiotic progression involves checkpoint-controlled termination of thes...
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Article
FACT mediates cohesin function on chromatin
Cohesin is a regulator of genome architecture with roles in sister chromatid cohesion and chromosome compaction. The recruitment and mobility of cohesin complexes on DNA is restricted by nucleosomes. Here, we ...
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Article
Open AccessLTR retrotransposons transcribed in oocytes drive species-specific and heritable changes in DNA methylation
De novo DNA methylation (DNAme) during mouse oogenesis occurs within transcribed regions enriched for H3K36me3. As many oocyte transcripts originate in long terminal repeats (LTRs), which are heterogeneous eve...
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Article
Open AccessDevelopment and application of an integrated allele-specific pipeline for methylomic and epigenomic analysis (MEA)
Allele-specific transcriptional regulation, including of imprinted genes, is essential for normal mammalian development. While the regulatory regions controlling imprinted genes are associated with DNA methyla...
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Article
On the role of H3.3 in retroviral silencing
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Article
Development of a stress-mode sensitive viscoelastic constitutive relationship for asphalt concrete: experimental and numerical modeling
Asphalt binder is responsible for the thermo-viscoelastic mechanical behavior of asphalt concrete. Upon application of pure compressive stress to an asphalt concrete specimen, the stress is transferred by mech...
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Chapter and Conference Paper
Microstructure-Based Visco-Elastoplastic Continuum Model of Asphalt Concrete
Asphalt concrete is a heterogeneous and multi-phase material that consists of aggregates, asphalt binder, and pores. These components create a complex microstructure. There is no consensus on how to quantify t...
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Article
Open AccessVisRseq: R-based visual framework for analysis of sequencing data
Several tools have been developed to enable biologists to perform initial browsing and exploration of sequencing data. However the computational tool set for further analyses often requires significant computa...
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Article
An ultra-low-input native ChIP-seq protocol for genome-wide profiling of rare cell populations
Combined chromatin immunoprecipitation and next-generation sequencing (ChIP-seq) has enabled genome-wide epigenetic profiling of numerous cell lines and tissue types. A major limitation of ChIP-seq, however, i...
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Article
Vitamin C induces Tet-dependent DNA demethylation and a blastocyst-like state in ES cells
Vitamin C is a direct regulator of Tet enzyme activity and DNA methylation fidelity in mouse ES cells; addition of vitamin C promotes Tet activity, increases 5-hydroxymethlycytosine (5hmC) and DNA demethylatio...
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Article
Open AccessDistinct roles of KAP1, HP1 and G9a/GLP in silencing of the two-cell-specific retrotransposon MERVL in mouse ES cells
In mouse embryonic stem cells (mESCs), transcriptional silencing of numerous class I and II endogenous retroviruses (ERVs), including IAP, ETn and MMERVK10C, is dependent upon the H3K9 methyltransferase (KMTas...
