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Krox20 hindbrain regulation in Zebrafish [ATAC-seq]

ABSTRACT: Krox20 hindbrain regulation in Zebrafish [ATAC-seq]

PROVIDER: PRJNA451199 | ENA |

REPOSITORIES: ENA

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Krox20 hindbrain regulation in Zebrafish [ATAC-seq]

Project description:In the present study, we have identified six enhancers located within the zebrafish krox20 locus, using accessibility data generated by ATAC-seq and characterized their activity profiles as well as their functions and interactions in the zebrafish hindbrain . We also investigated the orthologues in six evolutionary distant vertebrates of one of these element, showing a great variety of activity profiles demonstrating the striking evolutionary flexibility of this element .

2018-07-26 | GSE113471 | GEO

Krox20 hindbrain regulation involves multiple modes of cooperation between cis-acting elements [ATAC-seq]

Project description:Many genes harbour multiple transcriptional enhancers that act concomitantly to achieve robust and precise spatial-temporal expression. In vertebrates, however, the mechanisms underlying cooperation between cis-acting elements are poorly documented. The mouse gene Krox20 encodes a transcription factor required for the specification of two segments (rhombomeres) of the developing hindbrain. In rhombomere 3, Krox20 is subject to positive feedback, governed by enhancer A, which is directly bound by the KROX20 protein, whereas another element, C, distant from 70 kb, was supposed to be only required for initiation of expression. Here, using both enhancer knock-outs and investigations of chromatin organisation, we show that element C possesses a dual activity: besides its classical enhancer function, it is also permanently required in cis to potentiate element A autoregulatory activity, by increasing its chromatin accessibility. This work uncovers a novel, asymmetrical, long-range mode of cooperation between cis-acting elements that might be essential to avoid promiscuous activation of positive autoregulatory elements.

2017-07-18 | GSE97102 | GEO

A single cell transcriptome atlas of the developing zebrafish hindbrain [scRNA-Seq]

Project description:Purpose: The goal of this study is to understand the progressive patterning of neurogenesis of the developing zebrafish hindbrain. 16hpf, 24hpf and 44hpf zebrafish hindbrains were used for single-cell RNA-sequencing with the aim to uncover hindbrain development. Methods: 40 microdissected hindbrains per each stage were dissociated at loaded into the 10x Genomics Chromium Platform, and sequenced using Illumina HiSeq 4000. Conclusions: Our study constitute a resource of hindbrain gene expression during development. We have identified transcriptional programs involved in: rhombomere segmental identity, dorso-ventral patterning, boundary and centre progenitor cells and temporal regulation of neurogenesis.

2019-12-05 | GSE141427 | GEO

Krox20 hindbrain regulation involves multiple modes of cooperation between cis-acting elements

Project description:Krox20 hindbrain regulation involves multiple modes of cooperation between cis-acting elements

| PRJNA373839 | ENA

Potential role of gas6 in zebrafish hindbrain development

Project description:identification of differentially expressed genes in gas6 homozygous mutant hindbrain when compared to wildtype hindbrain in zebrafish

2018-07-15 | GSE113396 | GEO

ATAC-seq from hindbrain (ENCSR623GSD)

Project description:ATAC-seq on embryonic e16.5 mouse hindbrain For data usage terms and conditions, please refer to http://www.genome.gov/27528022 and http://www.genome.gov/Pages/Research/ENCODE/ENCODE_Data_Use_Policy_for_External_Users_03-07-14.pdf

2021-04-22 | GSE172800 | GEO

ATAC-seq from hindbrain (ENCSR312LQX)

Project description:ATAC-seq on postnatal p0 mouse hindbrain For data usage terms and conditions, please refer to http://www.genome.gov/27528022 and http://www.genome.gov/Pages/Research/ENCODE/ENCODE_Data_Use_Policy_for_External_Users_03-07-14.pdf

2021-04-22 | GSE172698 | GEO

ATAC-seq from hindbrain (ENCSR176BYZ)

Project description:ATAC-seq on embryonic e13.5 mouse hindbrain For data usage terms and conditions, please refer to http://www.genome.gov/27528022 and http://www.genome.gov/Pages/Research/ENCODE/ENCODE_Data_Use_Policy_for_External_Users_03-07-14.pdf

2021-04-22 | GSE172912 | GEO

ATAC-seq from hindbrain (ENCSR798FDL)

Project description:ATAC-seq on embryonic e14.5 mouse hindbrain For data usage terms and conditions, please refer to http://www.genome.gov/27528022 and http://www.genome.gov/Pages/Research/ENCODE/ENCODE_Data_Use_Policy_for_External_Users_03-07-14.pdf

2021-04-22 | GSE172668 | GEO

ATAC-seq from hindbrain (ENCSR662KNY)

Project description:ATAC-seq on embryonic e15.5 mouse hindbrain For data usage terms and conditions, please refer to http://www.genome.gov/27528022 and http://www.genome.gov/Pages/Research/ENCODE/ENCODE_Data_Use_Policy_for_External_Users_03-07-14.pdf

2021-04-22 | GSE172917 | GEO

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