GEO help: Mouse over screen elements for information.
Status
Public on Jun 01, 2011
Title
Custom human colon-CDMR DNA methylation array (384 CpG)
Technology type
oligonucleotide beads
Distribution
custom-commercial
Organism
Homo sapiens Manufacturer
Illumina, Inc.
Manufacture protocol
See the manufacturer's website (www.illumina.com).
Description
Custom nucleotide-specific bead array on the Illumina GoldenGate platform to analyze 151 colon cancer-specific differentially DNA-methylated regions (cDMRs) from Irizarry et al. (PMID 19151715).
Submission date
May 24, 2011
Last update date
Jun 01, 2011
Contact name
Hector Corrada Bravo
E-mail(s)
hcorrada@umiacs.umd.edu Phone
3014052481
Fax
3013141341
URL
http://cbcb.umd.edu/~hcorrada Organization name
University of Maryland
Department
Center for Bioinformatics and Computational Biology
Street address
3114F Biomolecular Sciences Building
City
College Park
State/province
MD - Maryland
ZIP/Postal code
20742
Country
USA
Samples (290)
GSM730227 , GSM730228 , GSM730229 , GSM730230 , GSM730231 , GSM730232
GSM730233 ,
GSM730234 ,
GSM730235 ,
GSM730236 ,
GSM730237 ,
GSM730238 ,
GSM730239 ,
GSM730240 ,
GSM730241 ,
GSM730242 ,
GSM730243 ,
GSM730244 ,
GSM730245 ,
GSM730246 ,
GSM730247 ,
GSM730248 ,
GSM730249 ,
GSM730250 ,
GSM730251 ,
GSM730252 ,
GSM730253 ,
GSM730254 ,
GSM730255 ,
GSM730256 ,
GSM730257 ,
GSM730258 ,
GSM730259 ,
GSM730260 ,
GSM730261 ,
GSM730262 ,
GSM730263 ,
GSM730264 ,
GSM730265 ,
GSM730266 ,
GSM730267 ,
GSM730268 ,
GSM730269 ,
GSM730270 ,
GSM730271 ,
GSM730272 ,
GSM730273 ,
GSM730274 ,
GSM730275 ,
GSM730276 ,
GSM730277 ,
GSM730278 ,
GSM730279 ,
GSM730280 ,
GSM730281 ,
GSM730282 ,
GSM730283 ,
GSM730284 ,
GSM730285 ,
GSM730286 ,
GSM730287 ,
GSM730288 ,
GSM730289 ,
GSM730290 ,
GSM730291 ,
GSM730292 ,
GSM730293 ,
GSM730294 ,
GSM730295 ,
GSM730296 ,
GSM730297 ,
GSM730298 ,
GSM730299 ,
GSM730300 ,
GSM730301 ,
GSM730302 ,
GSM730303 ,
GSM730304 ,
GSM730305 ,
GSM730306 ,
GSM730307 ,
GSM730308 ,
GSM730309 ,
GSM730310 ,
GSM730311 ,
GSM730312 ,
GSM730313 ,
GSM730314 ,
GSM730315 ,
GSM730316 ,
GSM730317 ,
GSM730318 ,
GSM730319 ,
GSM730320 ,
GSM730321 ,
GSM730322 ,
GSM730323 ,
GSM730324 ,
GSM730325 ,
GSM730326 ,
GSM730327 ,
GSM730328 ,
GSM730329 ,
GSM730330 ,
GSM730331 ,
GSM730332 ,
GSM730333 ,
GSM730334 ,
GSM730335 ,
GSM730336 ,
GSM730337 ,
GSM730338 ,
GSM730339 ,
GSM730340 ,
GSM730341 ,
GSM730342 ,
GSM730343 ,
GSM730344 ,
GSM730345 ,
GSM730346 ,
GSM730347 ,
GSM730348 ,
GSM730349 ,
GSM730350 ,
GSM730351 ,
GSM730352 ,
GSM730353 ,
GSM730354 ,
GSM730355 ,
GSM730356 ,
GSM730357 ,
GSM730358 ,
GSM730359 ,
GSM730360 ,
GSM730361 ,
GSM730362 ,
GSM730363 ,
GSM730364 ,
GSM730365 ,
GSM730366 ,
GSM730367 ,
GSM730368 ,
GSM730369 ,
GSM730370 ,
GSM730371 ,
GSM730372 ,
GSM730373 ,
GSM730374 ,
GSM730375 ,
GSM730376 ,
GSM730377 ,
GSM730378 ,
GSM730379 ,
GSM730380 ,
GSM730381 ,
GSM730382 ,
GSM730383 ,
GSM730384 ,
GSM730385 ,
GSM730386 ,
GSM730387 ,
GSM730388 ,
GSM730389 ,
GSM730390 ,
GSM730391 ,
GSM730392 ,
GSM730393 ,
GSM730394 ,
GSM730395 ,
GSM730396 ,
GSM730397 ,
GSM730398 ,
GSM730399 ,
GSM730400 ,
GSM730401 ,
GSM730402 ,
GSM730403 ,
GSM730404 ,
GSM730405 ,
GSM730406 ,
GSM730407 ,
GSM730408 ,
GSM730409 ,
GSM730410 ,
GSM730411 ,
GSM730412 ,
GSM730413 ,
GSM730414 ,
GSM730415 ,
GSM730416 ,
GSM730417 ,
GSM730418 ,
GSM730419 ,
GSM730420 ,
GSM730421 ,
GSM730422 ,
GSM730423 ,
GSM730424 ,
GSM730425 ,
GSM730426 ,
GSM730427 ,
GSM730428 ,
GSM730429 ,
GSM730430 ,
GSM730431 ,
GSM730432 ,
GSM730433 ,
GSM730434 ,
GSM730435 ,
GSM730436 ,
GSM730437 ,
GSM730438 ,
GSM730439 ,
GSM730440 ,
GSM730441 ,
GSM730442 ,
GSM730443 ,
GSM730444 ,
GSM730445 ,
GSM730446 ,
GSM730447 ,
GSM730448 ,
GSM730449 ,
GSM730450 ,
GSM730451 ,
GSM730452 ,
GSM730453 ,
GSM730454 ,
GSM730455 ,
GSM730456 ,
GSM730457 ,
GSM730458 ,
GSM730459 ,
GSM730460 ,
GSM730461 ,
GSM730462 ,
GSM730463 ,
GSM730464 ,
GSM730465 ,
GSM730466 ,
GSM730467 ,
GSM730468 ,
GSM730469 ,
GSM730470 ,
GSM730471 ,
GSM730472 ,
GSM730473 ,
GSM730474 ,
GSM730475 ,
GSM730476 ,
GSM730477 ,
GSM730478 ,
GSM730479 ,
GSM730480 ,
GSM730481 ,
GSM730482 ,
GSM730483 ,
GSM730484 ,
GSM730485 ,
GSM730486 ,
GSM730487 ,
GSM730488 ,
GSM730489 ,
GSM730490 ,
GSM730491 ,
GSM730492 ,
GSM730493 ,
GSM730494 ,
GSM730495 ,
GSM730496 ,
GSM730497 ,
GSM730498 ,
GSM730499 ,
GSM730500 ,
GSM730501 ,
GSM730502 ,
GSM730503 ,
GSM730504 ,
GSM730505 ,
GSM730506 ,
GSM730507 ,
GSM730508 ,
GSM730509 ,
GSM730510 ,
GSM730511 ,
GSM730512 ,
GSM730513 ,
GSM730514 ,
GSM730515 ,
GSM730516 Series (1)
GSE29505 Custom Illumina array DNA methylation analysis of 384 CpGs across five cancer types
Data table header descriptions ID CHROMOSOME Chromosome
RANGE_GB RefSeq accession.version of chromosome (NCBI Build 36)
SEQUENCE Probe sequence
REFSEQ Genome build version (NCBI)
CPG_COORDINATE CpG genomic coordinate
RANGE_START Start coordinate of oligonucletide relative to RANGE_GB
RANGE_END End coordinate of oligonucletide relative to RANGE_GB
OCGI CpG Island landscape classification (island, shore, far)
CG_NO CpG ID
Data table ID CHROMOSOME RANGE_GB SEQUENCE REFSEQ CPG_COORDINATE RANGE_START RANGE_END OCGI CG_NO a_cg00032774-61
9
NC_000009.10 TCATGCCCTATTCTGTCCTAGAATCTA[CG]GCAGCGCCCCTACAGTCTAGCCA
36.1
97306736
97306709
97306760
shore
a_cg00032774-61
a_cg00044871-61
13
NC_000013.9 GGCTGGGCACGGAAGAACAGAAACTG[CG]AAAAGAAAGGGACTGGATG
36.1
24843811
24843785
24843831
shore
a_cg00044871-61
a_cg00131470-61
5
NC_000005.8 CCAAATTTCAACACTTAACTC[CG]AATGTAATCGTCTTCCTTCAAGCCCTGA
36.1
11955257
11955236
11955286
shore
a_cg00131470-61
a_cg00205286-61
5
NC_000005.8 ATACAGCTCAGCTCCAGGCAGG[CG]ATGCGGGTTCCCAATGCGGGCCTACA
36.1
158466256
158466234
158466283
island
a_cg00205286-61
a_cg00248810-61
19
NC_000019.8 ACCTCTGCCCCCTCACTT[CG]CATGATCAGAGCCTCTCAACTTCATGCC
36.1
4505352
4505334
4505381
shore
a_cg00248810-61
a_cg00249369-61
8
NC_000008.9 GCTCTTGCTAACAGACCCGAAAGCAATGAG[CG]TACCTGAGATCCAGATGTTCAGCCTCG
36.1
967616
967586
967644
shore
a_cg00249369-61
a_cg00384027-61
7
NC_000007.12 GGTTTGAACAGAAAGGTGAGTTCATTG[CG]CTTCTGATCGGACAGCATCATTCGG
36.1
152250454
152250427
152250480
shore
a_cg00384027-61
a_cg00491911-61
18
NC_000018.8 CTCCTCATCCTTCCCTCT[CG]CAGGGTCACCTGCTGGAGACAGCTCCTC
36.1
32022833
32022815
32022862
shore
a_cg00491911-61
a_cg00541282-61
19
NC_000019.8 GGGCTGACCCTTTTCTGATCGTCT[CG]GCCCCTCTGATTGTTCCCGATGGTC
36.1
50669859
50669835
50669885
shore
a_cg00541282-61
a_cg00541956-61
19
NC_000019.8 GTAGAACCTGGGCCTTGAGGAGCCT[CG]AATCTGGACAATGTCACCTGGCC
36.1
63146830
63146805
63146854
shore
a_cg00541956-61
a_cg00702945-61
19
NC_000019.8 CAATGAGTGCCCGGCCCTGGGG[CG]CTCGTCCTCTTGTGCAGACCAGGCTGG
36.1
43438490
43438468
43438518
island
a_cg00702945-61
a_cg00713351-61
17
NC_000017.9 AAAGCACACAAGTCGTGGAGTTCCAGGTGT[CG]AGTTTGGCAAAGGTAAATGAAGC
36.1
71291858
71291828
71291882
shore
a_cg00713351-61
a_cg00785125-61
11
NC_000011.8 CTTACATTCCCCAGATGTGCCA[CG]TTAGTTCTCCCTCTTGTTGATCCAAGCT
36.1
132454108
132454086
132454137
shore
a_cg00785125-61
a_cg00786734-61
6
NC_000006.10 GGATGAAGCAGCTGTTGGCTTCACGC[CG]TCCTCTAACTTGATTATTCTTTGGACACGT
36.1
10501984
10501958
10502015
shore
a_cg00786734-61
a_cg00790847-61
12
NC_000012.10 GTCCCAAGCAGACAATGCTGAGAAAAGAAT[CG]TGGTCACTTAAACAGCAGGTTATTTGT
36.1
38783842
38783812
38783870
shore
a_cg00790847-61
a_cg00864121-61
13
NC_000013.9 CACCCACTGCGTGCACACAGGA[CG]GGACGGGCTTCCACCCAGAAGA
36.1
113851304
113851282
113851327
shore
a_cg00864121-61
a_cg00923826-61
16
NC_000016.8 AAGGAGTCTGAACAGGGATGCAAAAC[CG]AGATATATGGAATAATTCAGGGTTTC
36.1
86202314
86202288
86202341
shore
a_cg00923826-61
a_cg00946653-61
19
NC_000019.8 AACATGAAACCAAGGTGTGTGGTCAAGA[CG]GCTTGCTGCCTGGCATGAGAA
36.1
13474426
13474398
13474448
shore
a_cg00946653-61
a_cg00966763-61
20
NC_000020.9 CCCTGTGAAGGAAGATGGAGAAC[CG]GCAGGATGTCCCTGACCTGCACATG
36.1
59905460
59905437
59905486
shore
a_cg00966763-61
a_cg01108596-61
3
NC_000003.10 GCAGTAAATGCCTGGCAGCGACTTCT[CG]CTTCTCCTTCCTCCTACCCCAT
36.1
28591727
28591701
28591750
island
a_cg01108596-61
384 52 Kbytes .Supplementary data files not provided
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