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blog dac dataset documentation study

Repository

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Federated ega

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Study type

affected sib pairs aggregate genomic data atac sequencing cancer genomics case set case-cohort case-control clinical cohort clinical diagnostic testing clinical genetic testing clinical trial cohort collection control set controlled trial copy number variation (cnv) cross-sectional epigenetics eqtl exome sequencing family forensic or paleo-genomics full transcriptome sequencing gene regulation study genotype genotype/expression gwas individual-level genomic data interventional longitudinal longitudinal cohort marker discovery meta-analysis metagenomics metastasis methods development nested case-control nuclear families observational other parent-offspring parent-offspring trios partial factorial randomized pooled clone sequencing population population genomics prospective randomized randomized controlled clinical trial reference set resequencing rna sequencing rnaseq sequencing single cell analysis single cell rna sequencing synthetic genomics targeted capture sequence transcriptome analysis transcriptome sequencing transcriptome sequencing (tumor only) tumor tumor vs. matched-normal whole genome sequencing xenograft

Dataset types

amplicon sequencing chip-seq chromatin accessibility profiling by high-throughput sequencing exome sequencing genomic variant calling genotyping by array histone modification profiling by high-throughput sequencing methylation binding domain sequencing methylation profiling by high-throughput sequencing phenotype information study summary information transcriptome profiling by array transcriptome profiling by high-throughput sequencing whole genome sequencing

Dataset technologies

454 gs flx titanium ab 3730xl genetic analyzer ab 5500 genetic analyzer ab 5500xl genetic analyzer ab 5500xl-w genetic analysis system ab solid 4 system ab solid system abi_solid affymetrics_snp_6.0- affymetrix 6.0 array affymetrix axiom 850k pmda array affymetrix human genome u133 plus 2.0 array affymetrix snp 6.0 affymetrix snp6.0 affymetrix_snp6- agilent aperio aperio image - h&e stained tissue_section beadarray bgiseq-500 complete genomics cytoscan dnbseq-g400 dnbseq-t7 element aviti epic beadchip (illumina, san diego, ca) exiqon 7th generation mircury lna microrna microarray system genechip human mapping 250k nspi genome-wide human snp array 6.0 - thermo fisher scientific gridion gsa-md v3 h and e image hiseq x five hiseq x ten illumina illumina 15k illumina 2.5m illumina 450k illumina 850k illumina cytosnp 12 bead array illumina epic 450k beadchip assay illumina genome analyzer illumina genome analyzer ii illumina genome analyzer iix illumina hiscan illumina hiseq 1000 illumina hiseq 1500 illumina hiseq 2000 illumina hiseq 2000;illumina illumina hiseq 2500 illumina hiseq 3000 illumina hiseq 4000 illumina hiseq x illumina ht 12 illumina humanexome array illumina humanmethylationepic v1 illumina humanwg-6 illumina humanwg-6 version 3 or illumina humanht-12 expression bead chip, combined on identical nucleotide universal identifiers. illumina infinium human global screening array gsamd-24v2-0_20024620_a1 beadchip illumina infinium humanmethylation450k illumina infinium methylationepic 850k illumina infinium methylationepic 850k beadchip illumina infinium methylationepic beadchip (850 k) illumina iseq 100 illumina methylationepic array illumina methylationepic beadchip arrays illumina miseq illumina novaseq 6000 illumina novaseq x illumina novaseq x plus illumina oncoarray illuminahuman awg-6 and ht12 illuminahuman ht12 infinium cytosnp-850k v1.4 bead chips array, illumina infinium methylationepic beadchip infinium methylationepic beadchip array infinium methylationepic v2.0 beadchip ion genestudio s5 ion genestudio s5 prime ion torrent pgm ion torrent proton ion torrent s5 ion torrent s5 xl life tech - solid mgiseq-2000rs minion miseq nanostring nanostring cancer immune nanostring cancer pathway nanostring ncounterâ® pancancer io 360â„¢ nanostring panel nanostring technology nextseq 2000 nextseq 500 nextseq 550 novaseq 6000 oligonucleotide beads of humanht-12 v4 r2 expression beadchips (illumina) oncoscan pacbio rs pacbio rs ii promethion qexactive plus revio sequel sequel ii snp array thermo orbitrap tribrid mass spectrometer ug 100 unspecified

Phenotypes

CL:0000038 CL:0000050 CL:0000236 CL:0000499 CL:0000523 CL:0000557 CL:0000576 CL:0000786 CL:0000788 CL:0000844 CL:0000893 CL:0000970 CL:0000972 CL:0001024 CL:0001059 CL:0002324 CL:0002326 CL:0002420 CL:0002489 CL:0002555 CL:0010004 CL:2000006 EFO:0000094 EFO:0000174 EFO:0000182 EFO:0000183 EFO:0000196 EFO:0000209 EFO:0000220 EFO:0000222 EFO:0000228 EFO:0000239 EFO:0000248 EFO:0000292 EFO:0000305 EFO:0000308 EFO:0000309 EFO:0000310 EFO:0000311 EFO:0000312 EFO:0000313 EFO:0000314 EFO:0000315 EFO:0000316 EFO:0000317 EFO:0000318 EFO:0000319 EFO:0000320 EFO:0000321 EFO:0000322 EFO:0000323 EFO:0000324 EFO:0000325 EFO:0000326 EFO:0000327 EFO:0000328 EFO:0000329 EFO:0000330 EFO:0000331 EFO:0000332 EFO:0000333 EFO:0000334 EFO:0000335 EFO:0000336 EFO:0000337 EFO:0000338 EFO:0000339 EFO:0000340 EFO:0000341 EFO:0000342 EFO:0000343 EFO:0000344 EFO:0000345 EFO:0000346 EFO:0000347 EFO:0000348 EFO:0000349 EFO:0000350 EFO:0000351 EFO:0000352 EFO:0000353 EFO:0000354 EFO:0000355 EFO:0000356 EFO:0000357 EFO:0000358 EFO:0000359 EFO:0000360 EFO:0000361 EFO:0000362 EFO:0000363 EFO:0000364 EFO:0000365 EFO:0000366 EFO:0000367 EFO:0000368 EFO:0000369 EFO:0000370 EFO:0000371 EFO:0000372 EFO:0000373 EFO:0000374 EFO:0000402 EFO:0000403 EFO:0000437 EFO:0000502 EFO:0000503 EFO:0000519 EFO:0000571 EFO:0000616 EFO:0000621 EFO:0000637 EFO:0000641 EFO:0000681 EFO:0000691 EFO:0000693 EFO:0000702 EFO:0000708 EFO:0000730 EFO:0000756 EFO:0000760 EFO:0000761 EFO:0000762 EFO:0000848 EFO:0000869 EFO:0000887 EFO:0000934 EFO:0000973 EFO:0000980 EFO:0001071 EFO:0001075 EFO:0001376 EFO:0001378 EFO:0001461 EFO:0001639 EFO:0001663 EFO:0002394 EFO:0002422 EFO:0002424 EFO:0002618 EFO:0002787 EFO:0002793 EFO:0002884 EFO:0002885 EFO:0002886 EFO:0002887 EFO:0002888 EFO:0002889 EFO:0002890 EFO:0002891 EFO:0002892 EFO:0002916 EFO:0002918 EFO:0002939 EFO:0003032 EFO:0003060 EFO:0003094 EFO:0003137 EFO:0003825 EFO:0003897 EFO:0003942 EFO:0004422 EFO:0004708 EFO:0005235 EFO:0005537 EFO:0005543 EFO:0005699 EFO:0005701 EFO:0005842 EFO:0005844 EFO:0006460 EFO:0006545 EFO:0006852 EFO:0007143 EFO:0007336 EFO:0007365 EFO:0007483 EFO:0008498 EFO:0008524 EFO:0009052 EFO:0009119 EFO:0009120 EFO:0009121 EFO:0009375 EFO:0009443 EFO:0009654 EFO:0009744 EFO:0009907 EFO:1000028 EFO:1000042 EFO:1000043 EFO:1000069 EFO:1000075 EFO:1000101 EFO:1000128 EFO:1000138 EFO:1000139 EFO:1000144 EFO:1000149 EFO:1000231 EFO:1000238 EFO:1000288 EFO:1000292 EFO:1000307 EFO:1000318 EFO:1000348 EFO:1000349 EFO:1000360 EFO:1000414 EFO:1000416 EFO:1000429 EFO:1000453 EFO:1000490 EFO:1000646 EFO:1000796 EFO:1001038 EFO:1001100 EFO:1001230 EFO:1001480 EFO:1001514 EFO:1001515 EFO:1001830 EFO:1001938 EFO:1001946 EFO:1001950 EFO:1001951 EFO:1001956 EFO:1001958 EFO:1001963 EFO:1002008 HP:0002716 HP:0100880 MONDO:0000430 MONDO:0001056 MONDO:0002397 MONDO:0002601 MONDO:0002627 MONDO:0002630 MONDO:0002631 MONDO:0002678 MONDO:0002924 MONDO:0003002 MONDO:0003142 MONDO:0003537 MONDO:0003572 MONDO:0003751 MONDO:0004952 MONDO:0005062 MONDO:0005575 MONDO:0006058 MONDO:0007254 MONDO:0007255 MONDO:0007256 MONDO:0007257 MONDO:0007258 MONDO:0007259 MONDO:0007260 MONDO:0007261 MONDO:0007262 MONDO:0007263 MONDO:0007264 MONDO:0007265 MONDO:0007266 MONDO:0007267 MONDO:0007268 MONDO:0007269 MONDO:0007270 MONDO:0007271 MONDO:0007272 MONDO:0007273 MONDO:0007274 MONDO:0007275 MONDO:0007276 MONDO:0007277 MONDO:0007278 MONDO:0007279 MONDO:0007280 MONDO:0007281 MONDO:0007282 MONDO:0007283 MONDO:0007284 MONDO:0007285 MONDO:0007286 MONDO:0007287 MONDO:0007288 MONDO:0007289 MONDO:0007290 MONDO:0007291 MONDO:0007292 MONDO:0007293 MONDO:0007294 MONDO:0007295 MONDO:0007296 MONDO:0007297 MONDO:0007298 MONDO:0007299 MONDO:0007300 MONDO:0007301 MONDO:0007302 MONDO:0007303 MONDO:0007304 MONDO:0007305 MONDO:0007306 MONDO:0007307 MONDO:0007308 MONDO:0007309 MONDO:0007310 MONDO:0007311 MONDO:0007312 MONDO:0007313 MONDO:0007314 MONDO:0007315 MONDO:0007316 MONDO:0007317 MONDO:0007318 MONDO:0007319 MONDO:0007320 MONDO:0007321 MONDO:0007322 MONDO:0007323 MONDO:0007324 MONDO:0007325 MONDO:0007326 MONDO:0007327 MONDO:0007328 MONDO:0007329 MONDO:0007330 MONDO:0007331 MONDO:0007332 MONDO:0007333 MONDO:0007334 MONDO:0007335 MONDO:0007336 MONDO:0007337 MONDO:0007338 MONDO:0007339 MONDO:0007340 MONDO:0007341 MONDO:0007342 MONDO:0007343 MONDO:0007344 MONDO:0007345 MONDO:0007346 MONDO:0007347 MONDO:0007348 MONDO:0007349 MONDO:0007350 MONDO:0007351 MONDO:0007352 MONDO:0007353 MONDO:0007354 MONDO:0007355 MONDO:0007356 MONDO:0007357 MONDO:0007358 MONDO:0007359 MONDO:0007360 MONDO:0007361 MONDO:0007362 MONDO:0007363 MONDO:0007364 MONDO:0007365 MONDO:0007366 MONDO:0007367 MONDO:0007368 MONDO:0007369 MONDO:0007370 MONDO:0007371 MONDO:0007372 MONDO:0008170 MONDO:0008903 MONDO:0013296 MONDO:0015760 MONDO:0016690 MONDO:0016691 MONDO:0016692 MONDO:0016700 MONDO:0016735 MONDO:0017349 MONDO:0017387 MONDO:0018177 MONDO:0018874 MONDO:0018905 MONDO:0018908 MONDO:0019457 MONDO:0019470 MONDO:0019474 MONDO:0020511 MONDO:0020580 MONDO:0020663 MONDO:0044335 NCIT:C200033 NCIT:C25588 NCIT:C4737 NCIT:C4912 NCIT:C7899 Orphanet:654 PATO:0000461 UBERON:0000178 UBERON:0000310 UBERON:0000397 UBERON:0000992 UBERON:0001134 UBERON:0001156 UBERON:0001159 UBERON:0001968 UBERON:0002046 UBERON:0002328 UBERON:0002371 UBERON:0002372 UBERON:0003889 UBERON:0005351 UBERON:0010393 UBERON:0012168 UBERON:0013756

Duo

0000001 0000004 0000005 0000006 0000007 0000010 0000011 0000012 0000014 0000015 0000016 0000018 0000019 0000020 0000021 0000022 0000024 0000025 0000026 0000027 0000028 0000029 0000042 0000043 0000044 0000045 0000046

Clear

10x Single Cell Gene Expression Library TENX069

10x Single Cell Gene Expression library TENX069 for Triple negative breast cancer patient-derived xenograft SA609X4XB03083
Dataset EGAD00001011211
10x Single Cell Gene Expression Library SCRNA10X_SA_CHIP0150_001

10x Single Cell Gene Expression library SCRNA10X_SA_CHIP0150_001 for Triple negative breast cancer sample SA609X5XB03230
Dataset EGAD00001011212
10x Single Cell Gene Expression Library SCRNA10X_SA_CHIP0150_002

10x Single Cell Gene Expression library SCRNA10X_SA_CHIP0150_002 for Triple negative breast cancer sample SA609X5XB03231
Dataset EGAD00001011213
10x Single Cell Gene Expression Library SCRNA10X_SA_CHIP0146_002

10x Single Cell Gene Expression library SCRNA10X_SA_CHIP0146_002 for Triple negative breast cancer patient-derived xenograft SA609X5XB03223
Dataset EGAD00001011214
10x Single Cell Gene Expression Library SCRNA10X_SA_CHIP0152_001

10x Single Cell Gene Expression library SCRNA10X_SA_CHIP0152_001 for Triple negative breast cancer patient-derived xenograft SA609X6XB03401
Dataset EGAD00001011215
10x Single Cell Gene Expression Library SCRNA10X_SA_CHIP0152_002

10x Single Cell Gene Expression library SCRNA10X_SA_CHIP0152_002 for Triple negative breast cancer sample SA609X6XB03404
Dataset EGAD00001011216
10x Single Cell Gene Expression Library SCRNA10X_SA_CHIP0172_001

10x Single Cell Gene Expression library SCRNA10X_SA_CHIP0172_001 for Triple negative breast cancer sample SA609X6XB03447
Dataset EGAD00001011217
10x Single Cell Gene Expression Library SCRNA10X_SA_CHIP0163_002

10x Single Cell Gene Expression library SCRNA10X_SA_CHIP0163_002 for Triple negative breast cancer sample SA609X7XB03510
Dataset EGAD00001011218
10x Single Cell Gene Expression Library SCRNA10X_SA_CHIP0163_001

10x Single Cell Gene Expression library SCRNA10X_SA_CHIP0163_001 for Triple negative breast cancer patient-derived xenograft SA609X7XB03505
Dataset EGAD00001011219
10x Single Cell Gene Expression Library SCRNA10X_SA_CHIP0172_002

10x Single Cell Gene Expression library SCRNA10X_SA_CHIP0172_002 for Triple negative breast cancer sample SA609X7XB03554
Dataset EGAD00001011220

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