About file location

As the EGA is co-managed by the EMBL-EBI and CRG, files could be located in the UK and/or Spain, as indicated by their respective flags.

Alternatively, files could be located in one of the international Federated EGA nodes, as indicated next to the node's flag.
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SIA Subtyping Shallow Whole Genome Sequencing (sWGS)

Associated with Molecular classification of small intestinal adenocarcinomas. Shallow Whole Genome Sequencing (sWGS) generated 214 .fastq files from 127 small intestine adenocarcinomas from 125 patients. DNA libraries for shallow whole genome sequencing were prepared using TruSeq Nano kits (Illumina).

Request Access

Data originating from patient samples

The Amsterdam UMC, tumor genome analysis core, allows access to published datasets upon written application and signature of a Data Access Agreement (DAA). In addition, applications to clinical datasets require approval by a Data Access Committee (DAC), who assess whether the proposed work is allowed given patient consent, as well as the scientific purpose. To aid this process we ask you to provide the information below. Requests will be prioritised according to novelty of the research question. Applications with insufficient detail on objectives, justification, and methods/planned analyses are unlikely to be accepted. 1. Reference number for the dataset 2. Full legal name and address of university/institution 3. Name(s) of the Principle Investigator who will use the data: 4. Name(s) and job title(s) of any other investigators who will use the data: 5. Please provide a minimum of one reference to a publication that can be found on PubMed and where the Principle Investigator is an author: 6. How will the data be stored and where will it be stored? 7. What is the proposed study title and what are the objectives and outcomes of the study in which the data will be used 8. Please provide a brief justification or rationale for the proposed study (max 250 words): 9. Please provide a brief description of planned data analyses (max 250 words): 10. Will the results arising from use of the data be used for the creation of products for sale or for any commercial purpose?

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
EGAS50000001238 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
EGAF50000425348 fastq.gz 1.1 GB
EGAF50000425352 fastq.gz 423.3 MB
EGAF50000425354 fastq.gz 723.3 MB
EGAF50000425355 fastq.gz 1.2 GB
EGAF50000425356 fastq.gz 1.2 GB
EGAF50000425357 fastq.gz 1.1 GB
EGAF50000425361 fastq.gz 967.3 MB
EGAF50000425362 fastq.gz 1.2 GB
EGAF50000425363 fastq.gz 773.5 MB
EGAF50000425364 fastq.gz 1.2 GB
EGAF50000425365 fastq.gz 981.9 MB
EGAF50000425366 fastq.gz 1.1 GB
EGAF50000425367 fastq.gz 400.4 MB
EGAF50000425368 fastq.gz 422.5 MB
EGAF50000425369 fastq.gz 815.5 MB
EGAF50000425370 fastq.gz 805.1 MB
EGAF50000425371 fastq.gz 804.9 MB
EGAF50000425372 fastq.gz 1.2 GB
EGAF50000425504 fastq.gz 465.4 MB
EGAF50000425505 fastq.gz 755.7 MB
EGAF50000425506 fastq.gz 780.4 MB
EGAF50000425507 fastq.gz 737.0 MB
EGAF50000425508 fastq.gz 799.1 MB
EGAF50000425509 fastq.gz 810.0 MB
EGAF50000425510 fastq.gz 910.7 MB
EGAF50000425511 fastq.gz 951.1 MB
EGAF50000425512 fastq.gz 624.7 MB
EGAF50000425513 fastq.gz 872.2 MB
EGAF50000425514 fastq.gz 982.9 MB
EGAF50000425515 fastq.gz 870.4 MB
EGAF50000425516 fastq.gz 886.4 MB
EGAF50000425517 fastq.gz 991.0 MB
EGAF50000425518 fastq.gz 993.2 MB
EGAF50000425519 fastq.gz 1.1 GB
EGAF50000425520 fastq.gz 904.8 MB
EGAF50000425521 fastq.gz 951.1 MB
EGAF50000425522 fastq.gz 1.1 GB
EGAF50000425523 fastq.gz 847.6 MB
EGAF50000425524 fastq.gz 1.2 GB
EGAF50000425525 fastq.gz 1.3 GB
EGAF50000425526 fastq.gz 763.2 MB
EGAF50000425527 fastq.gz 793.0 MB
EGAF50000425528 fastq.gz 906.7 MB
EGAF50000425529 fastq.gz 602.5 MB
EGAF50000425530 fastq.gz 609.3 MB
EGAF50000425773 fastq.gz 739.0 MB
EGAF50000425774 fastq.gz 446.2 MB
EGAF50000425778 fastq.gz 508.5 MB
EGAF50000425779 fastq.gz 420.2 MB
EGAF50000425780 fastq.gz 468.2 MB
EGAF50000425781 fastq.gz 672.6 MB
EGAF50000425782 fastq.gz 720.6 MB
EGAF50000425783 fastq.gz 438.4 MB
EGAF50000425784 fastq.gz 671.1 MB
EGAF50000425785 fastq.gz 786.7 MB
EGAF50000425786 fastq.gz 695.5 MB
EGAF50000425787 fastq.gz 778.5 MB
EGAF50000425788 fastq.gz 821.7 MB
EGAF50000425789 fastq.gz 731.8 MB
EGAF50000425790 fastq.gz 780.7 MB
EGAF50000425791 fastq.gz 674.7 MB
EGAF50000425792 fastq.gz 702.6 MB
EGAF50000425793 fastq.gz 932.6 MB
EGAF50000425794 fastq.gz 850.1 MB
EGAF50000425795 fastq.gz 896.3 MB
EGAF50000425796 fastq.gz 827.0 MB
EGAF50000425797 fastq.gz 875.7 MB
EGAF50000425935 fastq.gz 715.7 MB
EGAF50000425951 fastq.gz 1.0 GB
EGAF50000425952 fastq.gz 973.5 MB
EGAF50000425953 fastq.gz 1.0 GB
EGAF50000425954 fastq.gz 634.8 MB
EGAF50000425955 fastq.gz 683.8 MB
EGAF50000425956 fastq.gz 560.5 MB
EGAF50000426136 fastq.gz 336.0 MB
EGAF50000426137 fastq.gz 744.8 MB
EGAF50000426138 fastq.gz 765.3 MB
EGAF50000426139 fastq.gz 657.0 MB
EGAF50000426140 fastq.gz 702.3 MB
EGAF50000426141 fastq.gz 642.0 MB
EGAF50000426142 fastq.gz 683.0 MB
EGAF50000426143 fastq.gz 458.0 MB
EGAF50000426144 fastq.gz 473.8 MB
EGAF50000426145 fastq.gz 573.2 MB
EGAF50000426146 fastq.gz 624.7 MB
EGAF50000426147 fastq.gz 571.1 MB
EGAF50000426148 fastq.gz 600.2 MB
EGAF50000426149 fastq.gz 462.6 MB
EGAF50000426150 fastq.gz 632.9 MB
EGAF50000426151 fastq.gz 827.7 MB
EGAF50000426152 fastq.gz 825.7 MB
EGAF50000426153 fastq.gz 878.8 MB
EGAF50000426154 fastq.gz 441.9 MB
EGAF50000426155 fastq.gz 472.3 MB
EGAF50000426156 fastq.gz 510.3 MB
EGAF50000426157 fastq.gz 535.0 MB
EGAF50000426158 fastq.gz 818.6 MB
EGAF50000426159 fastq.gz 850.8 MB
EGAF50000426160 fastq.gz 1.0 GB
EGAF50000426161 fastq.gz 1.1 GB
EGAF50000426162 fastq.gz 799.3 MB
EGAF50000426163 fastq.gz 828.2 MB
EGAF50000426164 fastq.gz 877.4 MB
EGAF50000426165 fastq.gz 923.4 MB
EGAF50000426166 fastq.gz 849.9 MB
EGAF50000426167 fastq.gz 975.0 MB
EGAF50000426168 fastq.gz 1.0 GB
EGAF50000426169 fastq.gz 883.2 MB
EGAF50000426170 fastq.gz 927.7 MB
EGAF50000426171 fastq.gz 901.8 MB
EGAF50000426172 fastq.gz 921.1 MB
EGAF50000426173 fastq.gz 952.6 MB
EGAF50000426174 fastq.gz 884.4 MB
EGAF50000426175 fastq.gz 911.7 MB
EGAF50000426176 fastq.gz 996.4 MB
EGAF50000426177 fastq.gz 1.0 GB
EGAF50000426178 fastq.gz 782.0 MB
EGAF50000426179 fastq.gz 825.7 MB
EGAF50000426180 fastq.gz 958.4 MB
EGAF50000426181 fastq.gz 1.1 GB
EGAF50000426182 fastq.gz 862.0 MB
EGAF50000426183 fastq.gz 925.9 MB
EGAF50000426184 fastq.gz 814.6 MB
EGAF50000426185 fastq.gz 884.2 MB
EGAF50000426186 fastq.gz 904.9 MB
EGAF50000426187 fastq.gz 794.4 MB
EGAF50000426188 fastq.gz 840.0 MB
EGAF50000426189 fastq.gz 327.3 MB
EGAF50000426190 fastq.gz 781.7 MB
EGAF50000426191 fastq.gz 793.3 MB
EGAF50000426192 fastq.gz 865.6 MB
EGAF50000426193 fastq.gz 889.6 MB
EGAF50000426194 fastq.gz 1.1 GB
EGAF50000426195 fastq.gz 1.1 GB
EGAF50000426196 fastq.gz 1.0 GB
EGAF50000426197 fastq.gz 1.1 GB
EGAF50000426198 fastq.gz 921.2 MB
EGAF50000426199 fastq.gz 728.0 MB
EGAF50000426200 fastq.gz 738.3 MB
EGAF50000426201 fastq.gz 992.5 MB
EGAF50000426202 fastq.gz 1.0 GB
EGAF50000426203 fastq.gz 1.2 GB
EGAF50000426204 fastq.gz 935.0 MB
EGAF50000426205 fastq.gz 990.1 MB
EGAF50000426206 fastq.gz 714.4 MB
EGAF50000426207 fastq.gz 1.1 GB
EGAF50000426208 fastq.gz 1.2 GB
EGAF50000426209 fastq.gz 1.2 GB
EGAF50000426210 fastq.gz 1.1 GB
EGAF50000426211 fastq.gz 1.3 GB
EGAF50000426212 fastq.gz 1.4 GB
EGAF50000426213 fastq.gz 764.9 MB
EGAF50000426214 fastq.gz 838.9 MB
EGAF50000426215 fastq.gz 1.0 GB
EGAF50000426216 fastq.gz 861.6 MB
EGAF50000426217 fastq.gz 497.2 MB
EGAF50000426218 fastq.gz 539.4 MB
EGAF50000426219 fastq.gz 608.1 MB
EGAF50000426220 fastq.gz 566.8 MB
EGAF50000426221 fastq.gz 532.4 MB
EGAF50000426222 fastq.gz 648.9 MB
EGAF50000426223 fastq.gz 492.1 MB
EGAF50000426224 fastq.gz 549.1 MB
EGAF50000426225 fastq.gz 512.7 MB
EGAF50000426226 fastq.gz 530.8 MB
EGAF50000426227 fastq.gz 645.0 MB
EGAF50000426228 fastq.gz 530.0 MB
EGAF50000426229 fastq.gz 592.5 MB
EGAF50000426230 fastq.gz 469.5 MB
EGAF50000426231 fastq.gz 666.8 MB
EGAF50000426232 fastq.gz 728.4 MB
EGAF50000426233 fastq.gz 696.8 MB
EGAF50000426234 fastq.gz 670.1 MB
EGAF50000426235 fastq.gz 763.7 MB
EGAF50000426236 fastq.gz 772.4 MB
EGAF50000426237 fastq.gz 725.0 MB
EGAF50000426238 fastq.gz 614.4 MB
EGAF50000426239 fastq.gz 629.9 MB
EGAF50000426240 fastq.gz 614.9 MB
EGAF50000426241 fastq.gz 825.3 MB
EGAF50000426242 fastq.gz 499.8 MB
EGAF50000426243 fastq.gz 435.2 MB
EGAF50000426244 fastq.gz 539.6 MB
EGAF50000426245 fastq.gz 417.2 MB
EGAF50000426246 fastq.gz 558.2 MB
EGAF50000426247 fastq.gz 487.1 MB
EGAF50000426248 fastq.gz 507.9 MB
EGAF50000426249 fastq.gz 547.6 MB
EGAF50000426250 fastq.gz 517.9 MB
EGAF50000426251 fastq.gz 677.4 MB
EGAF50000426252 fastq.gz 560.8 MB
EGAF50000426253 fastq.gz 471.2 MB
EGAF50000426254 fastq.gz 528.3 MB
EGAF50000426255 fastq.gz 777.7 MB
EGAF50000426256 fastq.gz 949.5 MB
EGAF50000426257 fastq.gz 587.3 MB
EGAF50000426258 fastq.gz 496.3 MB
EGAF50000426259 fastq.gz 418.0 MB
EGAF50000426260 fastq.gz 931.7 MB
EGAF50000426261 fastq.gz 904.6 MB
EGAF50000426416 fastq.gz 310.3 MB
EGAF50000426417 fastq.gz 522.2 MB
EGAF50000426418 fastq.gz 543.9 MB
EGAF50000426419 fastq.gz 724.4 MB
EGAF50000426420 fastq.gz 658.7 MB
EGAF50000426421 fastq.gz 432.3 MB
EGAF50000426422 fastq.gz 412.8 MB
EGAF50000426423 fastq.gz 601.0 MB
EGAF50000426424 fastq.gz 612.7 MB
EGAF50000426434 fastq.gz 953.8 MB
EGAF50000426435 fastq.gz 605.1 MB
EGAF50000426436 fastq.gz 867.6 MB
EGAF50000426437 fastq.gz 917.1 MB
EGAF50000426438 fastq.gz 452.8 MB
214 Files (165.1 GB)