Browse
Submit Data
Databases
API
Help

Dataset Information

0 Views

0 Connections

0 Citations

0 Reanalyses

0 Downloads

Omics score: 0

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

ABSTRACT: 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.

ORGANISM(S): Mus musculus

PROVIDER: GSE166380 | GEO | 2022/06/13

REPOSITORIES: GEO

ACCESS DATA

Json Xml

Similar Datasets

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.

2022-06-13 | GSE166379 | 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.

2022-06-13 | GSE166377 | GEO

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

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

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.

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

Transcription profiling of human THP-1 cells wild type vs overexpressing GAM or siRNAs directed against GAM (siGAM) challenged by LPS

Project description:24 hours following transfection with either a control mix, a construct overexpressing GAM or siRNAs directed against GAM (siGAM), THP-1 cells were challenged with LPS 100 ng/ml. RNAs were analyzed after 6 hours of LPS challenge

2010-06-09 | E-TABM-868 | biostudies-arrayexpress

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 Chromatin Interactions with Single Molecule Precision

Project description:Emerging 3D genome mapping efforts suggest complex chromosomal folding structures. However, the true multiplex nature of chromatin interactions has yet to be fully explored. Here, we describe a chromatin interaction analysis by droplet-based sequencing (ChIA-Drop). In ChIA-Drop, individual chromatin complexes are partitioned into droplets that contain a gel bead of DNA-barcoded primers, such that tethered chromatin DNA fragments are uniquely indexed and amplified for sequencing and mapping to demarcate multiplex chromatin contacts. Thus, ChIA-Drop can identify complex chromatin interactions with unprecedented single-molecule precision, which is not possible using methods that analyze pairwise contacts via proximity ligation. We demonstrate that multiplex chromatin interactions predominantly contribute to topologically associated domains with high heterogeneity, and that multivalent promoter-centered interactions provide a topological model for gene transcription.

2019-02-11 | GSE109355 | GEO

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

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

| PRJNA700653 | ENA