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Whole Exome and Target Sequencing Data in 75 Samples from 5 Hepatocellular Carcinoma Patients.

Whole Exome and Target Sequencing Data in 75 Samples from 5 Hepatocellular Carcinoma Patients. The sequencing was performed by Illumina HiSeq 4000. Background and aims: Intratumoral heterogeneity (ITH) challenges identifying mutations with target therapy potential whereas circulating cell-free DNAs (cfDNAs) could reflect nearly the entire mutation spectrum in given tumors. We investigated how to minimize the limit of ITH for profiling hepatocellular carcinoma (HCC).Methods: Thirty-two multi-regional HCC samples from five patients were subjected to whole exome sequencing (WES) and targeted deep sequencing (TDS). ITH extent was measured by the average percentage of non-ubiquitous mutations (present in parts of tumor regions). Matched cfDNAs were also analyzed by WES and TDS. Profiling efficiencies of single tumor specimen and cfDNA were compared and the one better depicted mutational landscape was selected to screen therapeutic targets.Results: We found variable extents of ITH in HCCs and observed branched and parallel evolution patterns. ITH level decreased at higher sequencing depth of TDS than that measured by WES (28.1% vs 34.9%, P < 0.01) but it remained unchanged upon additional samples analyzed. TDS of single tumor specimen detected an average of 70% the total mutations in HCC. Although more mutations were detected in cfDNA under TDS than WES, an average of 47.2% total HCC mutations uncovered by cfDNA suggested tissue outperform cfDNA and the latter may serve as alternative in profiling HCC genome. Consequently, TDS of single tumor tissue in 66 patients and cfDNAs in four unresectable HCCs identified 38.6% (26/66 and 1/4) patients bearing therapeutic targets.Conclusions: TDS of single tumor specimen could largely circumvent ITH to uncover mutations indicative of target therapy in HCC.

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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
Other

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
EGAF00001591060 fq.gz 1.2 GB
EGAF00001591061 fq.gz 1.4 GB
EGAF00001591062 fq.gz 1.8 GB
EGAF00001591063 fq.gz 2.1 GB
EGAF00001591064 fq.gz 1.8 GB
EGAF00001591065 fq.gz 2.1 GB
EGAF00001591066 fq.gz 1.7 GB
EGAF00001591067 fq.gz 1.9 GB
EGAF00001591068 fq.gz 1.7 GB
EGAF00001591069 fq.gz 2.0 GB
EGAF00001591070 fq.gz 1.7 GB
EGAF00001591071 fq.gz 2.0 GB
EGAF00001591072 fq.gz 1.5 GB
EGAF00001591073 fq.gz 1.8 GB
EGAF00001591074 fq.gz 2.1 GB
EGAF00001591075 fq.gz 2.4 GB
EGAF00001591076 fq.gz 2.1 GB
EGAF00001591077 fq.gz 2.5 GB
EGAF00001591078 fq.gz 2.0 GB
EGAF00001591079 fq.gz 2.3 GB
EGAF00001591080 fq.gz 2.0 GB
EGAF00001591081 fq.gz 2.3 GB
EGAF00001591082 fq.gz 2.0 GB
EGAF00001591083 fq.gz 2.3 GB
EGAF00001591084 fq.gz 1.5 GB
EGAF00001591085 fq.gz 1.8 GB
EGAF00001591086 fq.gz 2.3 GB
EGAF00001591087 fq.gz 2.7 GB
EGAF00001591088 fq.gz 2.3 GB
EGAF00001591089 fq.gz 2.7 GB
EGAF00001591090 fq.gz 2.2 GB
EGAF00001591091 fq.gz 2.5 GB
EGAF00001591092 fq.gz 2.2 GB
EGAF00001591093 fq.gz 2.6 GB
EGAF00001591094 fq.gz 2.2 GB
EGAF00001591095 fq.gz 2.5 GB
EGAF00001591096 fq.gz 1.1 GB
EGAF00001591097 fq.gz 1.3 GB
EGAF00001591098 fq.gz 2.0 GB
EGAF00001591099 fq.gz 2.3 GB
EGAF00001591100 fq.gz 1.9 GB
EGAF00001591101 fq.gz 2.2 GB
EGAF00001591102 fq.gz 1.8 GB
EGAF00001591103 fq.gz 2.1 GB
EGAF00001591104 fq.gz 1.9 GB
EGAF00001591105 fq.gz 2.2 GB
EGAF00001591106 fq.gz 1.9 GB
EGAF00001591107 fq.gz 2.1 GB
EGAF00001591108 fq.gz 1.0 GB
EGAF00001591109 fq.gz 1.2 GB
EGAF00001591110 fq.gz 3.5 GB
EGAF00001591111 fq.gz 4.0 GB
EGAF00001591112 fq.gz 3.6 GB
EGAF00001591113 fq.gz 4.1 GB
EGAF00001591114 fq.gz 3.5 GB
EGAF00001591115 fq.gz 4.0 GB
EGAF00001591116 fq.gz 905.6 MB
EGAF00001591117 fq.gz 1.2 GB
EGAF00001591118 fq.gz 1.2 GB
EGAF00001591119 fq.gz 1.5 GB
EGAF00001591120 fq.gz 926.7 MB
EGAF00001591121 fq.gz 1.2 GB
EGAF00001591122 fq.gz 1.1 GB
EGAF00001591123 fq.gz 1.4 GB
EGAF00001591124 fq.gz 696.9 MB
EGAF00001591125 fq.gz 790.7 MB
EGAF00001591126 fq.gz 2.7 GB
EGAF00001591127 fq.gz 3.1 GB
EGAF00001591128 fq.gz 2.8 GB
EGAF00001591129 fq.gz 3.2 GB
EGAF00001591130 fq.gz 2.7 GB
EGAF00001591131 fq.gz 3.1 GB
EGAF00001591132 fq.gz 632.1 MB
EGAF00001591133 fq.gz 739.9 MB
EGAF00001591134 fq.gz 4.2 GB
EGAF00001591135 fq.gz 4.7 GB
EGAF00001591136 fq.gz 3.2 GB
EGAF00001591137 fq.gz 3.5 GB
EGAF00001591138 fq.gz 4.3 GB
EGAF00001591139 fq.gz 4.8 GB
EGAF00001591140 fq.gz 4.2 GB
EGAF00001591141 fq.gz 4.8 GB
EGAF00001591142 fq.gz 1.4 GB
EGAF00001591143 fq.gz 1.6 GB
EGAF00001591144 fq.gz 6.0 GB
EGAF00001591145 fq.gz 6.6 GB
EGAF00001591146 fq.gz 1.3 GB
EGAF00001591147 fq.gz 1.5 GB
EGAF00001591148 fq.gz 6.0 GB
EGAF00001591149 fq.gz 6.5 GB
EGAF00001591150 fq.gz 1.4 GB
EGAF00001591151 fq.gz 1.6 GB
EGAF00001591152 fq.gz 7.2 GB
EGAF00001591153 fq.gz 8.0 GB
EGAF00001591154 fq.gz 1.1 GB
EGAF00001591155 fq.gz 1.3 GB
EGAF00001591156 fq.gz 5.5 GB
EGAF00001591157 fq.gz 6.1 GB
EGAF00001591158 fq.gz 1.2 GB
EGAF00001591159 fq.gz 1.4 GB
EGAF00001591160 fq.gz 5.6 GB
EGAF00001591161 fq.gz 6.3 GB
EGAF00001591162 fq.gz 1.4 GB
EGAF00001591163 fq.gz 1.7 GB
EGAF00001591164 fq.gz 6.7 GB
EGAF00001591165 fq.gz 7.6 GB
EGAF00001591166 fq.gz 1.3 GB
EGAF00001591167 fq.gz 1.7 GB
EGAF00001591168 fq.gz 1.2 GB
EGAF00001591169 fq.gz 1.6 GB
EGAF00001591170 fq.gz 956.7 MB
EGAF00001591171 fq.gz 1.2 GB
EGAF00001591172 fq.gz 1.0 GB
EGAF00001591173 fq.gz 1.3 GB
EGAF00001591174 fq.gz 623.5 MB
EGAF00001591175 fq.gz 702.3 MB
EGAF00001591176 fq.gz 5.5 GB
EGAF00001591177 fq.gz 6.2 GB
EGAF00001591178 fq.gz 534.8 MB
EGAF00001591179 fq.gz 622.8 MB
EGAF00001591180 fq.gz 3.7 GB
EGAF00001591181 fq.gz 4.2 GB
EGAF00001591182 fq.gz 5.9 GB
EGAF00001591183 fq.gz 6.6 GB
EGAF00001591184 fq.gz 9.7 GB
EGAF00001591185 fq.gz 10.8 GB
EGAF00001591186 fq.gz 720.0 MB
EGAF00001591187 fq.gz 782.8 MB
EGAF00001591188 fq.gz 866.0 MB
EGAF00001591189 fq.gz 940.1 MB
EGAF00001591190 fq.gz 911.0 MB
EGAF00001591191 fq.gz 991.7 MB
EGAF00001591192 fq.gz 767.9 MB
EGAF00001591193 fq.gz 868.8 MB
EGAF00001591194 fq.gz 663.6 MB
EGAF00001591195 fq.gz 733.4 MB
EGAF00001591196 fq.gz 745.4 MB
EGAF00001591197 fq.gz 840.8 MB
EGAF00001591198 fq.gz 709.4 MB
EGAF00001591199 fq.gz 785.8 MB
EGAF00001591200 fq.gz 842.2 MB
EGAF00001591201 fq.gz 922.5 MB
EGAF00001591202 fq.gz 825.0 MB
EGAF00001591203 fq.gz 904.4 MB
EGAF00001591204 fq.gz 883.6 MB
EGAF00001591205 fq.gz 975.6 MB
EGAF00001591206 fq.gz 1.6 GB
EGAF00001591207 fq.gz 1.9 GB
EGAF00001591208 fq.gz 1.9 GB
EGAF00001591209 fq.gz 2.2 GB
EGAF00001591210 fq.gz 1.9 GB
EGAF00001591211 fq.gz 2.2 GB
EGAF00001591212 fq.gz 1.8 GB
EGAF00001591213 fq.gz 2.1 GB
EGAF00001591214 fq.gz 1.8 GB
EGAF00001591215 fq.gz 2.1 GB
EGAF00001591216 fq.gz 1.8 GB
EGAF00001591217 fq.gz 2.1 GB
EGAF00001591218 fq.gz 1.5 GB
EGAF00001591219 fq.gz 1.8 GB
EGAF00001591220 fq.gz 2.0 GB
EGAF00001591221 fq.gz 2.3 GB
EGAF00001591222 fq.gz 1.9 GB
EGAF00001591223 fq.gz 2.3 GB
EGAF00001591224 fq.gz 1.8 GB
EGAF00001591225 fq.gz 2.1 GB
EGAF00001591226 fq.gz 1.9 GB
EGAF00001591227 fq.gz 2.2 GB
EGAF00001591228 fq.gz 1.9 GB
EGAF00001591229 fq.gz 2.2 GB
EGAF00001591230 fq.gz 1.4 GB
EGAF00001591231 fq.gz 1.7 GB
EGAF00001591232 fq.gz 1.9 GB
EGAF00001591233 fq.gz 2.2 GB
EGAF00001591234 fq.gz 1.9 GB
EGAF00001591235 fq.gz 2.2 GB
EGAF00001591236 fq.gz 1.7 GB
EGAF00001591237 fq.gz 2.0 GB
EGAF00001591238 fq.gz 1.8 GB
EGAF00001591239 fq.gz 2.1 GB
EGAF00001591240 fq.gz 1.8 GB
EGAF00001591241 fq.gz 2.1 GB
EGAF00001591242 fq.gz 1.8 GB
EGAF00001591243 fq.gz 2.1 GB
EGAF00001591244 fq.gz 2.1 GB
EGAF00001591245 fq.gz 2.5 GB
EGAF00001591246 fq.gz 2.1 GB
EGAF00001591247 fq.gz 2.5 GB
EGAF00001591248 fq.gz 2.0 GB
EGAF00001591249 fq.gz 2.3 GB
EGAF00001591250 fq.gz 2.1 GB
EGAF00001591251 fq.gz 2.4 GB
EGAF00001591252 fq.gz 2.0 GB
EGAF00001591253 fq.gz 2.3 GB
EGAF00001591254 fq.gz 1.4 GB
EGAF00001591255 fq.gz 1.7 GB
EGAF00001591256 fq.gz 2.3 GB
EGAF00001591257 fq.gz 2.6 GB
EGAF00001591258 fq.gz 2.3 GB
EGAF00001591259 fq.gz 2.6 GB
EGAF00001591260 fq.gz 2.1 GB
EGAF00001591261 fq.gz 2.4 GB
EGAF00001591262 fq.gz 2.2 GB
EGAF00001591263 fq.gz 2.5 GB
EGAF00001591264 fq.gz 2.2 GB
EGAF00001591265 fq.gz 2.4 GB
EGAF00001591266 fq.gz 915.9 MB
EGAF00001591267 fq.gz 1.0 GB
EGAF00001591268 fq.gz 3.8 GB
EGAF00001591269 fq.gz 4.3 GB
EGAF00001591270 fq.gz 3.8 GB
EGAF00001591271 fq.gz 4.3 GB
EGAF00001591272 fq.gz 3.9 GB
EGAF00001591273 fq.gz 4.4 GB
EGAF00001591274 fq.gz 1.5 GB
EGAF00001591275 fq.gz 2.0 GB
EGAF00001591276 fq.gz 1.6 GB
EGAF00001591277 fq.gz 2.1 GB
EGAF00001591278 fq.gz 1.3 GB
EGAF00001591279 fq.gz 1.7 GB
EGAF00001591280 fq.gz 1.0 GB
EGAF00001591281 fq.gz 1.3 GB
EGAF00001591282 fq.gz 706.3 MB
EGAF00001591283 fq.gz 783.8 MB
EGAF00001591284 fq.gz 2.5 GB
EGAF00001591285 fq.gz 2.9 GB
EGAF00001591286 fq.gz 2.6 GB
EGAF00001591287 fq.gz 2.9 GB
EGAF00001591288 fq.gz 2.5 GB
EGAF00001591289 fq.gz 2.8 GB
EGAF00001591290 fq.gz 710.8 MB
EGAF00001591291 fq.gz 810.6 MB
EGAF00001591292 fq.gz 4.0 GB
EGAF00001591293 fq.gz 4.5 GB
EGAF00001591294 fq.gz 1.2 GB
EGAF00001591295 fq.gz 1.3 GB
EGAF00001591296 fq.gz 13.2 GB
EGAF00001591297 fq.gz 15.5 GB
EGAF00001591298 fq.gz 3.4 GB
EGAF00001591299 fq.gz 3.8 GB
EGAF00001591300 fq.gz 4.1 GB
EGAF00001591301 fq.gz 4.5 GB
EGAF00001591302 fq.gz 4.0 GB
EGAF00001591303 fq.gz 4.5 GB
EGAF00001591304 fq.gz 1.3 GB
EGAF00001591305 fq.gz 1.5 GB
EGAF00001591306 fq.gz 5.3 GB
EGAF00001591307 fq.gz 5.9 GB
EGAF00001591308 fq.gz 1.2 GB
EGAF00001591309 fq.gz 1.5 GB
EGAF00001591310 fq.gz 6.0 GB
EGAF00001591311 fq.gz 6.6 GB
EGAF00001591312 fq.gz 1.3 GB
EGAF00001591313 fq.gz 1.3 GB
EGAF00001591314 fq.gz 5.4 GB
EGAF00001591315 fq.gz 5.8 GB
EGAF00001591316 fq.gz 1.2 GB
EGAF00001591317 fq.gz 1.5 GB
EGAF00001591318 fq.gz 6.3 GB
EGAF00001591319 fq.gz 7.0 GB
EGAF00001591320 fq.gz 1.2 GB
EGAF00001591321 fq.gz 1.4 GB
EGAF00001591322 fq.gz 5.1 GB
EGAF00001591323 fq.gz 5.6 GB
EGAF00001591324 fq.gz 1.3 GB
EGAF00001591325 fq.gz 1.5 GB
EGAF00001591326 fq.gz 5.9 GB
EGAF00001591327 fq.gz 6.8 GB
EGAF00001591328 fq.gz 1.3 GB
EGAF00001591329 fq.gz 1.7 GB
EGAF00001591330 fq.gz 1.4 GB
EGAF00001591331 fq.gz 1.8 GB
EGAF00001591332 fq.gz 1.5 GB
EGAF00001591333 fq.gz 2.0 GB
EGAF00001591334 fq.gz 832.3 MB
EGAF00001591335 fq.gz 1.1 GB
EGAF00001591336 fq.gz 831.9 MB
EGAF00001591337 fq.gz 975.7 MB
EGAF00001591338 fq.gz 5.7 GB
EGAF00001591339 fq.gz 6.4 GB
EGAF00001591340 fq.gz 640.0 MB
EGAF00001591341 fq.gz 724.3 MB
EGAF00001591342 fq.gz 4.5 GB
EGAF00001591343 fq.gz 5.2 GB
EGAF00001591344 fq.gz 1.2 GB
EGAF00001591345 fq.gz 1.5 GB
EGAF00001591346 fq.gz 5.5 GB
EGAF00001591347 fq.gz 6.2 GB
EGAF00001591348 fq.gz 4.6 GB
EGAF00001591349 fq.gz 5.3 GB
EGAF00001591350 fq.gz 10.6 GB
EGAF00001591351 fq.gz 12.0 GB
EGAF00001591352 fq.gz 918.3 MB
EGAF00001591353 fq.gz 1.1 GB
EGAF00001591354 fq.gz 2.1 GB
EGAF00001591355 fq.gz 2.4 GB
EGAF00001591356 fq.gz 2.0 GB
EGAF00001591357 fq.gz 2.3 GB
EGAF00001591358 fq.gz 2.1 GB
EGAF00001591359 fq.gz 2.4 GB
EGAF00001591360 fq.gz 2.1 GB
EGAF00001591361 fq.gz 2.5 GB
EGAF00001591362 fq.gz 2.2 GB
EGAF00001591363 fq.gz 2.6 GB
EGAF00001591364 fq.gz 1.0 GB
EGAF00001591365 fq.gz 1.2 GB
EGAF00001591366 fq.gz 2.2 GB
EGAF00001591367 fq.gz 2.6 GB
EGAF00001591368 fq.gz 2.3 GB
EGAF00001591369 fq.gz 2.7 GB
EGAF00001591370 fq.gz 2.1 GB
EGAF00001591371 fq.gz 2.5 GB
EGAF00001591372 fq.gz 2.2 GB
EGAF00001591373 fq.gz 2.6 GB
EGAF00001591374 fq.gz 2.2 GB
EGAF00001591375 fq.gz 2.5 GB
EGAF00001591376 fq.gz 1.3 GB
EGAF00001591377 fq.gz 1.5 GB
EGAF00001591378 fq.gz 1.6 GB
EGAF00001591379 fq.gz 1.9 GB
EGAF00001591380 fq.gz 1.6 GB
EGAF00001591381 fq.gz 1.8 GB
EGAF00001591382 fq.gz 1.5 GB
EGAF00001591383 fq.gz 1.8 GB
EGAF00001591384 fq.gz 1.6 GB
EGAF00001591385 fq.gz 1.8 GB
EGAF00001591386 fq.gz 1.6 GB
EGAF00001591387 fq.gz 1.8 GB
EGAF00001591388 fq.gz 1.6 GB
EGAF00001591389 fq.gz 2.0 GB
EGAF00001591390 fq.gz 2.4 GB
EGAF00001591391 fq.gz 2.7 GB
EGAF00001591392 fq.gz 2.4 GB
EGAF00001591393 fq.gz 2.8 GB
EGAF00001591394 fq.gz 2.3 GB
EGAF00001591395 fq.gz 2.6 GB
EGAF00001591396 fq.gz 2.3 GB
EGAF00001591397 fq.gz 2.6 GB
EGAF00001591398 fq.gz 2.3 GB
EGAF00001591399 fq.gz 2.7 GB
EGAF00001591400 fq.gz 1.5 GB
EGAF00001591401 fq.gz 1.8 GB
EGAF00001591402 fq.gz 2.2 GB
EGAF00001591403 fq.gz 2.5 GB
EGAF00001591404 fq.gz 2.1 GB
EGAF00001591405 fq.gz 2.5 GB
EGAF00001591406 fq.gz 2.1 GB
EGAF00001591407 fq.gz 2.4 GB
EGAF00001591408 fq.gz 2.1 GB
EGAF00001591409 fq.gz 2.4 GB
EGAF00001591410 fq.gz 2.1 GB
EGAF00001591411 fq.gz 2.4 GB
EGAF00001591412 fq.gz 748.0 MB
EGAF00001591413 fq.gz 843.2 MB
EGAF00001591414 fq.gz 5.0 GB
EGAF00001591415 fq.gz 5.7 GB
EGAF00001591416 fq.gz 4.9 GB
EGAF00001591417 fq.gz 5.6 GB
EGAF00001591418 fq.gz 5.1 GB
EGAF00001591419 fq.gz 5.8 GB
EGAF00001591420 fq.gz 1.8 GB
EGAF00001591421 fq.gz 2.3 GB
EGAF00001591422 fq.gz 1.3 GB
EGAF00001591423 fq.gz 1.6 GB
EGAF00001591424 fq.gz 1.2 GB
EGAF00001591425 fq.gz 1.5 GB
EGAF00001591426 fq.gz 1.0 GB
EGAF00001591427 fq.gz 1.3 GB
EGAF00001591428 fq.gz 635.4 MB
EGAF00001591429 fq.gz 713.8 MB
EGAF00001591430 fq.gz 3.0 GB
EGAF00001591431 fq.gz 3.4 GB
EGAF00001591432 fq.gz 3.0 GB
EGAF00001591433 fq.gz 3.4 GB
EGAF00001591434 fq.gz 3.1 GB
EGAF00001591435 fq.gz 3.5 GB
EGAF00001591436 fq.gz 607.0 MB
EGAF00001591437 fq.gz 694.4 MB
EGAF00001591438 fq.gz 3.9 GB
EGAF00001591439 fq.gz 4.4 GB
EGAF00001591440 fq.gz 4.0 GB
EGAF00001591441 fq.gz 4.4 GB
EGAF00001591442 fq.gz 4.3 GB
EGAF00001591443 fq.gz 4.8 GB
EGAF00001591444 fq.gz 4.2 GB
EGAF00001591445 fq.gz 4.7 GB
EGAF00001591446 fq.gz 1.3 GB
EGAF00001591447 fq.gz 1.5 GB
EGAF00001591448 fq.gz 1.9 GB
EGAF00001591449 fq.gz 2.2 GB
EGAF00001591450 fq.gz 1.9 GB
EGAF00001591451 fq.gz 2.2 GB
EGAF00001591452 fq.gz 1.8 GB
EGAF00001591453 fq.gz 2.1 GB
EGAF00001591454 fq.gz 1.8 GB
EGAF00001591455 fq.gz 2.1 GB
EGAF00001591456 fq.gz 1.9 GB
EGAF00001591457 fq.gz 2.1 GB
398 Files (1.0 TB)