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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).

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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)