Cell-Free DNA Genomic Profiling and its Clinical Implementation in Advanced Prostate Cancer
Sixty-eight patients with advanced prostate cancer in castration-resistant or castration-sensitive settings undergoing treatment at the University Hospital Basel or the St. Claraspital Basel (Switzerland) were selected for targeted parallel sequencing analysis on liquid biopsy (plasma cfDNA) and matched formalin-fixed, paraffin-embedded (FFPE) tumor tissue samples. The liquid biopsy sequencing (plasma cfDNA) was performed using a custom-designed targeted AmpliSeq HD Prostate Cancer cfDNA panel on all 68 patients. The sequencing on 42 matched FFPE tumor biopsy samples was performed using a custom-designed or an alternative commercial panel (ThermoFisher). Raw data underwent automated processing on the Ion Torrent Server v5.16.1 (ThermoFIsher) and were aligned to a hg19 reference genome using the Torrent Alignment Software (ThermoFihser).
- 02/04/2024
- 129 samples
- DAC: EGAC00001002981
- Technology: Ion GeneStudio S5 Prime
Data Access Policy of Datasets controlled by MF-DAC
ATTENTION: Please check the following policy and the documents/information to provide in order to get access to the requested datasets. You can find the governing policy on Zenodo under the link: https://zenodo.org/records/12517622 Please provide all information as requested in the document to the MF-DAC. Additionally, you can find more information about the Data Access Committee of the Medical Faculty of the University of Basel (MF-DAC) under the following link on Zenodo: https://zenodo.org/records/10137776
Studies are experimental investigations of a particular phenomenon, e.g., case-control studies on a particular trait or cancer research projects reporting matching cancer normal genomes from patients.
| Study ID | Study Title | Study Type |
|---|---|---|
| EGAS50000000234 | Cancer Genomics |
This table displays only public information pertaining to the files in the dataset. If you wish to access this dataset, please submit a request. If you already have access to these data files, please consult the download documentation.
| ID | File Type | Size | Quality Report |
Located in
i
|
|---|---|---|---|---|
| EGAF50000090208 | bam | 1.2 GB | Report |
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| EGAF50000090209 | bam | 1.3 GB | Report |
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| EGAF50000090210 | bam | 1.3 GB | Report |
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| EGAF50000090211 | bam | 1.4 GB | Report |
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| EGAF50000090212 | bam | 1.5 GB | Report |
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| EGAF50000090213 | bam | 1.4 GB | Report |
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| EGAF50000090214 | bam | 1.4 GB | Report |
|
| EGAF50000090215 | bam | 1.1 GB | Report |
|
| EGAF50000090216 | bam | 345.0 MB | Report |
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| EGAF50000090217 | bam | 1.3 GB | Report |
|
| EGAF50000090218 | bam | 844.2 MB | Report |
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| EGAF50000090219 | bam | 997.6 MB | Report |
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| EGAF50000090220 | bam | 1.2 GB | Report |
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| EGAF50000090221 | bam | 1.1 GB | Report |
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| EGAF50000090222 | bam | 1.2 GB | Report |
|
| EGAF50000090223 | bam | 1.4 GB | Report |
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| EGAF50000090224 | bam | 1.1 GB | Report |
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| EGAF50000090225 | bam | 1.4 GB | Report |
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| EGAF50000090226 | bam | 4.3 GB | Report |
|
| EGAF50000090227 | bam | 1.4 GB | Report |
|
| EGAF50000090228 | bam | 2.7 GB | Report |
|
| EGAF50000090229 | bam | 7.8 GB | Report |
|
| EGAF50000090230 | bam | 4.7 GB | Report |
|
| EGAF50000090231 | bam | 3.1 GB | Report |
|
| EGAF50000090232 | bam | 1.1 GB | Report |
|
| EGAF50000090233 | bam | 793.7 MB | Report |
|
| EGAF50000090234 | bam | 3.6 GB | Report |
|
| EGAF50000090235 | bam | 2.7 GB | Report |
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| EGAF50000090236 | bam | 2.4 GB | Report |
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| EGAF50000090237 | bam | 1.2 GB | Report |
|
| EGAF50000090238 | bam | 9.0 GB | Report |
|
| EGAF50000090239 | bam | 4.1 GB | Report |
|
| EGAF50000090240 | bam | 4.6 GB | Report |
|
| EGAF50000090241 | bam | 849.7 MB | Report |
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| EGAF50000090242 | bam | 1.2 GB | Report |
|
| EGAF50000090243 | bam | 1.7 GB | Report |
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| EGAF50000090244 | bam | 3.1 GB | Report |
|
| EGAF50000090245 | bam | 3.5 GB | Report |
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| EGAF50000090246 | bam | 1.3 GB | Report |
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| EGAF50000090247 | bam | 1.2 GB | Report |
|
| EGAF50000090248 | bam | 7.1 GB | Report |
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| EGAF50000090249 | bam | 9.6 GB | Report |
|
| EGAF50000090250 | bam | 9.2 GB | Report |
|
| EGAF50000090251 | bam | 11.9 GB | Report |
|
| EGAF50000090252 | bam | 10.5 GB | Report |
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| EGAF50000090253 | bam | 18.3 GB | Report |
|
| EGAF50000090254 | bam | 9.1 GB | Report |
|
| EGAF50000090255 | bam | 15.4 GB | Report |
|
| EGAF50000090256 | bam | 6.5 GB | Report |
|
| EGAF50000090257 | bam | 9.1 GB | Report |
|
| EGAF50000090258 | bam | 8.8 GB | Report |
|
| EGAF50000090259 | bam | 678.7 MB | Report |
|
| EGAF50000090260 | bam | 10.7 GB | Report |
|
| EGAF50000090261 | bam | 4.9 GB | Report |
|
| EGAF50000090262 | bam | 13.1 GB | Report |
|
| EGAF50000090263 | bam | 6.4 GB | Report |
|
| EGAF50000090264 | bam | 10.6 GB | Report |
|
| EGAF50000090265 | bam | 8.9 GB | Report |
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| EGAF50000090266 | bam | 11.6 GB | Report |
|
| EGAF50000090267 | bam | 8.0 GB | Report |
|
| EGAF50000090268 | bam | 1.2 GB | Report |
|
| EGAF50000090269 | bam | 10.5 GB | Report |
|
| EGAF50000090270 | bam | 8.4 GB | Report |
|
| EGAF50000090271 | bam | 9.2 GB | Report |
|
| EGAF50000090272 | bam | 7.4 GB | Report |
|
| EGAF50000090273 | bam | 12.1 GB | Report |
|
| EGAF50000090274 | bam | 13.1 GB | Report |
|
| EGAF50000090275 | bam | 12.3 GB | Report |
|
| EGAF50000090276 | bam | 13.9 GB | Report |
|
| EGAF50000090277 | bam | 13.2 GB | Report |
|
| EGAF50000090278 | bam | 11.8 GB | Report |
|
| EGAF50000090279 | bam | 629.6 MB | Report |
|
| EGAF50000090280 | bam | 7.5 GB | Report |
|
| EGAF50000090281 | bam | 8.1 GB | Report |
|
| EGAF50000090282 | bam | 8.1 GB | Report |
|
| EGAF50000090283 | bam | 9.1 GB | Report |
|
| EGAF50000090284 | bam | 12.7 GB | Report |
|
| EGAF50000090285 | bam | 10.1 GB | Report |
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| EGAF50000090286 | bam | 12.1 GB | Report |
|
| EGAF50000090287 | bam | 12.1 GB | Report |
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| EGAF50000090288 | bam | 12.8 GB | Report |
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| EGAF50000090289 | bam | 12.0 GB | Report |
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| EGAF50000090290 | bam | 4.7 GB | Report |
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| EGAF50000090291 | bam | 3.5 GB | Report |
|
| EGAF50000090292 | bam | 4.3 GB | Report |
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| EGAF50000090293 | bam | 1.2 GB | Report |
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| EGAF50000090294 | bam | 10.0 GB | Report |
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| EGAF50000090295 | bam | 9.5 GB | Report |
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| EGAF50000090296 | bam | 1.5 GB | Report |
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| EGAF50000090297 | bam | 1.5 GB | Report |
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| EGAF50000090298 | bam | 1.1 GB | Report |
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| EGAF50000090299 | bam | 10.8 GB | Report |
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| EGAF50000090300 | bam | 12.5 GB | Report |
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| EGAF50000090301 | bam | 784.9 MB | Report |
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| EGAF50000090302 | bam | 4.8 GB | Report |
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| EGAF50000090303 | bam | 13.8 GB | Report |
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| EGAF50000090304 | bam | 11.4 GB | Report |
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| EGAF50000090305 | bam | 12.6 GB | Report |
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| EGAF50000090306 | bam | 11.0 GB | Report |
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| EGAF50000090307 | bam | 13.1 GB | Report |
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| EGAF50000090308 | bam | 11.3 GB | Report |
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| EGAF50000090309 | bam | 11.2 GB | Report |
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| EGAF50000090310 | bam | 11.0 GB | Report |
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| EGAF50000090311 | bam | 8.5 GB |
|
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| EGAF50000090312 | bam | 10.5 GB | Report |
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| EGAF50000090313 | bam | 7.7 GB | Report |
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| EGAF50000090314 | bam | 7.6 GB | Report |
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| EGAF50000090315 | bam | 1.3 GB | Report |
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| EGAF50000090316 | bam | 1.7 GB | Report |
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| EGAF50000090317 | bam | 11.2 GB | Report |
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| EGAF50000090318 | bam | 1.3 GB | Report |
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| EGAF50000090319 | bam | 1.5 GB | Report |
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| EGAF50000090320 | bam | 10.6 GB | Report |
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| EGAF50000090321 | bam | 1.1 GB | Report |
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| EGAF50000090322 | bam | 1.1 GB | Report |
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| EGAF50000090323 | bam | 1.5 GB | Report |
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| EGAF50000090324 | bam | 1.6 GB | Report |
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| EGAF50000090325 | bam | 1.2 GB | Report |
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| EGAF50000090326 | bam | 3.8 GB | Report |
|
| EGAF50000090327 | bam | 8.9 GB | Report |
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| EGAF50000090328 | bam | 8.0 GB | Report |
|
| EGAF50000090329 | bam | 820.0 MB | Report |
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| EGAF50000090330 | bam | 13.9 GB | Report |
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| EGAF50000090331 | bam | 1.2 GB | Report |
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| EGAF50000090332 | bam | 1.6 GB | Report |
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| EGAF50000090333 | bam | 13.5 GB | Report |
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| EGAF50000090334 | bam | 13.1 GB | Report |
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| EGAF50000090335 | bam | 12.6 GB | Report |
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| EGAF50000090336 | bam | 10.1 GB | Report |
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| EGAF50000090337 | txt | 1.2 kB |
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| EGAF50000090338 | txt | 1.2 kB |
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| 131 Files (813.9 GB) | ||||