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Items: 1 to 20 of 79

1.

Comparative single cell epigenomic analysis of gene regulatory programs in the rodent and primate motor cortex [marmoset]

(Submitter supplied) Sequence divergence of cis-regulatory elements drives species-specific traits, but how this manifests in the evolution of the neocortex at the molecular and cellular level remains to be elucidated. We investigated the gene regulatory programs in the primary motor cortex of human, macaque, marmoset, and mouse with single-cell multiomics assays, generating gene expression, chromatin accessibility, DNA methylome, and chromosomal conformation profiles from a total of over 180,000 cells. more...
Organism:
Callithrix jacchus
Type:
Methylation profiling by high throughput sequencing
Platform:
GPL28240
5995 Samples
Download data: TSV
Series
Accession:
GSE241339
ID:
200241339
2.

A comparative atlas of single-cell chromatin accessibility in the human brain

(Submitter supplied) A comparative atlas of single-cell chromatin accessibility in the human brainRecent advances in single-cell transcriptomics have illuminated the diverse neuronal and glial cell types within the human brain. However, the regulatory programs governing cell identity and function remain unclear. Using a single-nucleus assay for transposase-accessible chromatin using sequencing (ATAC-seq), we explored open chromatin landscapes across 1.1 million cells in 42 brain regions from three adults. more...
Organism:
Homo sapiens
Type:
Genome binding/occupancy profiling by high throughput sequencing
Platform:
GPL24676
128 Samples
Download data: BEDPE, SNAP
Series
Accession:
GSE244618
ID:
200244618
3.

Transcriptional maintenance of cortical somatostatin interneuron subtype identity during migration

(Submitter supplied) Cortical interneuron diversity arises from the interplay of intrinsic developmental patterning and local extrinsic cues. While individual genetic programs underlying cardinal cell type identity are established in immature neurons prior to integration into cortical circuits, it remains unclear whether distinct interneuron subtype identities are pre-established, and if so, how their identity is maintained prior to circuit integration. more...
Organism:
Mus musculus
Type:
Expression profiling by high throughput sequencing
Platforms:
GPL17021 GPL13112
1938 Samples
Download data: TXT
Series
Accession:
GSE233791
ID:
200233791
4.

Epigenetic landscape of Human Brains by Single Nucleus DNA Methylation and Chromatin Conformation Profiling - pool117_h1930004_TH-TL

(Submitter supplied) Illustrating the cellular architecture of the human brain is critical to understanding its diverse functions and complex animal behaviors. Single nucleus methylation sequencing was applied to regions of human brains. we identified distinct cell clusters and formed them in a hierarchical taxonomy. These clusters include known primary brain cell types and possible sub-types. We use these data to identify the epigenomic characteristics and to define specific regulatory elements for each cell cluster.
Organism:
Homo sapiens
Type:
Methylation profiling by high throughput sequencing
Platform:
GPL24676
2926 Samples
Download data: TSV
Series
Accession:
GSE217335
ID:
200217335
5.

Epigenetic landscape of Human Brain by Single Nucleus Methylation Sequencing

(Submitter supplied) Illustrating the cellular architecture of the human brain is critical to understanding its diverse functions and complex animal behaviors. Single nucleus methylation sequencing was applied to regions of human brains. we identified distinct cell clusters and formed them in a hierarchical taxonomy. These clusters include known primary brain cell types and possible sub-types. We use these data to identify the epigenomic characteristics and to define specific regulatory elements for each cell cluster.
Organism:
Homo sapiens
Type:
Methylation profiling by high throughput sequencing
Download data
Series
Accession:
GSE215353
ID:
200215353
6.

Spatiotemporal multi-omics decoding of the developing human spinal cord

(Submitter supplied) This SuperSeries is composed of the SubSeries listed below.
Organism:
Homo sapiens
Type:
Expression profiling by high throughput sequencing
Platform:
GPL24676
55 Samples
Download data: H5, TAR
Series
Accession:
GSE219122
ID:
200219122
7.

Spatiotemporal multi-omics decoding of the developing human spinal cord II

(Submitter supplied) The human spinal cord contains diverse cell types, governed by a series of spatiotemporal events for tissue assembly and functions. However, the regulation of cell fate specification in the human developing spinal cord remains largely unknown. By performing single-cell and spatial multi-omics methods, we integrated the datasets and created a comprehensive human developmental atlas of the first trimester spinal cord. more...
Organism:
Homo sapiens
Type:
Expression profiling by high throughput sequencing
Platform:
GPL24676
31 Samples
Download data: H5
Series
Accession:
GSE219121
ID:
200219121
8.

Spatiotemporal multi-omics decoding of the developing human spinal cord I

(Submitter supplied) The human spinal cord contains diverse cell types, governed by a series of spatiotemporal events for tissue assembly and functions. However, the regulation of cell fate specification in the human developing spinal cord remains largely unknown. By performing single-cell and spatial multi-omics methods, we integrated the datasets and created a comprehensive human developmental atlas of the first trimester spinal cord. more...
Organism:
Homo sapiens
Type:
Expression profiling by high throughput sequencing
Platform:
GPL24676
24 Samples
Download data: H5, TAR
Series
Accession:
GSE219120
ID:
200219120
9.

A topographic atlas defines developmental origins of cell heterogeneity in the human embryonic lung

(Submitter supplied) This SuperSeries is composed of the SubSeries listed below.
Organism:
Homo sapiens
Type:
Expression profiling by high throughput sequencing
Platforms:
GPL30173 GPL18573 GPL24676
73 Samples
Download data: H5, TAR
Series
Accession:
GSE215898
ID:
200215898
10.

A topographic atlas defines developmental origins of cell heterogeneity in the human embryonic lung [ST]

(Submitter supplied) The lung contains numerous specialized cell-types with distinct roles in tissue function and integrity. To clarify the origins and mechanisms generating cell heterogeneity, we created a comprehensive topographic atlas of early human lung development. Here, we report 83 cell states, several spatially-resolved developmental trajectories and predict cell interactions within defined tissue niches. We integrated scRNA-Seq and spatially resolved transcriptomics into a web-based, open platform for interactive exploration. more...
Organism:
Homo sapiens
Type:
Expression profiling by high throughput sequencing
Platforms:
GPL18573 GPL30173 GPL24676
34 Samples
Download data: TAR
Series
Accession:
GSE215897
ID:
200215897
11.

A topographic atlas defines developmental origins of cell heterogeneity in the human embryonic lung [SC]

(Submitter supplied) The lung contains numerous specialized cell-types with distinct roles in tissue function and integrity. To clarify the origins and mechanisms generating cell heterogeneity, we created a comprehensive topographic atlas of early human lung development. Here, we report 83 cell states, several spatially-resolved developmental trajectories and predict cell interactions within defined tissue niches. We integrated scRNA-Seq and spatially resolved transcriptomics into a web-based, open platform for interactive exploration. more...
Organism:
Homo sapiens
Type:
Expression profiling by high throughput sequencing
Platform:
GPL30173
39 Samples
Download data: H5
Series
Accession:
GSE215895
ID:
200215895
12.

Epigenetic landscape of Mammalian Brain M1 by Single Nucleus Methylation Sequencing [MM_M1_2]

(Submitter supplied) Illustrating the cellular architecture of the mammalian brain is critical to understanding its diverse functions and complex animal behaviors. Single nucleus methylation sequencing was applied to M1 regions of human and mouse brains. we identified distinct cell clusters and formed them in a hierarchical taxonomy. These clusters include known primary brain cell types and possible sub-types. We use these data to identify the epigenomic characteristics and to define specific regulatory elements for each cell cluster.
Organism:
Callithrix jacchus
Type:
Methylation profiling by high throughput sequencing
Platform:
GPL28240
3043 Samples
Download data: TSV
Series
Accession:
GSE146633
ID:
200146633
13.

Epigenetic landscape of Mammalian Brain M1 by Single Nucleus Methylation Sequencing [MM_M1]

(Submitter supplied) Illustrating the cellular architecture of the mammalian brain is critical to understanding its diverse functions and complex animal behaviors. Single nucleus methylation sequencing was applied to M1 regions of human and mouse brains. we identified distinct cell clusters and formed them in a hierarchical taxonomy. These clusters include known primary brain cell types and possible sub-types. We use these data to identify the epigenomic characteristics and to define specific regulatory elements for each cell cluster.
Organism:
Callithrix jacchus
Type:
Methylation profiling by high throughput sequencing
Platform:
GPL28240
3047 Samples
Download data: TSV
Series
Accession:
GSE146608
ID:
200146608
14.

Epigenetic landscape of Mammalian Brain M1 by Single Nucleus Methylation Sequencing [M1_2]

(Submitter supplied) Illustrating the cellular architecture of the mammalian brain is critical to understanding its diverse functions and complex animal behaviors. Single nucleus methylation sequencing was applied to M1 regions of human and mouse brains. we identified distinct cell clusters and formed them in a hierarchical taxonomy. These clusters include known primary brain cell types and possible sub-types. We use these data to identify the epigenomic characteristics and to define specific regulatory elements for each cell cluster.
Organism:
Homo sapiens
Type:
Methylation profiling by high throughput sequencing
Platform:
GPL24676
3038 Samples
Download data: TSV
Series
Accession:
GSE146561
ID:
200146561
15.

Epigenetic landscape of Mammalian Brain M1 by Single Nucleus Methylation Sequencing [M1_1]

(Submitter supplied) Illustrating the cellular architecture of the mammalian brain is critical to understanding its diverse functions and complex animal behaviors. Single nucleus methylation sequencing was applied to M1 regions of human and mouse brains. we identified distinct cell clusters and formed them in a hierarchical taxonomy. These clusters include known primary brain cell types and possible sub-types. We use these data to identify the epigenomic characteristics and to define specific regulatory elements for each cell cluster.
Organism:
Homo sapiens
Type:
Methylation profiling by high throughput sequencing
Platform:
GPL24676
3057 Samples
Download data: TSV
Series
Accession:
GSE146525
ID:
200146525
16.

Genetic and transcriptomic identification of sensory neuron types underlying chronic pain in primates

(Submitter supplied) Molecular characterization of the individual neuron types existing in the primate dorsal root ganglion and the relation to model organisms used for studying somatosensation and pain is critical for understanding the cellular origin of chronic pain and for translational aspects of biomedical research. However, molecular insights into the primate dorsal root ganglion are missing and a systematic comparison of strategies for somatosensation between the mouse and primates is lacking. more...
Organism:
Macaca mulatta
Type:
Expression profiling by high throughput sequencing
Platform:
GPL19129
1845 Samples
Download data: CSV
Series
Accession:
GSE148238
ID:
200148238
17.

Single cell transcriptomics of primate sensory neurons identifies cell types associated with human chronic pain

(Submitter supplied) This SuperSeries is composed of the SubSeries listed below.
Organism:
Macaca mulatta
Type:
Expression profiling by high throughput sequencing
Platform:
GPL19129
7430 Samples
Download data
Series
Accession:
GSE165569
ID:
200165569
18.

Single cell transcriptomics of primate sensory neurons identifies cell types associated with chronic pain [Wafergen]

(Submitter supplied) Distinct types of dorsal root ganglion sensory neurons may have unique contributions to chronic pain. Identification of primate sensory neuron types is critical for understanding the cellular origin and heritability of chronic pain. However, molecular insights into the primate sensory neurons are missing. Here we classify non-human primate dorsal root ganglion sensory neurons based on their transcriptome and map human pain heritability to neuronal types. more...
Organism:
Macaca mulatta
Type:
Expression profiling by high throughput sequencing
Platform:
GPL19129
4742 Samples
Download data: TAB
Series
Accession:
GSE165566
ID:
200165566
19.

Single cell transcriptomics of primate sensory neurons identifies cell types associated with chronic pain [SmartSeq2]

(Submitter supplied) Distinct types of dorsal root ganglion sensory neurons may have unique contributions to chronic pain. Identification of primate sensory neuron types is critical for understanding the cellular origin and heritability of chronic pain. However, molecular insights into the primate sensory neurons are missing. Here we classify non-human primate dorsal root ganglion sensory neurons based on their transcriptome and map human pain heritability to neuronal types. more...
Organism:
Macaca mulatta
Type:
Expression profiling by high throughput sequencing
Platform:
GPL19129
2688 Samples
Download data: TAB
Series
Accession:
GSE165553
ID:
200165553
20.

A method for spatially resolved tissue transcriptomics applied to the mouse and lizard P. vitticeps brains

(Submitter supplied) We have developed an imaging-free framework to localize nucleic acids within a tissue by combining  a compressed sensing tissue-sampling strategy based on multi-angle-sectioning and an associated image reconstruction algorithm.  Initially, the tissue is cut into consecutive thin slices. Subsequently these are further sliced along an orthogonal plane at predefined orientations resulting in tissue strips that are subject to RNA sequencing. more...
Organism:
Mus musculus; Pogona vitticeps
Type:
Expression profiling by high throughput sequencing
Platforms:
GPL28731 GPL13112
1200 Samples
Download data: TAB
Series
Accession:
GSE152989
ID:
200152989
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