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GEO help: Mouse over screen elements for information. |
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| Status |
Public on Mar 30, 2023 |
| Title |
INV_CNCC_4C_VP6_Rep2 |
| Sample type |
SRA |
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| Source name |
CNCC derived from edited H9 hESC
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| Organism |
Homo sapiens |
| Characteristics |
tissue: CNCC derived from edited H9 hESC
genotype: Hemizygous inversion
differentiation day: d5
4c viewpoint: Viewpoint 6
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| Treatment protocol |
Gene editing by nucleofection, CNCC derivation as in Leung, A.W., Murdoch, B., Salem, A.F., Prasad, M.S., Gomez, G.A., and García-Castro, M.I. (2016). WNT/β-catenin signaling mediates human neural crest induction via a pre-neural border intermediate. Development 143, 398–410.
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| Growth protocol |
Cultured in Essential 8 media (Gibco, A1517001) on Matrigel substrate (Corning, 354277)
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| Extracted molecule |
genomic DNA |
| Extraction protocol |
as in GSE98251
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| Library strategy |
OTHER |
| Library source |
genomic |
| Library selection |
other |
| Instrument model |
NextSeq 550 |
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| Description |
4C-seq from CNCCs derived from H9 hESCs with an inversion on Chr7 due to CRISPR/Cas9 editing
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| Data processing |
Library strategy: 4C
as in GSE98251 and accompanying manuscript
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| Submission date |
Mar 10, 2022 |
| Last update date |
Mar 30, 2023 |
| Contact name |
Justin Cotney |
| Organization name |
UConn Health
|
| Department |
Genetics and Genome Sciences
|
| Street address |
400 Farmington Avenue
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| City |
Farmington |
| State/province |
CT |
| ZIP/Postal code |
06030-6403 |
| Country |
USA |
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| Platform ID |
GPL21697 |
| Series (1) |
| GSE198297 |
Chromatin state and chromatin architecture in mouse embryonic craniofacial tissue, neural crest cell culture model and human primary craniofacial tissue |
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| Relations |
| BioSample |
SAMN26559495 |
| SRA |
SRX14427378 |
| Supplementary file |
Size |
Download |
File type/resource |
| GSM5944480_vp6_INV_CNCC2.bedgraph.gz |
1.7 Mb |
(ftp)(http) |
BEDGRAPH |
SRA Run Selector |
| Raw data are available in SRA |
| Processed data provided as supplementary file |
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