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Links from GEO DataSets

Items: 20

1.

GTAC enables parallel genotyping of multiple genomic loci with chromatin accessibility profiling in single cells

(Submitter supplied) Understanding clonal evolution and cancer development requires experimental approaches for characterizing the consequences of somatic mutations on gene regulation. However, no methods currently exist that efficiently link chromatin accessibility with genotype in single cells. To address this, we developed Genotyping with the Assay for Transposase-Accessible Chromatin (GTAC), enabling accurate mutation detection at multiple amplified loci, coupled with robust chromatin accessibility readout. more...
Organism:
Homo sapiens
Type:
Genome binding/occupancy profiling by high throughput sequencing
Platforms:
GPL15520 GPL21697
5 Samples
Download data: TSV
Series
Accession:
GSE214812
ID:
200214812
2.

Efficient transcription-coupled chromatin accessibility mapping in situ

(Submitter supplied) Chromatin accessibility mapping is a powerful approach to identify potential regulatory elements. In the popular ATAC-seq method, Tn5 transposase inserts sequencing adapters into accessible DNA (‘tagmentation’). CUT&Tag is a tagmentation-based epigenomic profiling method in which antibody tethering of Tn5 to a chromatin epitope of interest profiles specific chromatin features in small samples and single cells. more...
Organism:
Homo sapiens
Type:
Genome binding/occupancy profiling by high throughput sequencing
Platform:
GPL16791
143 Samples
Download data: BED, BEDGRAPH, PDF
Series
Accession:
GSE158327
ID:
200158327
3.

Mapping genotypes to chromatin accessibility profiles in single cells

(Submitter supplied) This SuperSeries is composed of the SubSeries listed below.
Organism:
Homo sapiens
Type:
Other; Genome binding/occupancy profiling by high throughput sequencing
Platform:
GPL24676
55 Samples
Download data: CSV, MTX, TSV, TXT
Series
Accession:
GSE204912
ID:
200204912
4.

Mapping genotypes to chromatin accessibility profiles in single cells [Genotyping GoT-ChA amplicon]

(Submitter supplied) Processed scATAC-seq sequencing data from myelofibrosis patients and raw sequencing data from scATAC-seq cell mixing experiments
Organism:
Homo sapiens
Type:
Other
Platform:
GPL24676
27 Samples
Download data: CSV
Series
Accession:
GSE204911
ID:
200204911
5.

Mapping genotypes to chromatin accessibility profiles in single cells [scATAC-seq; Pt01-19;Pt-02 DOGMAseq]

(Submitter supplied) Processed scATAC-seq sequencing data from myelofibrosis patients and raw sequencing data from scATAC-seq cell mixing experiments
Organism:
Homo sapiens
Type:
Genome binding/occupancy profiling by high throughput sequencing
Platform:
GPL24676
28 Samples
Download data: CSV, MTX, TSV, TXT
Series
Accession:
GSE203251
ID:
200203251
6.

Human lineage tracing enabled by mitochondrial mutations and single cell genomics [CRC_ATAC]

(Submitter supplied) Lineage tracing provides unprecedented insights into the fate of individual cells and their progeny in complex organisms. While effective genetic approaches have been developed in vitro and in animal models, these cannot be used to interrogate human physiology in vivo. Instead, naturally occurring somatic mutations have been utilized to infer clonality and lineal relationships between cells in human tissues, but current approaches are limited by high error rates and scale, and provide little information about the state or function of the cells. more...
Organism:
Homo sapiens
Type:
Expression profiling by high throughput sequencing
Platform:
GPL18573
3 Samples
Download data: TSV
Series
Accession:
GSE122583
ID:
200122583
7.

Human lineage tracing enabled by mitochondrial mutations and single cell genomics [CRC_scRNA]

(Submitter supplied) Lineage tracing provides unprecedented insights into the fate of individual cells and their progeny in complex organisms. While effective genetic approaches have been developed in vitro and in animal models, these cannot be used to interrogate human physiology in vivo. Instead, naturally occurring somatic mutations have been utilized to infer clonality and lineal relationships between cells in human tissues, but current approaches are limited by high error rates and scale, and provide little information about the state or function of the cells. more...
Organism:
Homo sapiens
Type:
Expression profiling by high throughput sequencing
Platform:
GPL18573
272 Samples
Download data: TXT
Series
Accession:
GSE122582
ID:
200122582
8.

Human lineage tracing enabled by mitochondrial mutations and single cell genomics [TF1_barcoding_scRNA]

(Submitter supplied) Lineage tracing provides unprecedented insights into the fate of individual cells and their progeny in complex organisms. While effective genetic approaches have been developed in vitro and in animal models, these cannot be used to interrogate human physiology in vivo. Instead, naturally occurring somatic mutations have been utilized to infer clonality and lineal relationships between cells in human tissues, but current approaches are limited by high error rates and scale, and provide little information about the state or function of the cells. more...
Organism:
Homo sapiens
Type:
Expression profiling by high throughput sequencing
Platform:
GPL18573
384 Samples
Download data: TSV
Series
Accession:
GSE118203
ID:
200118203
9.

Human lineage tracing enabled by mitochondrial mutations and single cell genomics [TF1_barcoding_ATAC]

(Submitter supplied) Lineage tracing provides unprecedented insights into the fate of individual cells and their progeny in complex organisms. While effective genetic approaches have been developed in vitro and in animal models, these cannot be used to interrogate human physiology in vivo. Instead, naturally occurring somatic mutations have been utilized to infer clonality and lineal relationships between cells in human tissues, but current approaches are limited by high error rates and scale, and provide little information about the state or function of the cells. more...
Organism:
Homo sapiens
Type:
Genome binding/occupancy profiling by high throughput sequencing
Platform:
GPL18573
1 Sample
Download data: TSV
Series
Accession:
GSE118202
ID:
200118202
10.

Human lineage tracing enabled by mitochondrial mutations and single cell genomics

(Submitter supplied) This SuperSeries is composed of the SubSeries listed below.
Organism:
Homo sapiens
Type:
Genome binding/occupancy profiling by high throughput sequencing; Expression profiling by high throughput sequencing; Other
Platforms:
GPL18573 GPL15520
2733 Samples
Download data: TSV
Series
Accession:
GSE115218
ID:
200115218
11.

Human lineage tracing enabled by mitochondrial mutations and single cell genomics [CC100_scRNA]

(Submitter supplied) Lineage tracing provides unprecedented insights into the fate of individual cells and their progeny in complex organisms. While effective genetic approaches have been developed in vitro and in animal models, these cannot be used to interrogate human physiology in vivo. Instead, naturally occurring somatic mutations have been utilized to infer clonality and lineal relationships between cells in human tissues, but current approaches are limited by high error rates and scale, and provide little information about the state or function of the cells. more...
Organism:
Homo sapiens
Type:
Expression profiling by high throughput sequencing
Platform:
GPL18573
480 Samples
Download data: TSV
Series
Accession:
GSE115217
ID:
200115217
12.

Human lineage tracing enabled by mitochondrial mutations and single cell genomics [CC100_scATAC]

(Submitter supplied) Lineage tracing provides unprecedented insights into the fate of individual cells and their progeny in complex organisms. While effective genetic approaches have been developed in vitro and in animal models, these cannot be used to interrogate human physiology in vivo. Instead, naturally occurring somatic mutations have been utilized to infer clonality and lineal relationships between cells in human tissues, but current approaches are limited by high error rates and scale, and provide little information about the state or function of the cells. more...
Organism:
Homo sapiens
Type:
Genome binding/occupancy profiling by high throughput sequencing
Platform:
GPL18573
192 Samples
Download data: TSV
Series
Accession:
GSE115216
ID:
200115216
13.

Human lineage tracing enabled by mitochondrial mutations and single cell genomics [CC100_ATAC]

(Submitter supplied) Lineage tracing provides unprecedented insights into the fate of individual cells and their progeny in complex organisms. While effective genetic approaches have been developed in vitro and in animal models, these cannot be used to interrogate human physiology in vivo. Instead, naturally occurring somatic mutations have been utilized to infer clonality and lineal relationships between cells in human tissues, but current approaches are limited by high error rates and scale, and provide little information about the state or function of the cells. more...
Organism:
Homo sapiens
Type:
Genome binding/occupancy profiling by high throughput sequencing
Platform:
GPL18573
2 Samples
Download data: TSV
Series
Accession:
GSE115215
ID:
200115215
14.

Human lineage tracing enabled by mitochondrial mutations and single cell genomics [Colonies_scRNA]

(Submitter supplied) Lineage tracing provides unprecedented insights into the fate of individual cells and their progeny in complex organisms. While effective genetic approaches have been developed in vitro and in animal models, these cannot be used to interrogate human physiology in vivo. Instead, naturally occurring somatic mutations have been utilized to infer clonality and lineal relationships between cells in human tissues, but current approaches are limited by high error rates and scale, and provide little information about the state or function of the cells. more...
Organism:
Homo sapiens
Type:
Expression profiling by high throughput sequencing
Platform:
GPL18573
1016 Samples
Download data: TSV, TXT
Series
Accession:
GSE115214
ID:
200115214
15.

Human lineage tracing enabled by mitochondrial mutations and single cell genomics [Colonies_ATAC]

(Submitter supplied) Lineage tracing provides unprecedented insights into the fate of individual cells and their progeny in complex organisms. While effective genetic approaches have been developed in vitro and in animal models, these cannot be used to interrogate human physiology in vivo. Instead, naturally occurring somatic mutations have been utilized to infer clonality and lineal relationships between cells in human tissues, but current approaches are limited by high error rates and scale, and provide little information about the state or function of the cells. more...
Organism:
Homo sapiens
Type:
Genome binding/occupancy profiling by high throughput sequencing
Platforms:
GPL18573 GPL15520
40 Samples
Download data: TSV
Series
Accession:
GSE115213
ID:
200115213
16.

Human lineage tracing enabled by mitochondrial mutations and single cell genomics [TF1_clones_scMito]

(Submitter supplied) Lineage tracing provides unprecedented insights into the fate of individual cells and their progeny in complex organisms. While effective genetic approaches have been developed in vitro and in animal models, these cannot be used to interrogate human physiology in vivo. Instead, naturally occurring somatic mutations have been utilized to infer clonality and lineal relationships between cells in human tissues, but current approaches are limited by high error rates and scale, and provide little information about the state or function of the cells. more...
Organism:
Homo sapiens
Type:
Other
Platform:
GPL18573
94 Samples
Download data: TXT
Series
Accession:
GSE115212
ID:
200115212
17.

Human lineage tracing enabled by mitochondrial mutations and single cell genomics [TF1_clones_scATAC]

(Submitter supplied) Lineage tracing provides unprecedented insights into the fate of individual cells and their progeny in complex organisms. While effective genetic approaches have been developed in vitro and in animal models, these cannot be used to interrogate human physiology in vivo. Instead, naturally occurring somatic mutations have been utilized to infer clonality and lineal relationships between cells in human tissues, but current approaches are limited by high error rates and scale, and provide little information about the state or function of the cells. more...
Organism:
Homo sapiens
Type:
Genome binding/occupancy profiling by high throughput sequencing
Platform:
GPL18573
96 Samples
Download data: TXT
Series
Accession:
GSE115211
ID:
200115211
18.

Human lineage tracing enabled by mitochondrial mutations and single cell genomics [TF1_clones_scRNA]

(Submitter supplied) Lineage tracing provides unprecedented insights into the fate of individual cells and their progeny in complex organisms. While effective genetic approaches have been developed in vitro and in animal models, these cannot be used to interrogate human physiology in vivo. Instead, naturally occurring somatic mutations have been utilized to infer clonality and lineal relationships between cells in human tissues, but current approaches are limited by high error rates and scale, and provide little information about the state or function of the cells. more...
Organism:
Homo sapiens
Type:
Expression profiling by high throughput sequencing
Platform:
GPL18573
81 Samples
Download data: TXT
Series
Accession:
GSE115210
ID:
200115210
19.

Human lineage tracing enabled by mitochondrial mutations and single cell genomics [TF1_clones_RNA]

(Submitter supplied) Lineage tracing provides unprecedented insights into the fate of individual cells and their progeny in complex organisms. While effective genetic approaches have been developed in vitro and in animal models, these cannot be used to interrogate human physiology in vivo. Instead, naturally occurring somatic mutations have been utilized to infer clonality and lineal relationships between cells in human tissues, but current approaches are limited by high error rates and scale, and provide little information about the state or function of the cells. more...
Organism:
Homo sapiens
Type:
Expression profiling by high throughput sequencing
Platform:
GPL18573
3 Samples
Download data: TXT
Series
Accession:
GSE115209
ID:
200115209
20.

Human lineage tracing enabled by mitochondrial mutations and single cell genomics [TF1_clones_ATAC]

(Submitter supplied) Lineage tracing provides unprecedented insights into the fate of individual cells and their progeny in complex organisms. While effective genetic approaches have been developed in vitro and in animal models, these cannot be used to interrogate human physiology in vivo. Instead, naturally occurring somatic mutations have been utilized to infer clonality and lineal relationships between cells in human tissues, but current approaches are limited by high error rates and scale, and provide little information about the state or function of the cells. more...
Organism:
Homo sapiens
Type:
Genome binding/occupancy profiling by high throughput sequencing
Platform:
GPL18573
69 Samples
Download data: BED, CSV, TSV
Series
Accession:
GSE115208
ID:
200115208
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