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ChIP-Seq of ES-E14 mouse embryonic stem cells investigating changes in Sall4

ABSTRACT: Sall4 is a stem cell factor which is important for embryogenesis. We have genetically modified Sall4 in mouse embryonic stem cells to access the preference of Sall4 binding site. There are three different genetic modifications for the ES cells in the form of Sall4 Knockout (KO), Sall4 Zinc Finger Cluster 4 Mutation (ZFC4mut) and Sall4 Zinc Finger Cluster 1-2 Deletion (ZFC1-2Δ) respectively that we have considered for our study.

INSTRUMENT(S): Illumina HiSeq 4000

ORGANISM(S): Mus musculus

SUBMITTER: Raphaël Pantier

PROVIDER: E-MTAB-9197 | biostudies-arrayexpress |

REPOSITORIES: biostudies-arrayexpress

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SALL4 controls cell fate in response to DNA base composition.

Pantier Raphaël R Chhatbar Kashyap K Quante Timo T Skourti-Stathaki Konstantina K Cholewa-Waclaw Justyna J Alston Grace G Alexander-Howden Beatrice B Lee Heng Yang HY Cook Atlanta G AG Spruijt Cornelia G CG Vermeulen Michiel M Selfridge Jim J Bird Adrian A

Molecular cell 20210105 4

Mammalian genomes contain long domains with distinct average compositions of A/T versus G/C base pairs. In a screen for proteins that might interpret base composition by binding to AT-rich motifs, we identified the stem cell factor SALL4, which contains multiple zinc fingers. Mutation of the domain responsible for AT binding drastically reduced SALL4 genome occupancy and prematurely upregulated genes in proportion to their AT content. Inactivation of this single AT-binding zinc-finger cluster mi ...[more]

PMID: 33406384

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HT-SELEX of wild-type and mutated versions of recombinant DNA binding domain of SALL4

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2023-01-04 | E-MTAB-11519 | biostudies-arrayexpress

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Project description:Sall4 is a stem cell factor which is important for embryogenesis. We have genetically modified Sall4 in mouse embryonic stem cells to access the transcriptional changes. There are three different genetic modifications for the ES cells in the form of Sall4 Knockout (KO), Sall4 Zinc Finger Cluster 4 Mutation (ZFC4mut) and Sall4 Zinc Finger Cluster 1-2 Deletion (ZFC1-2Δ) respectively that we have considered for our study. Cells were subjected to neural differentiation and directly lysed on the plate at the appropriate timepoint and RNA was sequenced.

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2024-05-22 | PXD030774 | Pride

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HUES cells: control and overexpressing OCT4

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