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Omics score: 1000

Single (1 NP) GAM datasets collected from mouse ES cells

ABSTRACT: Single (1 NP) GAM datasets collected from mouse ES cells

PROVIDER: PRJNA700653 | ENA |

REPOSITORIES: ENA

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Single (1 NP) GAM datasets collected from mouse ES cells

Project description:Technologies for measuring 3D genome topology are increasingly important for studying mechanisms of gene regulation, for genome assembly and for mapping of genome rearrangements. We applied the original GAM protocol to Mouse ES cells to generate a deeper dataset for comparison to Hi-C. Overall design: This series contains GAM samples each containing a single nuclear profiles from mouse embryonic stem (mES) cells.

2022-06-13 | GSE166378 | GEO

Single and Multiplex GAM datasets from mouse ES cells

Project description:Single and Multiplex GAM datasets from mouse ES cells

| PRJNA700649 | ENA

Multiplex GAM datasets collected with an average of three nuclear profiles each

Project description:Technologies for measuring 3D genome topology are increasingly important for studying mechanisms of gene regulation, for genome assembly and for mapping of genome rearrangements. We developed multiplex-GAM, a faster and more affordable version of Genome Architecture Mapping (GAM), a ligation-free technique to map chromatin contacts genome-wide. We applied multiplex-GAM to Mouse ES cells. Overall design: This series contains multiplex-GAM samples each containing an average of three nuclear profiles from mouse embryonic stem (mES) cells.

2022-06-13 | GSE166380 | GEO

Single GAM datasets collected with one nuclear profile each (samples failing QC)

Project description:Technologies for measuring 3D genome topology are increasingly important for studying mechanisms of gene regulation, for genome assembly and for mapping of genome rearrangements. We applied the original GAM protocol to Mouse ES cells to generate a deeper dataset for comparison to Hi-C. Overall design: This series contains GAM samples with a single nuclear profile from mouse embryonic stem (mES) cells that failed our QC checks.

2022-06-13 | GSE166377 | GEO

Multiplex GAM datasets collected with an average of three nuclear profiles each (samples failing QC)

Project description:Technologies for measuring 3D genome topology are increasingly important for studying mechanisms of gene regulation, for genome assembly and for mapping of genome rearrangements. We developed multiplex-GAM, a faster and more affordable version of Genome Architecture Mapping (GAM), a ligation-free technique to map chromatin contacts genome-wide. We applied multiplex-GAM to Mouse ES cells. Overall design: This series contains multiplex-GAM samples containing an average of three nuclear profiles from mouse embryonic stem (mES) cells that failed our QC checks.

2022-06-13 | GSE166379 | GEO

Single GAM datasets collected with one nuclear profile each (samples failing QC)

Project description:Single GAM datasets collected with one nuclear profile each (samples failing QC)

| PRJNA700650 | ENA

Multiplex GAM datasets collected with an average of three nuclear profiles each

Project description:Multiplex GAM datasets collected with an average of three nuclear profiles each

| PRJNA700651 | ENA

Single and Multiplex GAM datasets from mouse ES cells

Project description:This SuperSeries is composed of the SubSeries listed below. Overall design: Refer to individual Series Processed data files included at the foot of this record: gam_contact_matrices_40kb.tar.gz - "GAM normalised linkage (Dprime) matrices at 40kb resolution." slice_interaction_matrices_40kb.tar.gz - "SLICE prominent interaction matrices (thresholded at p<=0.05) at 40kb resolution."

2022-06-13 | GSE166381 | GEO

Multiplex GAM datasets collected with an average of three nuclear profiles each (samples failing QC)

Project description:Multiplex GAM datasets collected with an average of three nuclear profiles each (samples failing QC)

| PRJNA700652 | ENA

Methylome analysis of 18 wild-type and mutant mouse ES, NP and MEF cells

Project description:The analysis of the 18 methylomes comprise 3 biological replicates of TDG+/- ES cells, 3 biological replicates of TDG-/- ES cells, 3 biological replicates of TDG+/- NP cells, 3 biological replicates of TDG-/- NP cells, 3 biological replicates of TDG+/+ MEF cells and 3 biological replicates of TDG-/- MEF cells. Overall design: Analysis of the 18 methylomes comprise 3 biological replicates of TDG+/- ES cells, 3 biological replicates of TDG-/- ES cells, 3 biological replicates of TDG+/- NP cells, 3 biological replicates of TDG-/- NP cells, 3 biological replicates of TDG+/+ MEF cells and 3 biological replicates of TDG-/- MEF cells

2011-02-24 | GSE27468 | GEO

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