RNA-sequencing from duodenal bipsies of Celiac disease patients
Samples, in a form of PAXgene fixed and paraffin-embedded biopsies, were collected from the multi-site, double-blind, randomized, placebo-controlled trial, aimed at dose-finding and assessing the efficacy and tolerability of a 6-week treatment with ZED1227 capsules vs. placebo in subjects with well-controlled celiac disease undergoing gluten challenge. Total RNA was extracted from the PaxFPE biopsy specimens (n = 116) using additional cuttings from the samples on which histomorphometry was previously assessed. For the extraction, an RNeasy Kit (Qiagen, Hilden, Germany) was used according to the manufacturer’s instructions. Library preparation and next-generation sequencing (NGS) were performed by the Qiagen NGS Service. A total of 10 ng of purified RNA was converted into cDNA NGS libraries. Library preparation was quality controlled using capillary electrophoresis. Based on the quality of the inserts and the concentration measurements, the libraries were pooled in equimolar ratios and then sequenced on a NextSeq (Illumina Inc., San Diego, USA) sequencing instrument according to the manufacturer’s instructions, with 100 bp read length for read 1 and 27bp for read 2. The raw data were de-multiplexed, and FASTQ files for each sample were generated using bcl2fastq2 software (Illumina Inc., San Diego, USA).
- 20/06/2024
- 116 samples
- DAC: EGAC50000000233
- Technology: NextSeq 550
- NPUNCU DUO:0000018 (version: 2021-02-23)not for profit, non commercial use onlyThis data use modifier indicates that use of the data is limited to not-for-profit organizations and not-for-profit use, non-commercial use.
- COL DUO:0000020 (version: 2021-02-23)collaboration requiredThis data use modifier indicates that the requestor must agree to collaboration with the primary study investigator(s).
- IRB DUO:0000021 (version: 2021-02-23)ethics approval requiredThis data use modifier indicates that the requestor must provide documentation of local IRB/ERB approval.
- GRU DUO:0000042 (version: 2021-02-23)general research useThis data use permission indicates that use is allowed for general research use for any research purpose.
Two researchers from Tampere and one from Dr Falkpharma GmbH
Data will be shared if the proposed project falls within the patient/caretaker consent
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 |
|---|---|---|
| EGAS50000000337 | Transcriptome Sequencing |
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 | Located in | |
|---|---|---|---|---|
| EGAF50000108142 | fastq.gz | 60.3 MB | ||
| EGAF50000108143 | fastq.gz | 186.3 MB | ||
| EGAF50000108144 | fastq.gz | 91.4 MB | ||
| EGAF50000108145 | fastq.gz | 301.7 MB | ||
| EGAF50000108146 | fastq.gz | 211.7 MB | ||
| EGAF50000108147 | fastq.gz | 65.7 MB | ||
| EGAF50000108148 | fastq.gz | 269.6 MB | ||
| EGAF50000108149 | fastq.gz | 82.7 MB | ||
| EGAF50000108150 | fastq.gz | 64.9 MB | ||
| EGAF50000108151 | fastq.gz | 207.9 MB | ||
| EGAF50000108152 | fastq.gz | 71.9 MB | ||
| EGAF50000108153 | fastq.gz | 216.6 MB | ||
| EGAF50000108154 | fastq.gz | 76.4 MB | ||
| EGAF50000108155 | fastq.gz | 251.9 MB | ||
| EGAF50000108156 | fastq.gz | 71.1 MB | ||
| EGAF50000108157 | fastq.gz | 232.1 MB | ||
| EGAF50000108158 | fastq.gz | 71.2 MB | ||
| EGAF50000108159 | fastq.gz | 231.5 MB | ||
| EGAF50000108160 | fastq.gz | 67.5 MB | ||
| EGAF50000108161 | fastq.gz | 220.8 MB | ||
| EGAF50000108162 | fastq.gz | 64.1 MB | ||
| EGAF50000108163 | fastq.gz | 209.9 MB | ||
| EGAF50000108164 | fastq.gz | 74.4 MB | ||
| EGAF50000108165 | fastq.gz | 248.1 MB | ||
| EGAF50000108166 | fastq.gz | 82.6 MB | ||
| EGAF50000108167 | fastq.gz | 270.3 MB | ||
| EGAF50000108168 | fastq.gz | 77.5 MB | ||
| EGAF50000108169 | fastq.gz | 247.8 MB | ||
| EGAF50000108170 | fastq.gz | 205.7 MB | ||
| EGAF50000108171 | fastq.gz | 63.8 MB | ||
| EGAF50000108172 | fastq.gz | 69.2 MB | ||
| EGAF50000108173 | fastq.gz | 221.2 MB | ||
| EGAF50000108174 | fastq.gz | 194.6 MB | ||
| EGAF50000108175 | fastq.gz | 59.7 MB | ||
| EGAF50000108176 | fastq.gz | 52.1 MB | ||
| EGAF50000108177 | fastq.gz | 168.9 MB | ||
| EGAF50000108178 | fastq.gz | 70.5 MB | ||
| EGAF50000108179 | fastq.gz | 235.9 MB | ||
| EGAF50000108180 | fastq.gz | 47.3 MB | ||
| EGAF50000108181 | fastq.gz | 153.9 MB | ||
| EGAF50000108182 | fastq.gz | 76.7 MB | ||
| EGAF50000108183 | fastq.gz | 251.6 MB | ||
| EGAF50000108184 | fastq.gz | 59.0 MB | ||
| EGAF50000108185 | fastq.gz | 185.1 MB | ||
| EGAF50000108186 | fastq.gz | 96.6 MB | ||
| EGAF50000108187 | fastq.gz | 317.7 MB | ||
| EGAF50000108188 | fastq.gz | 70.3 MB | ||
| EGAF50000108189 | fastq.gz | 230.1 MB | ||
| EGAF50000108190 | fastq.gz | 91.5 MB | ||
| EGAF50000108191 | fastq.gz | 300.9 MB | ||
| EGAF50000108192 | fastq.gz | 218.1 MB | ||
| EGAF50000108193 | fastq.gz | 67.7 MB | ||
| EGAF50000108194 | fastq.gz | 45.7 MB | ||
| EGAF50000108195 | fastq.gz | 146.7 MB | ||
| EGAF50000108196 | fastq.gz | 60.8 MB | ||
| EGAF50000108197 | fastq.gz | 196.2 MB | ||
| EGAF50000108198 | fastq.gz | 187.2 MB | ||
| EGAF50000108199 | fastq.gz | 57.8 MB | ||
| EGAF50000108200 | fastq.gz | 156.6 MB | ||
| EGAF50000108201 | fastq.gz | 49.8 MB | ||
| EGAF50000108202 | fastq.gz | 137.7 MB | ||
| EGAF50000108203 | fastq.gz | 43.3 MB | ||
| EGAF50000108204 | fastq.gz | 295.7 MB | ||
| EGAF50000108205 | fastq.gz | 89.9 MB | ||
| EGAF50000108206 | fastq.gz | 206.6 MB | ||
| EGAF50000108207 | fastq.gz | 62.8 MB | ||
| EGAF50000108208 | fastq.gz | 69.4 MB | ||
| EGAF50000108209 | fastq.gz | 228.0 MB | ||
| EGAF50000108210 | fastq.gz | 165.8 MB | ||
| EGAF50000108211 | fastq.gz | 51.9 MB | ||
| EGAF50000108212 | fastq.gz | 190.8 MB | ||
| EGAF50000108213 | fastq.gz | 58.3 MB | ||
| EGAF50000108214 | fastq.gz | 91.4 MB | ||
| EGAF50000108215 | fastq.gz | 300.6 MB | ||
| EGAF50000108216 | fastq.gz | 76.2 MB | ||
| EGAF50000108217 | fastq.gz | 244.6 MB | ||
| EGAF50000108218 | fastq.gz | 80.4 MB | ||
| EGAF50000108219 | fastq.gz | 268.9 MB | ||
| EGAF50000108220 | fastq.gz | 77.5 MB | ||
| EGAF50000108221 | fastq.gz | 256.1 MB | ||
| EGAF50000108222 | fastq.gz | 70.2 MB | ||
| EGAF50000108223 | fastq.gz | 228.1 MB | ||
| EGAF50000108224 | fastq.gz | 90.4 MB | ||
| EGAF50000108225 | fastq.gz | 296.1 MB | ||
| EGAF50000108226 | fastq.gz | 90.0 MB | ||
| EGAF50000108227 | fastq.gz | 299.0 MB | ||
| EGAF50000108228 | fastq.gz | 83.2 MB | ||
| EGAF50000108229 | fastq.gz | 267.7 MB | ||
| EGAF50000108230 | fastq.gz | 59.0 MB | ||
| EGAF50000108231 | fastq.gz | 187.9 MB | ||
| EGAF50000108232 | fastq.gz | 87.7 MB | ||
| EGAF50000108233 | fastq.gz | 280.5 MB | ||
| EGAF50000108234 | fastq.gz | 58.3 MB | ||
| EGAF50000108235 | fastq.gz | 189.6 MB | ||
| EGAF50000108236 | fastq.gz | 103.3 MB | ||
| EGAF50000108237 | fastq.gz | 343.4 MB | ||
| EGAF50000108238 | fastq.gz | 94.9 MB | ||
| EGAF50000108239 | fastq.gz | 315.7 MB | ||
| EGAF50000108240 | fastq.gz | 73.2 MB | ||
| EGAF50000108241 | fastq.gz | 242.3 MB | ||
| EGAF50000108242 | fastq.gz | 95.5 MB | ||
| EGAF50000108243 | fastq.gz | 305.2 MB | ||
| EGAF50000108244 | fastq.gz | 62.6 MB | ||
| EGAF50000108245 | fastq.gz | 198.6 MB | ||
| EGAF50000108246 | fastq.gz | 73.3 MB | ||
| EGAF50000108247 | fastq.gz | 224.3 MB | ||
| EGAF50000108248 | fastq.gz | 65.7 MB | ||
| EGAF50000108249 | fastq.gz | 216.7 MB | ||
| EGAF50000108250 | fastq.gz | 76.5 MB | ||
| EGAF50000108251 | fastq.gz | 248.6 MB | ||
| EGAF50000108252 | fastq.gz | 105.6 MB | ||
| EGAF50000108253 | fastq.gz | 350.8 MB | ||
| EGAF50000108254 | fastq.gz | 84.1 MB | ||
| EGAF50000108255 | fastq.gz | 270.0 MB | ||
| EGAF50000108256 | fastq.gz | 25.1 MB | ||
| EGAF50000108257 | fastq.gz | 78.5 MB | ||
| EGAF50000108258 | fastq.gz | 199.5 MB | ||
| EGAF50000108259 | fastq.gz | 62.4 MB | ||
| EGAF50000108260 | fastq.gz | 83.3 MB | ||
| EGAF50000108261 | fastq.gz | 276.3 MB | ||
| EGAF50000108262 | fastq.gz | 85.9 MB | ||
| EGAF50000108263 | fastq.gz | 271.9 MB | ||
| EGAF50000108264 | fastq.gz | 77.4 MB | ||
| EGAF50000108265 | fastq.gz | 253.2 MB | ||
| EGAF50000108266 | fastq.gz | 85.0 MB | ||
| EGAF50000108267 | fastq.gz | 274.8 MB | ||
| EGAF50000108268 | fastq.gz | 85.3 MB | ||
| EGAF50000108269 | fastq.gz | 280.6 MB | ||
| EGAF50000108270 | fastq.gz | 80.7 MB | ||
| EGAF50000108271 | fastq.gz | 264.5 MB | ||
| EGAF50000108272 | fastq.gz | 79.9 MB | ||
| EGAF50000108273 | fastq.gz | 252.0 MB | ||
| EGAF50000108274 | fastq.gz | 92.4 MB | ||
| EGAF50000108275 | fastq.gz | 306.0 MB | ||
| EGAF50000108276 | fastq.gz | 96.8 MB | ||
| EGAF50000108277 | fastq.gz | 319.7 MB | ||
| EGAF50000108278 | fastq.gz | 107.6 MB | ||
| EGAF50000108279 | fastq.gz | 360.3 MB | ||
| EGAF50000108280 | fastq.gz | 108.5 MB | ||
| EGAF50000108281 | fastq.gz | 366.0 MB | ||
| EGAF50000108282 | fastq.gz | 86.1 MB | ||
| EGAF50000108283 | fastq.gz | 288.1 MB | ||
| EGAF50000108284 | fastq.gz | 117.1 MB | ||
| EGAF50000108285 | fastq.gz | 36.2 MB | ||
| EGAF50000108286 | fastq.gz | 86.4 MB | ||
| EGAF50000108287 | fastq.gz | 287.1 MB | ||
| EGAF50000108288 | fastq.gz | 254.4 MB | ||
| EGAF50000108289 | fastq.gz | 77.7 MB | ||
| EGAF50000108290 | fastq.gz | 86.5 MB | ||
| EGAF50000108291 | fastq.gz | 289.2 MB | ||
| EGAF50000108292 | fastq.gz | 90.2 MB | ||
| EGAF50000108293 | fastq.gz | 295.8 MB | ||
| EGAF50000108294 | fastq.gz | 70.8 MB | ||
| EGAF50000108295 | fastq.gz | 233.0 MB | ||
| EGAF50000108296 | fastq.gz | 92.6 MB | ||
| EGAF50000108297 | fastq.gz | 299.5 MB | ||
| EGAF50000108298 | fastq.gz | 71.2 MB | ||
| EGAF50000108299 | fastq.gz | 234.3 MB | ||
| EGAF50000108300 | fastq.gz | 67.9 MB | ||
| EGAF50000108301 | fastq.gz | 220.8 MB | ||
| EGAF50000108302 | fastq.gz | 53.5 MB | ||
| EGAF50000108303 | fastq.gz | 170.6 MB | ||
| EGAF50000108304 | fastq.gz | 106.4 MB | ||
| EGAF50000108305 | fastq.gz | 356.0 MB | ||
| EGAF50000108306 | fastq.gz | 233.7 MB | ||
| EGAF50000108307 | fastq.gz | 72.3 MB | ||
| EGAF50000108308 | fastq.gz | 85.9 MB | ||
| EGAF50000108309 | fastq.gz | 285.7 MB | ||
| EGAF50000108310 | fastq.gz | 127.2 MB | ||
| EGAF50000108311 | fastq.gz | 416.7 MB | ||
| EGAF50000108312 | fastq.gz | 63.0 MB | ||
| EGAF50000108313 | fastq.gz | 202.7 MB | ||
| EGAF50000108314 | fastq.gz | 78.6 MB | ||
| EGAF50000108315 | fastq.gz | 249.4 MB | ||
| EGAF50000108316 | fastq.gz | 72.9 MB | ||
| EGAF50000108317 | fastq.gz | 244.5 MB | ||
| EGAF50000108318 | fastq.gz | 87.0 MB | ||
| EGAF50000108319 | fastq.gz | 291.0 MB | ||
| EGAF50000108320 | fastq.gz | 178.1 MB | ||
| EGAF50000108321 | fastq.gz | 54.1 MB | ||
| EGAF50000108322 | fastq.gz | 67.7 MB | ||
| EGAF50000108323 | fastq.gz | 223.3 MB | ||
| EGAF50000108324 | fastq.gz | 108.7 MB | ||
| EGAF50000108325 | fastq.gz | 365.4 MB | ||
| EGAF50000108326 | fastq.gz | 176.3 MB | ||
| EGAF50000108327 | fastq.gz | 54.2 MB | ||
| EGAF50000108328 | fastq.gz | 80.9 MB | ||
| EGAF50000108329 | fastq.gz | 268.8 MB | ||
| EGAF50000108330 | fastq.gz | 100.5 MB | ||
| EGAF50000108331 | fastq.gz | 338.4 MB | ||
| EGAF50000108332 | fastq.gz | 325.5 MB | ||
| EGAF50000108333 | fastq.gz | 98.6 MB | ||
| EGAF50000108334 | fastq.gz | 85.5 MB | ||
| EGAF50000108335 | fastq.gz | 284.9 MB | ||
| EGAF50000108336 | fastq.gz | 70.8 MB | ||
| EGAF50000108337 | fastq.gz | 236.9 MB | ||
| EGAF50000108338 | fastq.gz | 99.6 MB | ||
| EGAF50000108339 | fastq.gz | 333.6 MB | ||
| EGAF50000108340 | fastq.gz | 120.4 MB | ||
| EGAF50000108341 | fastq.gz | 405.2 MB | ||
| EGAF50000108342 | fastq.gz | 84.0 MB | ||
| EGAF50000108343 | fastq.gz | 271.8 MB | ||
| EGAF50000108344 | fastq.gz | 81.7 MB | ||
| EGAF50000108345 | fastq.gz | 264.3 MB | ||
| EGAF50000108346 | fastq.gz | 157.4 MB | ||
| EGAF50000108347 | fastq.gz | 50.1 MB | ||
| EGAF50000108348 | fastq.gz | 68.5 MB | ||
| EGAF50000108349 | fastq.gz | 227.7 MB | ||
| EGAF50000108350 | fastq.gz | 108.6 MB | ||
| EGAF50000108351 | fastq.gz | 362.4 MB | ||
| EGAF50000108352 | fastq.gz | 91.2 MB | ||
| EGAF50000108353 | fastq.gz | 299.7 MB | ||
| EGAF50000108354 | fastq.gz | 125.4 MB | ||
| EGAF50000108355 | fastq.gz | 420.3 MB | ||
| EGAF50000108356 | fastq.gz | 82.3 MB | ||
| EGAF50000108357 | fastq.gz | 271.1 MB | ||
| EGAF50000108358 | fastq.gz | 69.2 MB | ||
| EGAF50000108359 | fastq.gz | 225.8 MB | ||
| EGAF50000108360 | fastq.gz | 96.0 MB | ||
| EGAF50000108361 | fastq.gz | 321.0 MB | ||
| EGAF50000108362 | fastq.gz | 77.1 MB | ||
| EGAF50000108363 | fastq.gz | 252.6 MB | ||
| EGAF50000108364 | fastq.gz | 75.8 MB | ||
| EGAF50000108365 | fastq.gz | 247.5 MB | ||
| EGAF50000108366 | fastq.gz | 265.5 MB | ||
| EGAF50000108367 | fastq.gz | 81.0 MB | ||
| EGAF50000108368 | fastq.gz | 94.2 MB | ||
| EGAF50000108369 | fastq.gz | 314.5 MB | ||
| EGAF50000108370 | fastq.gz | 89.2 MB | ||
| EGAF50000108371 | fastq.gz | 299.2 MB | ||
| EGAF50000108372 | fastq.gz | 77.4 MB | ||
| EGAF50000108373 | fastq.gz | 254.5 MB | ||
| EGAF50000108375 | txt | 13.5 MB | ||
| 233 Files (38.5 GB) | ||||