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| Status |
Public on Sep 30, 2019 |
| Title |
The ultra-sensitive Nodewalk technique identifies stochastic from virtual, population-based enhancer hubs regulating MYC in 3D: Implications for the fitness of cancer cells |
| Organisms |
Drosophila melanogaster; Homo sapiens |
| Experiment type |
Genome binding/occupancy profiling by high throughput sequencing
Expression 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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| Web link |
https://doi.org/10.1101/286583
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| Contributor(s) |
Sumida N, Sifakis EG, Scholz BA, Fernandez-Woodbridge A, Kiani NA, Gomez-Cabrero D, Svensson PJ, Tegner J, Göndör A, Ohlsson R |
| Citation(s) |
31784729, 33051686 |
| Submission date |
Dec 15, 2015 |
| Last update date |
Nov 16, 2020 |
| Contact name |
Rolf Ohlsson |
| Organization name |
Karolinska Institutet
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| Department |
Department of Oncology-Pathology
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| Lab |
Rolf Ohlsson lab
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| Street address |
Solnavägen 30, 171 64
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| City |
Stockholm |
| ZIP/Postal code |
171 77 |
| Country |
Sweden |
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| Platforms (4)
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| GPL15520 |
Illumina MiSeq (Homo sapiens) |
| GPL16791 |
Illumina HiSeq 2500 (Homo sapiens) |
| GPL20172 |
Illumina MiSeq (Drosophila melanogaster; Homo sapiens) |
| GPL21246 |
Illumina HiSeq 2500 (Drosophila melanogaster; Homo sapiens) |
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| Samples (98)
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| GSM1973190 |
HCEC bait 3, bait 4, bait 6, bait 9, bait 10 |
| GSM1973191 |
HCT116 bait 9 |
| GSM1973192 |
HCT116 bait 5, rep1 |
| GSM1973193 |
HCT116 bait 5, rep2 |
| GSM1973194 |
HCEC bait 5 |
| GSM1973195 |
HCT116 bait 5 low cell input, rep1 |
| GSM1973196 |
HCT116 bait 5 low cell input, rep2 |
| GSM1973197 |
HCT116 bait 5 low cell input, rep3 |
| GSM1973198 |
HCT116 bait 5 low cell input, rep4 |
| GSM1973199 |
HCT116 bait 5 low cell input, rep5 |
| GSM1973200 |
HCT116 bait 5 low cell input, rep6 |
| GSM1973201 |
HCT116 bait 5 low cell input, rep7 |
| GSM1973202 |
HCT116 bait 5 low cell input, rep8 |
| GSM1973203 |
HCT116 bait 5 low cell input, rep9 |
| GSM1973204 |
HCT116 bait 5 low cell input, rep10 |
| GSM1973205 |
HCT116 bait 7 |
| GSM1973206 |
HCT116 bait 2 |
| GSM1973207 |
HCT116 bait 1 |
| GSM1973208 |
HCEC bait 7 |
| GSM1973209 |
HCEC bait 2 |
| GSM1973210 |
HCEC bait 1 |
| GSM1973211 |
HCEC bait 5 low cell input, rep1 |
| GSM1973212 |
HCEC bait 5 low cell input, rep2 |
| GSM1973213 |
HCEC bait 5 low cell input, rep3 |
| GSM1973214 |
HCEC bait 5 low cell input, rep4 |
| GSM1973215 |
HCEC bait 5 low cell input, rep5 |
| GSM1973216 |
HCEC bait 5 low cell input, rep6 |
| GSM1973217 |
HCEC bait 5 low cell input, rep7 |
| GSM1973218 |
HCEC bait 5 low cell input, rep8 |
| GSM1973219 |
HCEC bait 5 low cell input, rep9 |
| GSM1973220 |
HCEC bait 5 low cell input, rep10 |
| GSM1973221 |
HCT116 bait 4 |
| GSM1973222 |
HCEC bait 4 |
| GSM1973223 |
HCT116 bait 5 HiSeq1 |
| GSM1973224 |
HCT116 bait 5 HiSeq2 |
| GSM1973225 |
HCT116 bait 1 to 10 low cell input, rep1 |
| GSM1973226 |
HCT116 bait 5 FP6h |
| GSM1973340 |
HCEC RNAseq, rep1 |
| GSM1973341 |
HCEC RNAseq, rep2 |
| GSM1973342 |
HCT116 RNAseq, rep1 |
| GSM1973343 |
HCT116 RNAseq, rep2 |
| GSM1973391 |
HCEC GROseq, rep1 |
| GSM1973392 |
HCEC GROseq, rep2 |
| GSM1973393 |
HCT116 GROseq, rep1 |
| GSM1973394 |
HCT116 GROseq, rep2 |
| GSM1973415 |
HCT116 H3K27me3, rep1 |
| GSM1973416 |
HCT116 H3K27me3, rep2 |
| GSM2474255 |
HCT116 half of 300 cells input, bait 5, replicate 10 |
| GSM2474256 |
HCT116 half of 300 cells input, bait 5, replicate 2 |
| GSM2474257 |
HCT116 half of 300 cells input, bait 5, replicate 3 |
| GSM2474258 |
HCT116 half of 300 cells input, bait 5, replicate 4 |
| GSM2474259 |
HCT116 half of 300 cells input, bait 5, replicate 5 |
| GSM2474260 |
HCT116 half of 300 cells input, bait 5, replicate 6 |
| GSM2474261 |
HCT116 half of 300 cells input, bait 5, replicate 7 |
| GSM2474262 |
HCT116 half of 300 cells input, bait 5, replicate 8 |
| GSM2474263 |
HCT116 half of 300 cells input, bait 5, replicate 9 |
| GSM2474264 |
HCT116, 35 pg input, bait 5, replicate 1 |
| GSM2474265 |
HCT116, 35 pg input, bait 5, replicate 9 |
| GSM2474266 |
HCT116, 35 pg input, bait 5, replicate 13 |
| GSM2474267 |
HCT116, 35 pg input, bait 5, replicate A12 |
| GSM2474268 |
HCT116, 35 pg input, bait 5, replicate 7 |
| GSM2474269 |
HCT116, 35 pg input, bait 5, replicate 3 |
| GSM2474270 |
HCT116, 35 pg input, bait 5, replicate 11 |
| GSM2474271 |
HCT116, 35 pg input, bait 5, replicate A16 |
| GSM2474272 |
HCT116, 35 pg input, bait 5, replicate 5 |
| GSM2474273 |
HCT116, 35 pg input, bait 5, replicate A18 |
| GSM2474274 |
HCT116, 35 pg input, bait 5, replicate 15 |
| GSM2474275 |
HCT116, 35 pg input, bait 5, replicate A2 |
| GSM2474276 |
HCT116, 35 pg input, bait 5, replicate A20 |
| GSM2474277 |
HCT116, 35 pg input, bait 5, replicate 14 |
| GSM2474278 |
HCT116, 35 pg input, bait 5, replicate 12 |
| GSM2474279 |
HCT116, 35 pg input, bait 5, replicate 10 |
| GSM2474280 |
HCT116, 35 pg input, bait 5, replicate A24 |
| GSM2474281 |
HCT116, 35 pg input, bait 5, replicate A3 |
| GSM2474282 |
HCT116, 35 pg input, bait 5, replicate 8 |
| GSM2474283 |
HCT116, 35 pg input, bait 5, replicate 6 |
| GSM2474284 |
HCT116, 35 pg input, bait 5, replicate A6 |
| GSM2474285 |
HCT116, 35 pg input, bait 5, replicate 2 |
| GSM2474286 |
HCT116, 35 pg input, bait 5, replicate 4 |
| GSM2474287 |
HCT116, 35 pg input, bait 5, replicate A9 |
| GSM2474288 |
HCT116 35 pg input, bait 1, replicate 8 |
| GSM2474289 |
HCT116 35 pg input, bait 2, replicate 8 |
| GSM2474290 |
HCT116 35 pg input, bait 3 and 4, replicate 8 |
| GSM2474291 |
HCT116 35 pg input, bait 5, replicate 8 |
| GSM2474292 |
HCT116 35 pg input, bait 6, 9 and 10, replicate 8 |
| GSM2474293 |
HCT116 35 pg input, bait 7, replicate 8 |
| GSM2474294 |
HCT116 35 pg input, bait 8, replicate 8 |
| GSM2474295 |
HCT116 35pg input, bait 1, replicate 6 |
| GSM2474296 |
HCT116 35 pg input, bait 2, replicate 6 |
| GSM2474297 |
HCT116 35 pg input bait 3 and 4, replicate 6 |
| GSM2474298 |
HCT116, 35 pg input, bait 5 repeat, replicate 6 |
| GSM2474299 |
HCT116 35 pg input, bait 6, 9 and 10, replicate 6 |
| GSM2474300 |
HCT116 35 pg input, bait 7, replicate 6 |
| GSM2474301 |
HCT116 35 pg input, bait 8, replicate 6 |
| GSM2474302 |
HCT116 half of 300 cells input, bait 1, 2, 3, 4, 5, 6, 7, 8, 9 and 10 |
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| This SuperSeries is composed of the following SubSeries:
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| GSE76038 |
The ultra-sensitive Nodewalk technique identifies stochastic from virtual, population-based enhancer hubs regulating MYC in 3D: Implications for the fitness of cancer cells [Nodewalk-seq] |
| GSE76041 |
The ultra-sensitive Nodewalk technique identifies stochastic from virtual, population-based enhancer hubs regulating MYC in 3D: Implications for the fitness of cancer cells [RNA-seq] |
| GSE76043 |
The ultra-sensitive Nodewalk technique identifies stochastic from virtual, population-based enhancer hubs regulating MYC in 3D: Implications for the fitness of cancer cells [GRO-seq] |
| GSE76048 |
The ultra-sensitive Nodewalk technique identifies stochastic from virtual, population-based enhancer hubs regulating MYC in 3D: Implications for the fitness of cancer cells [ChIP-seq] |
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| Relations |
| BioProject |
PRJNA306055 |
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