4DN data portal
projectThe 4D Nucleome Network aims to understand the principles behind the three-dimensional organization of the nucleus in space and time (the 4th dimension) and the role nuclear organization plays in gene expression and cellular function. The Network utilizes existing omics and imaging technologies as well as develop new ones to generate data and create resources to enable the study of the 4D Nucleome.
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View Associations View AnalyticsProject Assessments (97)
| Assessment | Metrics | |||||||||||||||||||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
| Target | Rubric | NIH program name is available for querying | NIH project name is available for querying | The institution that created this dataset is available | A biological assay is present and resolvable in CFDE-specified ontology (OBI) | A relevant anatomical part is present and resolvable in the UBERON Ontology | A relevant disease is present and resolvable in the MONDO Ontology | A relevant file type is present and resolvable in the EDAM Ontology | A relevant taxonomy is present and resolvable in the NCBITaxon Ontology | A relevant cell line is present and resolvable in the Cellosaurus Ontology | A landing page exists and is accessible | A standardized ID or accession number is used to identify the dataset. | The dataset is described with metadata using a formal, broadly applicable vocabulary. | Information is provided on the experimental methods used to generate the data. | The dataset is hosted in an established data repository, if a relevant repository exists. | The dataset can be downloaded for free from the repository. | Version information is provided for the dataset. | Contact information is provided for the creator(s) of the dataset. | Information is provided describing how to cite the dataset. | Licensing information is provided on the datasetÂ’s landing page. | Globally unique identifier | Machine-readable metadata | Standardized metadata | Resource identifier in metadata | Open, Free, Standardized Access protocol | Digital resource license | Metadata license | |
| sciRNA-seq on F123 cells | The FAIRshake dataset rubric |
|
yes (1.00) | yes (1.00) | yes (1.00) | yes (1.00) | yes (1.00) | yesbut (0.75) | yes (1.00) | yes (1.00) | no (0.00) | |||||||||||||||||
| GAM on mouse brain cell types | The FAIRshake dataset rubric |
|
yes (1.00) | yes (1.00) | yes (1.00) | yes (1.00) | yes (1.00) | yesbut (0.75) | yes (1.00) | yes (1.00) | no (0.00) | |||||||||||||||||
| E/L repliseq on U2OS cells (2017-08-17) | NIH Common Fund Data Ecosystem (CFDE) FAIR Rubric |
|
yes (1.00) | yes (1.00) | yes (1.00) | yes (1.00) | yes (1.00) | yes (1.00) | yes (1.00) | yes (1.00) | yes (1.00) | yes (1.00) | yes (1.00) | yes (1.00) | yes (1.00) | yes (1.00) | yes (1.00) | yes (1.00) | no (0.00) | no (0.00) | ||||||||
| sciATAC-seq on F123 cells | NIH Common Fund Data Ecosystem (CFDE) FAIR Rubric |
|
yes (1.00) | yes (1.00) | yes (1.00) | yes (1.00) | yes (1.00) | yes (1.00) | yes (1.00) | yes (1.00) | yes (1.00) | yes (1.00) | yes (1.00) | yes (1.00) | yes (1.00) | yes (1.00) | yes (1.00) | yes (1.00) | no (0.00) | no (0.00) | ||||||||
| 5C on 6Mb of chrX | NIH Common Fund Data Ecosystem (CFDE) FAIR Rubric |
|
yes (1.00) | yes (1.00) | yes (1.00) | yes (1.00) | yes (1.00) | yes (1.00) | yes (1.00) | yes (1.00) | yes (1.00) | yes (1.00) | yes (1.00) | yes (1.00) | yes (1.00) | yes (1.00) | yes (1.00) | yes (1.00) | no (0.00) | no (0.00) | ||||||||
| NIH Common Fund Data Ecosystem (CFDE) FAIR Rubric |
|
yes (1.00) | yes (1.00) | yes (1.00) | yes (1.00) | yes (1.00) | yes (1.00) | yes (1.00) | yes (1.00) | yes (1.00) | yes (1.00) | yes (1.00) | yes (1.00) | yes (1.00) | yes (1.00) | yes (1.00) | yes (1.00) | no (0.00) | no (0.00) | |||||||||
| DpnII-seq on K562 cells | NIH Common Fund Data Ecosystem (CFDE) FAIR Rubric |
|
yes (1.00) | yes (1.00) | yes (1.00) | yes (1.00) | yes (1.00) | yes (1.00) | yes (1.00) | yes (1.00) | yes (1.00) | yes (1.00) | yes (1.00) | yes (1.00) | yes (1.00) | yes (1.00) | yes (1.00) | yes (1.00) | no (0.00) | no (0.00) | ||||||||
| Bru-seq on F121-9 mESCs | NIH Common Fund Data Ecosystem (CFDE) FAIR Rubric |
|
yes (1.00) | yes (1.00) | yes (1.00) | yes (1.00) | yes (1.00) | yes (1.00) | yes (1.00) | yes (1.00) | yes (1.00) | yes (1.00) | yes (1.00) | yes (1.00) | yes (1.00) | yes (1.00) | yes (1.00) | yes (1.00) | no (0.00) | no (0.00) | ||||||||
| H3K4me2 - K562 | NIH Common Fund Data Ecosystem (CFDE) FAIR Rubric |
|
yes (1.00) | yes (1.00) | yes (1.00) | yes (1.00) | yes (1.00) | yes (1.00) | yes (1.00) | yes (1.00) | yes (1.00) | yes (1.00) | yes (1.00) | yes (1.00) | yes (1.00) | yes (1.00) | yes (1.00) | yes (1.00) | no (0.00) | no (0.00) | ||||||||
| Dual color smFISH on fruit fly embryo (nuclear cycle 13) | NIH Common Fund Data Ecosystem (CFDE) FAIR Rubric |
|
yes (1.00) | yes (1.00) | yes (1.00) | yes (1.00) | yes (1.00) | yes (1.00) | yes (1.00) | yes (1.00) | yes (1.00) | yes (1.00) | yes (1.00) | yes (1.00) | yes (1.00) | yes (1.00) | yes (1.00) | yes (1.00) | no (0.00) | no (0.00) | ||||||||
| single cell Hi-C on sorted haploid H129-1s | NIH Common Fund Data Ecosystem (CFDE) FAIR Rubric |
|
yes (1.00) | yes (1.00) | yes (1.00) | yes (1.00) | yes (1.00) | yes (1.00) | yes (1.00) | yes (1.00) | yes (1.00) | yes (1.00) | yes (1.00) | yes (1.00) | yes (1.00) | yes (1.00) | yes (1.00) | yes (1.00) | no (0.00) | no (0.00) | ||||||||
| Live imaging of chromatin topology and transcription | NIH Common Fund Data Ecosystem (CFDE) FAIR Rubric |
|
yes (1.00) | yes (1.00) | yes (1.00) | yes (1.00) | yes (1.00) | yes (1.00) | yes (1.00) | yes (1.00) | yes (1.00) | yes (1.00) | yes (1.00) | yes (1.00) | yes (1.00) | yes (1.00) | yes (1.00) | yes (1.00) | no (0.00) | no (0.00) | ||||||||
| RNA-seq of early embryos in vitro | NIH Common Fund Data Ecosystem (CFDE) FAIR Rubric |
|
yes (1.00) | yes (1.00) | yes (1.00) | yes (1.00) | yes (1.00) | yes (1.00) | yes (1.00) | yes (1.00) | yes (1.00) | yes (1.00) | yes (1.00) | yes (1.00) | yes (1.00) | yes (1.00) | yes (1.00) | yes (1.00) | no (0.00) | no (0.00) | ||||||||
| TSA-seq SON in K562 - HS | NIH Common Fund Data Ecosystem (CFDE) FAIR Rubric |
|
yes (1.00) | yes (1.00) | yes (1.00) | yes (1.00) | yes (1.00) | yes (1.00) | yes (1.00) | yes (1.00) | yes (1.00) | yes (1.00) | yes (1.00) | yes (1.00) | yes (1.00) | yes (1.00) | yes (1.00) | yes (1.00) | no (0.00) | no (0.00) | ||||||||
| NAD-seq on MEF cells (not crosslinked) | NIH Common Fund Data Ecosystem (CFDE) FAIR Rubric |
|
yes (1.00) | yes (1.00) | yes (1.00) | yes (1.00) | yes (1.00) | yes (1.00) | yes (1.00) | yes (1.00) | yes (1.00) | yes (1.00) | yes (1.00) | yes (1.00) | yes (1.00) | yes (1.00) | yes (1.00) | yes (1.00) | no (0.00) | no (0.00) | ||||||||
| TCC on IMR90 +/- Adenovirus | NIH Common Fund Data Ecosystem (CFDE) FAIR Rubric |
|
yes (1.00) | yes (1.00) | yes (1.00) | yes (1.00) | yes (1.00) | yes (1.00) | yes (1.00) | yes (1.00) | yes (1.00) | yes (1.00) | yes (1.00) | yes (1.00) | yes (1.00) | yes (1.00) | yes (1.00) | yes (1.00) | no (0.00) | no (0.00) | ||||||||
| Hi-C and Micro-C on WTC-11 derived iPS cells | NIH Common Fund Data Ecosystem (CFDE) FAIR Rubric |
|
yes (1.00) | yes (1.00) | yes (1.00) | yes (1.00) | yes (1.00) | yes (1.00) | yes (1.00) | yes (1.00) | yes (1.00) | yes (1.00) | yes (1.00) | yes (1.00) | yes (1.00) | yes (1.00) | yes (1.00) | yes (1.00) | no (0.00) | no (0.00) | ||||||||
| sciHi-C on F121-6 cells | NIH Common Fund Data Ecosystem (CFDE) FAIR Rubric |
|
yes (1.00) | yes (1.00) | yes (1.00) | yes (1.00) | yes (1.00) | yes (1.00) | yes (1.00) | yes (1.00) | yes (1.00) | yes (1.00) | yes (1.00) | yes (1.00) | yes (1.00) | yes (1.00) | yes (1.00) | yes (1.00) | no (0.00) | no (0.00) | ||||||||
| RNA-DNA SPRITE on pSM33 mESCs | NIH Common Fund Data Ecosystem (CFDE) FAIR Rubric |
|
yes (1.00) | yes (1.00) | yes (1.00) | yes (1.00) | yes (1.00) | yes (1.00) | yes (1.00) | yes (1.00) | yes (1.00) | yes (1.00) | yes (1.00) | yes (1.00) | yes (1.00) | yes (1.00) | yes (1.00) | yes (1.00) | no (0.00) | no (0.00) | ||||||||
| DNA FISH on Chr4 | NIH Common Fund Data Ecosystem (CFDE) FAIR Rubric |
|
yes (1.00) | yes (1.00) | yes (1.00) | yes (1.00) | yes (1.00) | yes (1.00) | yes (1.00) | yes (1.00) | yes (1.00) | yes (1.00) | yes (1.00) | yes (1.00) | yes (1.00) | yes (1.00) | yes (1.00) | yes (1.00) | no (0.00) | no (0.00) | ||||||||
| DamID-seq on HCT116 cells (2018-10-22) | NIH Common Fund Data Ecosystem (CFDE) FAIR Rubric |
|
yes (1.00) | yes (1.00) | yes (1.00) | yes (1.00) | yes (1.00) | yes (1.00) | yes (1.00) | yes (1.00) | yes (1.00) | yes (1.00) | yes (1.00) | yes (1.00) | yes (1.00) | yes (1.00) | yes (1.00) | yes (1.00) | no (0.00) | no (0.00) | ||||||||
| 16-fraction Repli-seq on H1-hESC | NIH Common Fund Data Ecosystem (CFDE) FAIR Rubric |
|
yes (1.00) | yes (1.00) | yes (1.00) | yes (1.00) | yes (1.00) | yes (1.00) | yes (1.00) | yes (1.00) | yes (1.00) | yes (1.00) | yes (1.00) | yes (1.00) | yes (1.00) | yes (1.00) | yes (1.00) | yes (1.00) | no (0.00) | no (0.00) | ||||||||
| TRIP on K562 cells | NIH Common Fund Data Ecosystem (CFDE) FAIR Rubric |
|
yes (1.00) | yes (1.00) | yes (1.00) | yes (1.00) | yes (1.00) | yes (1.00) | yes (1.00) | yes (1.00) | yes (1.00) | yes (1.00) | yes (1.00) | yes (1.00) | yes (1.00) | yes (1.00) | yes (1.00) | yes (1.00) | no (0.00) | no (0.00) | ||||||||
| Immunofluorescence on synchronyzed HeLa cells | NIH Common Fund Data Ecosystem (CFDE) FAIR Rubric |
|
yes (1.00) | yes (1.00) | yes (1.00) | yes (1.00) | yes (1.00) | yes (1.00) | yes (1.00) | yes (1.00) | yes (1.00) | yes (1.00) | yes (1.00) | yes (1.00) | yes (1.00) | yes (1.00) | yes (1.00) | yes (1.00) | no (0.00) | no (0.00) | ||||||||
| HiChIP-seq on NIH-3T3 cells | NIH Common Fund Data Ecosystem (CFDE) FAIR Rubric |
|
yes (1.00) | yes (1.00) | yes (1.00) | yes (1.00) | yes (1.00) | yes (1.00) | yes (1.00) | yes (1.00) | yes (1.00) | yes (1.00) | yes (1.00) | yes (1.00) | yes (1.00) | yes (1.00) | yes (1.00) | yes (1.00) | no (0.00) | no (0.00) | ||||||||
