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Synthetic genomic reconstitution reveals principles of mammalian Hox cluster regulation

ABSTRACT: Synthetic genomic reconstitution reveals principles of mammalian Hox cluster regulation

PROVIDER: PRJNA788909 | ENA |

REPOSITORIES: ENA

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Synthetic genomic reconstitution reveals principles of mammalian Hox cluster regulation [Hi-C]

Project description:Synthetic genomic reconstitution reveals principles of mammalian Hox cluster regulation [Hi-C]

| PRJNA788890 | ENA

Synthetic genomic reconstitution reveals principles of mammalian Hox cluster regulation [DNA-Seq]

Project description:Synthetic genomic reconstitution reveals principles of mammalian Hox cluster regulation [DNA-Seq]

| PRJNA788891 | ENA

Synthetic genomic reconstitution reveals principles of mammalian Hox cluster regulation [ChIP-Seq]

Project description:Synthetic genomic reconstitution reveals principles of mammalian Hox cluster regulation [ChIP-Seq]

| PRJNA788892 | ENA

Synthetic genomic reconstitution reveals principles of mammalian Hox cluster regulation [RNA-Seq]

Project description:Synthetic genomic reconstitution reveals principles of mammalian Hox cluster regulation [RNA-Seq]

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Synthetic genomic reconstitution reveals principles of mammalian Hox cluster regulation [RNA-Seq]

Project description:Precise Hox gene expression is crucial for embryonic patterning. Local transcription factor binding and distal enhancer elements have emerged as the major regulatory modes controlling the initiation and maintenance of Hox gene expression. However, quantifying their relative contributions has remained elusive. Here, we introduce ‘synthetic regulatory reconstitution’, a novel conceptual framework for studying gene regulation and apply it to the mammalian HoxA cluster. To measure the HoxA intrinsic regulatory potential and distal enhancer contributions, we de novo synthesized and delivered variant rat HoxA clusters (130-170 kilobases each) to an ectopic location in the mouse genome. We find that a minimal HoxA cluster lacking distal enhancers induces the appropriate gene set and establishes distinct chromatin domains in response to patterning signals, while distal enhancers are required for full transcriptional output. These results suggest that the genomically compact Hox clusters contain all the information to decode patterning signals and maintain positional information

2021-12-16 | GSE190896 | GEO

Synthetic genomic reconstitution reveals principles of mammalian Hox cluster regulation [Hi-C]

2021-12-16 | GSE190894 | GEO

Synthetic genomic reconstitution reveals principles of mammalian Hox cluster regulation [DNA-Seq]

2021-12-16 | GSE190893 | GEO

Synthetic genomic reconstitution reveals principles of mammalian Hox cluster regulation [ChIP-Seq]

2021-12-16 | GSE190892 | GEO

Synthetic genomic reconstitution reveals principles of mammalian Hox cluster regulation

Project description:This SuperSeries is composed of the SubSeries listed below.

2021-12-16 | GSE190906 | GEO

A single 3D chromatin compartment in amphioxus Hox cluster suggests a stepwise evolutionary origin for vertebrate Hox bimodal regulatory topologies

Project description:Comparison among vertebrates and the cephalochordate amphioxus Hox clusters architectures 4C-seq experiments from promoters spanning the amphioxus Hox cluster and the zebrafish hoxd cluster and surrounnding areas,

2015-12-16 | E-GEOD-68737 | biostudies-arrayexpress

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