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| Status |
Public on Apr 29, 2023 |
| Title |
Patient 111 from TLX3 viewpoint |
| Sample type |
SRA |
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| Source name |
Patient
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| Organism |
Homo sapiens |
| Characteristics |
subect: Patient 111
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| Extracted molecule |
genomic DNA |
| Extraction protocol |
Libraries were generated according to the method described in Krijger, P.H.L., Geeven, G., Bianchi, V., Hilvering, C.R.E., and de Laat, W. (2020). 4C-seq from beginning to end: A detailed protocol for sample preparation and data analysis. Methods 170, 17-32. A combination of DpnII and Csp6I was used for 4C template generation.
Other: 4C
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| Library strategy |
OTHER |
| Library source |
genomic |
| Library selection |
other |
| Instrument model |
Illumina NextSeq 500 |
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| Data processing |
Data was processed into RDS files using the pipeline described in Krijger, P.H.L., Geeven, G., Bianchi, V., Hilvering, C.R.E., and de Laat, W. (2020). 4C-seq from beginning to end: A detailed protocol for sample preparation and data analysis. Methods 170, 17-32.
Genome_build: CRCh37
Supplementary_files_format_and_content: RDS files are R objects and contain experiment parameters as well as calculated 4C signals.
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| Submission date |
Aug 17, 2021 |
| Last update date |
Apr 29, 2023 |
| Contact name |
Rico Hagelaar |
| E-mail(s) |
[email protected]
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| Organization name |
Princess Maxima Center
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| Street address |
Heidelberglaan 25
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| City |
Utrecht |
| ZIP/Postal code |
3584CS |
| Country |
Netherlands |
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| Platform ID |
GPL18573 |
| Series (2) |
| GSE182315 |
Elevated enhancer-oncogene contacts and higher oncogene expression levels by recurrent CTCF inactivating mutations in acute T cell leukemia [4C] |
| GSE182317 |
Elevated enhancer-oncogene contacts and higher oncogene expression levels by recurrent CTCF inactivating mutations in acute T cell leukemia |
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| Relations |
| BioSample |
SAMN20840941 |
| SRA |
SRX11805056 |
| Supplementary file |
Size |
Download |
File type/resource |
| GSM5526679_Maxima_Carlo_ALL_111_TLX3.rds.gz |
51.6 Mb |
(ftp)(http) |
RDS |
SRA Run Selector |
| Raw data are available in SRA |
| Processed data provided as supplementary file |
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