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| Status |
Public on Aug 11, 2023 |
| Title |
Transposable elements as lineage-specific enhancers in endodermal-lineage cancers |
| Organism |
Homo sapiens |
| Experiment type |
Expression profiling by high throughput sequencing
Other
Genome binding/occupancy profiling by high throughput sequencing
Methylation profiling by high throughput sequencing
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| Summary |
This SuperSeries is composed of the SubSeries listed below.
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| Overall design |
Refer to individual Series
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| Citation(s) |
37658059 |
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| Submission date |
Dec 15, 2022 |
| Last update date |
Sep 15, 2023 |
| Contact name |
Konsta Karttunen |
| Organization name |
University of Helsinki
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| Street address |
Haartmaninkatu 8
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| City |
Helsinki |
| ZIP/Postal code |
00290 |
| Country |
Finland |
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| Platforms (4)
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| GPL16791 |
Illumina HiSeq 2500 (Homo sapiens) |
| GPL18573 |
Illumina NextSeq 500 (Homo sapiens) |
| GPL24676 |
Illumina NovaSeq 6000 (Homo sapiens) |
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| Samples (30)
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| GSM6841187 |
GP5d, H3K4me3 |
| GSM6841188 |
GP5d, TFAP2A, rep 1 |
| GSM6841189 |
GP5d, mIgG |
| GSM6841190 |
GP5d, rIgG |
| GSM6841203 |
GP5d, DMSO control 1 |
| GSM6841204 |
GP5d, DMSO control 2 |
| GSM6841205 |
GP5d, DMSO control 3 |
| GSM6841206 |
GP5d, DNMT-HDAC 1 |
| GSM6841207 |
GP5d, DNMT-HDAC 2 |
| GSM6841208 |
GP5d, DNMT-HDAC 3 |
| GSM6841209 |
GP5d, WT, rep1 |
| GSM6841210 |
GP5d, WT, rep2 |
| GSM6841211 |
GP5d, WT, rep3 |
| GSM6841212 |
GP5d, C2, rep1 |
| GSM6841213 |
GP5d, C2, rep2 |
| GSM6841214 |
GP5d, C2, rep3 |
| GSM6841215 |
HCoEpiC, rep1 |
| GSM6841216 |
HCoEpiC, rep2 |
| GSM6841217 |
HCoEpiC, rep3 |
| GSM6841218 |
GP5d, ATAC-seq |
| GSM6841219 |
GP5d, H3K27ac HiChIP |
| GSM7024433 |
GP5d, nanoNOMe |
| GSM7024434 |
HepG2, nanoNOMe |
| GSM7504960 |
RPE1, non-methylated, replicate 1 |
| GSM7504961 |
RPE1, non-methylated, replicate 2 |
| GSM7504962 |
GP5d, TFAP2A, replicate 2 |
| GSM7504963 |
GP5d, H3K36me3, replicate 2 |
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| This SuperSeries is composed of the following SubSeries:
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| GSE221045 |
Transposable elements as lineage-specific enhancers in endodermal-lineage cancers (STARR-Seq) |
| GSE221046 |
Transposable elements as lineage-specific enhancers in endodermal-lineage cancers (ChIP-Seq) |
| GSE221050 |
Transposable elements as lineage-specific enhancers in endodermal-lineage cancers (RNA-Seq) |
| GSE221051 |
Transposable elements as lineage-specific enhancers in endodermal-lineage cancers (ATAC-Seq) |
| GSE221052 |
Transposable elements as lineage-specific enhancers in endodermal-lineage cancers (Hi-ChIP-Seq) |
| GSE224453 |
Transposable elements as lineage-specific enhancers in endodermal-lineage cancers [NaNoME-seq] |
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| Relations |
| BioProject |
PRJNA912656 |
| Supplementary file |
Size |
Download |
File type/resource |
| GSE221053_RAW.tar |
4.5 Gb |
(http)(custom) |
TAR (of BROADPEAK, BW, HIC, NARROWPEAK, TXT) |
SRA Run Selector |
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