GEO help: Mouse over screen elements for information.
Status
Public on Apr 20, 2006
Title
NKI-CMF Homo sapiens 35k oligo array
Technology type
spotted oligonucleotide
Distribution
non-commercial
Organism
Homo sapiens Manufacturer
Central Microarray Facility, NKI Amsterdam
Manufacture protocol
The Human Genome Oligo Set Version 3.0 arrays contain 34,580 probes representing 24,650 genes and 37,123 gene transcripts. All oligos are 70-mer sequences. The arrays consist of 37632 features (oligos and controls) and are printed in a 28x28 subarray layout using 48 Biorobotic 10K-microspot pins. We use 14 different Bacillus subtilus sequences as spike-controls printed in triplo in every subarray.
Support
glass
Coating
aminosilane
Contributor(s)
Brugman W , Heimerikx M , Sie D , Velds A , Nieuwland M , Kerkhoven R Submission date
Apr 18, 2006
Last update date
Mar 24, 2008
Contact name
Daoud Sie
E-mail(s)
d.sie@nki.nl Organization name
Dutch Cancer Institute
Street address
Plesmanlaan 161
City
Amsterdam
ZIP/Postal code
1066CX
Country
Netherlands
Samples (488)
GSM120195 , GSM120220 , GSM120221 , GSM120222 , GSM120223 , GSM120224
GSM120225 ,
GSM120226 ,
GSM120227 ,
GSM120228 ,
GSM120277 ,
GSM120278 ,
GSM120279 ,
GSM120280 ,
GSM120281 ,
GSM120282 ,
GSM120283 ,
GSM120345 ,
GSM120346 ,
GSM120347 ,
GSM120348 ,
GSM120349 ,
GSM120350 ,
GSM120351 ,
GSM120352 ,
GSM120353 ,
GSM120354 ,
GSM120355 ,
GSM120356 ,
GSM120357 ,
GSM120358 ,
GSM120359 ,
GSM120360 ,
GSM124829 ,
GSM124832 ,
GSM124835 ,
GSM124839 ,
GSM288560 ,
GSM288561 ,
GSM288562 ,
GSM288563 ,
GSM288564 ,
GSM288565 ,
GSM288566 ,
GSM288567 ,
GSM288568 ,
GSM288569 ,
GSM288570 ,
GSM288571 ,
GSM288572 ,
GSM288573 ,
GSM288574 ,
GSM288575 ,
GSM288576 ,
GSM288577 ,
GSM288578 ,
GSM288579 ,
GSM288580 ,
GSM288581 ,
GSM288582 ,
GSM288583 ,
GSM288584 ,
GSM288585 ,
GSM288586 ,
GSM288587 ,
GSM288588 ,
GSM288589 ,
GSM288590 ,
GSM288591 ,
GSM288592 ,
GSM288593 ,
GSM288594 ,
GSM288595 ,
GSM288596 ,
GSM288597 ,
GSM288598 ,
GSM288599 ,
GSM288600 ,
GSM288601 ,
GSM288602 ,
GSM288603 ,
GSM288604 ,
GSM288605 ,
GSM288606 ,
GSM288607 ,
GSM288608 ,
GSM288609 ,
GSM288610 ,
GSM288611 ,
GSM288612 ,
GSM288613 ,
GSM288614 ,
GSM288615 ,
GSM288616 ,
GSM288617 ,
GSM288618 ,
GSM288619 ,
GSM288620 ,
GSM288621 ,
GSM288622 ,
GSM288623 ,
GSM288624 ,
GSM288625 ,
GSM288626 ,
GSM288627 ,
GSM288628 ,
GSM288629 ,
GSM288630 ,
GSM288631 ,
GSM288632 ,
GSM288633 ,
GSM288634 ,
GSM288635 ,
GSM288636 ,
GSM288637 ,
GSM288638 ,
GSM288639 ,
GSM288640 ,
GSM288641 ,
GSM288642 ,
GSM288643 ,
GSM288644 ,
GSM288645 ,
GSM288646 ,
GSM288647 ,
GSM288648 ,
GSM288649 ,
GSM288650 ,
GSM288651 ,
GSM288652 ,
GSM288653 ,
GSM288654 ,
GSM288655 ,
GSM288656 ,
GSM288657 ,
GSM288658 ,
GSM288659 ,
GSM307294 ,
GSM307295 ,
GSM307296 ,
GSM307297 ,
GSM307298 ,
GSM307299 ,
GSM307300 ,
GSM307301 ,
GSM307302 ,
GSM307303 ,
GSM307304 ,
GSM307305 ,
GSM307306 ,
GSM307307 ,
GSM307308 ,
GSM307309 ,
GSM307310 ,
GSM307311 ,
GSM307312 ,
GSM307313 ,
GSM307314 ,
GSM307315 ,
GSM307316 ,
GSM307317 ,
GSM307318 ,
GSM307319 ,
GSM307320 ,
GSM307321 ,
GSM307322 ,
GSM307323 ,
GSM307324 ,
GSM307325 ,
GSM307326 ,
GSM307327 ,
GSM307328 ,
GSM307329 ,
GSM307330 ,
GSM307331 ,
GSM307332 ,
GSM307333 ,
GSM307334 ,
GSM307335 ,
GSM307336 ,
GSM307337 ,
GSM307338 ,
GSM307339 ,
GSM307340 ,
GSM307341 ,
GSM307342 ,
GSM307343 ,
GSM307344 ,
GSM307345 ,
GSM307346 ,
GSM307347 ,
GSM307348 ,
GSM307349 ,
GSM307350 ,
GSM307351 ,
GSM307352 ,
GSM307353 ,
GSM307354 ,
GSM307355 ,
GSM307356 ,
GSM307357 ,
GSM307358 ,
GSM307359 ,
GSM307360 ,
GSM307361 ,
GSM307362 ,
GSM307363 ,
GSM307364 ,
GSM307365 ,
GSM307366 ,
GSM307367 ,
GSM307368 ,
GSM307369 ,
GSM307370 ,
GSM307371 ,
GSM307372 ,
GSM721897 ,
GSM721898 ,
GSM721899 ,
GSM721900 ,
GSM721901 ,
GSM721902 ,
GSM721903 ,
GSM721904 ,
GSM721905 ,
GSM721906 ,
GSM721907 ,
GSM721908 ,
GSM721909 ,
GSM721910 ,
GSM721911 ,
GSM721912 ,
GSM721913 ,
GSM721914 ,
GSM721915 ,
GSM721916 ,
GSM721917 ,
GSM721918 ,
GSM721919 ,
GSM721920 ,
GSM721921 ,
GSM721922 ,
GSM721923 ,
GSM721924 ,
GSM721925 ,
GSM721926 ,
GSM721927 ,
GSM721928 ,
GSM721929 ,
GSM721930 ,
GSM721931 ,
GSM721932 ,
GSM721933 ,
GSM721934 ,
GSM721935 ,
GSM721936 ,
GSM721937 ,
GSM721938 ,
GSM721939 ,
GSM721940 ,
GSM721941 ,
GSM721942 ,
GSM721943 ,
GSM721944 ,
GSM721945 ,
GSM721946 ,
GSM721947 ,
GSM721948 ,
GSM721949 ,
GSM721950 ,
GSM721951 ,
GSM721952 ,
GSM721953 ,
GSM721954 ,
GSM721955 ,
GSM721956 ,
GSM721957 ,
GSM721958 ,
GSM721959 ,
GSM721960 ,
GSM721961 ,
GSM721962 ,
GSM721963 ,
GSM721964 ,
GSM721965 ,
GSM721966 ,
GSM721967 ,
GSM721968 ,
GSM721969 ,
GSM721970 ,
GSM721971 ,
GSM721972 ,
GSM721973 ,
GSM721974 ,
GSM721975 ,
GSM721976 ,
GSM721977 ,
GSM721978 ,
GSM721979 ,
GSM721980 ,
GSM721981 ,
GSM721982 ,
GSM721983 ,
GSM721984 ,
GSM721985 ,
GSM721986 ,
GSM721987 ,
GSM721988 ,
GSM721989 ,
GSM721990 ,
GSM721991 ,
GSM721992 ,
GSM721993 ,
GSM721994 ,
GSM721995 ,
GSM721996 ,
GSM721997 ,
GSM721998 ,
GSM721999 ,
GSM722000 ,
GSM722001 ,
GSM722002 ,
GSM722003 ,
GSM722004 ,
GSM722005 ,
GSM722006 ,
GSM722007 ,
GSM722008 ,
GSM722009 ,
GSM722010 ,
GSM722011 ,
GSM722012 ,
GSM722013 ,
GSM722014 ,
GSM722015 ,
GSM722016 ,
GSM722017 ,
GSM722018 ,
GSM722019 ,
GSM722020 ,
GSM722021 ,
GSM722022 ,
GSM722023 ,
GSM722024 ,
GSM722025 ,
GSM722026 ,
GSM722027 ,
GSM722028 ,
GSM722029 ,
GSM722030 ,
GSM722031 ,
GSM722032 ,
GSM722033 ,
GSM722034 ,
GSM722035 ,
GSM722036 ,
GSM722037 ,
GSM722038 ,
GSM722039 ,
GSM722040 ,
GSM722041 ,
GSM722042 ,
GSM722043 ,
GSM722044 ,
GSM722045 ,
GSM722046 ,
GSM722047 ,
GSM722048 ,
GSM722049 ,
GSM722050 ,
GSM722051 ,
GSM722052 ,
GSM722053 ,
GSM722054 ,
GSM722055 ,
GSM722056 ,
GSM722057 ,
GSM2477471 ,
GSM2477472 ,
GSM2477473 ,
GSM2477474 ,
GSM2477475 ,
GSM2477476 ,
GSM2477477 ,
GSM2477478 ,
GSM2477479 ,
GSM2477480 ,
GSM2477481 ,
GSM2477482 ,
GSM2477483 ,
GSM2477484 ,
GSM2477485 ,
GSM2477486 ,
GSM2477487 ,
GSM2477488 ,
GSM2477489 ,
GSM2477490 ,
GSM2477491 ,
GSM2477492 ,
GSM2477493 ,
GSM2477494 ,
GSM2477495 ,
GSM2477496 ,
GSM2477497 ,
GSM2477498 ,
GSM2477499 ,
GSM2477500 ,
GSM2477501 ,
GSM2477502 ,
GSM2477503 ,
GSM2477504 ,
GSM2477505 ,
GSM2477506 ,
GSM2477507 ,
GSM2477508 ,
GSM2477509 ,
GSM2477510 ,
GSM2477511 ,
GSM2477512 ,
GSM2477513 ,
GSM2477514 ,
GSM2477515 ,
GSM2477516 ,
GSM2477517 ,
GSM2477518 ,
GSM2477519 ,
GSM2477520 ,
GSM2477521 ,
GSM2477522 ,
GSM2477523 ,
GSM2477524 ,
GSM2477525 ,
GSM2477526 ,
GSM2477527 ,
GSM2477528 ,
GSM2477529 ,
GSM2477530 ,
GSM2477531 ,
GSM2477532 ,
GSM2477533 ,
GSM2477534 ,
GSM2477535 ,
GSM2477536 ,
GSM2477537 ,
GSM2477538 ,
GSM2477539 ,
GSM2477540 ,
GSM2477541 ,
GSM2477542 ,
GSM2477543 ,
GSM2477544 ,
GSM2477545 ,
GSM2477546 ,
GSM2477547 ,
GSM2477548 ,
GSM2477549 ,
GSM2477550 ,
GSM2477551 ,
GSM2477552 ,
GSM2477553 ,
GSM2477554 ,
GSM2477555 ,
GSM2477556 ,
GSM2477557 ,
GSM2477558 ,
GSM2477559 ,
GSM2477560 ,
GSM2477561 ,
GSM2477562 ,
GSM2477563 ,
GSM2477564 ,
GSM2477565 ,
GSM2477566 ,
GSM2477567 ,
GSM2477568 ,
GSM2477569 ,
GSM2477570 ,
GSM2477571 ,
GSM2477572 ,
GSM2477573 ,
GSM2477574 ,
GSM2477575 ,
GSM2477576 ,
GSM2477577 ,
GSM2477578 ,
GSM2477579 ,
GSM2477580 ,
GSM2477581 Series (8)
GSE5307 Using breast (cancer) cell lines to measure bortezomib therapy response
GSE5445 Human Heterochromatin Proteins form Large Domains Containing KRAB-ZNF Genes
GSE11441 MN1 or MN1-TEL in the promonocytic cell line U937
GSE12225 Integrating chromosomal aberrations and gene expression profiles to dissect rectal cancer
GSE28884 MicroRNA sequence and expression analysis in breast tumors by deep sequencing
GSE29174 MicroRNA sequence and expression analysis in breast tumors by deep sequencing [mRNA expression array data]
GSE94523 Tamoxifen-associated endometrial tumors expose differential enhancer activity for Estrogen Receptor alpha [Microarray Expression]
GSE94524 Tamoxifen-associated endometrial tumors expose differential enhancer activity for Estrogen Receptor alpha
Data table header descriptions ID ID_REF
MetaRow Row coordinate of feature block
MetaCol Column coordinate of feature block
SubRow Row coordinate within feature block
SubCol Column coordinate within feature block
Reporter ID Internal DB identifier (http://cmfdb.nki.nl)
oligo_id OMAD oligo identifier
oligo_type Oligo type indicating coverage of splice variants
gene_id Ensembl gene identifier
transcript_count Number of transcripts of the gene
representative_transcript_id Ensembl transcript identifier
HUGO Human Gene Symbol
GB_LIST GenBank accession numbers
GI-Bacillus GenBank Identifier
SPOT_ID SPOT_ID
SEQUENCE Oligo sequence
Data table ID MetaRow MetaCol SubRow SubCol Reporter ID oligo_id oligo_type gene_id transcript_count representative_transcript_id HUGO GB_LIST GI-Bacillus SPOT_ID SEQUENCE 1
12
4
28
28
334575
H300009761 I
ENSG00000182037 1
ENST00000315389 ENSG00000182037
TTAATCTGACCTGTGAAAAACACTGTCCAGAGGCTAGGTGCGGTGGCTAACGCTTGTAATCCCAGCACTT
2
12
4
27
28
333055
H300009722 I
ENSG00000180563 1
ENST00000316343 ENSG00000180563
TGTTGCTGACTCGAAGTCTGAAGGAAAGTTCGATGGTGCAAAAGTTAAAGTTGCCTGGAAAAAGGTAGAC
3
12
4
26
28
331915
H300000470 I
ENSG00000179449 1
ENST00000314233 MAGEL2
NM_019066 , AF200625 AAGCTGGGCTACCATACAGGGAATTTGGTGGCATCCTATTTAGACAGGCCCAAGTTTGGCCTTCTGATGG
4
12
4
25
28
330395
H300000646 I
ENSG00000177996 1
ENST00000325950 ENSG00000177996
AATGCAGAAGCCTCAGGAGCCGATGCAATCAACTGGAAGAAAAGGTATCAGCAATGGAAGATGAAATGAA
5
12
4
24
28
328875
H300004276 I
ENSG00000176539 1
ENST00000326170 ENSG00000176539
CGCGGCACCAACCCTCAATATCTGGTGGGGAAGATCATTCGAATGCGAATCTGTGAGTCCAAGCACTGGA
6
12
4
23
28
327355
H300009441 I
ENSG00000174580 1
ENST00000310902 BC016007 TGGCTGTGGCAGCTTTAATGGAGAAACCTGTGTTGGCCTCTTTTTCTGGCATTAGGATCTCTTGTCATAG
7
12
4
22
28
326215
H200010775 C
ENSG00000172653 2
ENST00000323200 NM_152781 , AK057392 AAGTCCATCACCAAAGTAGGCCAAAAGAAAACGCCTGCTTTCCCACCGTGCTGCTCGAAACCACGAAAA
8
12
4
21
28
324695
H300011218 I
ENSG00000169855 3
ENST00000321053 NM_133631 ACTGACAAGCGTCCGGAAAGGTCGACGAGTAATTGCCCTGAAAACTCTTGGCTAATTGACCCACGTTGCT
9
12
4
20
28
323175
H200001801 I
ENSG00000167005 1
ENST00000300291 CPSF5
NM_007006 , BC001403 GAGGAGGACTGTAGAAGGGGTTCTGATTGTACATGAGCACCGGCTACCCCATGTGTTACTGCTGCAGCT
10
12
4
19
28
323145
H300021090 C
ENSG00000166938 3
ENST00000319212 NM_133375 , BC022089 ATTATCTAGCAGATCGTCGCTATGACATGCTGCCTTCCGTCCTCAGTGCAGATTTGTGTTCCCTTCTGGG
11
12
4
18
28
322005
H300003239 I
ENSG00000164746 1
ENST00000297327 BC031107 CAGTGTCTCAGAACTGATCACTTGCTCCTCCTATTGTGTGAACCACTCTTAGCAGGCATTGCTACTGGAT
12
12
4
17
28
320841
H200000124 C
ENSG00000162772 2
ENST00000310478 ATF3
NM_004024 , BC006322 CTGGTTTCTAAGAGTTTTGGGGGGCGGGGCTGTCACCACGTGCAGTATCTCAAGATATTCAGGTGGCCA
13
12
4
16
28
319351
H300017172 I
ENSG00000157625 2
ENST00000288422 NM_152787 , BC032526 TCTTGTAGTCAGTTGGTATGTACAGACAATTGGCATGGAAGTGGTAGGATATAAATCGGATGACGCCTGG
14
12
4
15
28
318229
H300020511 C
ENSG00000152990 2
ENST00000295295 BC026009 AGCTAAAGCCTGCAGTAGGATTGTGCAGTGTCTTCAGCGCATTGCTACCTACCGGCTAGCCGGTGGAGCT
15
12
4
14
28
317095
H300010411 I
ENSG00000147753 2
ENST00000312194 TTTY7
AF332233 AAAGAGGCTGTGTGCAAGAATCCAGTCCCATGGGGATTGGAATGTAGTCTGGGATCGTGGGACTATCCTG
16
12
4
13
28
315883
H300016485 I
ENSG00000143376 2
ENST00000310808 NM_030918 , BC012184 TAATCTAGGGTATGTGGGAAGGTCAGGGCTGTGGTAAGGAATAGAATCAAAGAGGGGAGTGATACGGGGT
17
12
4
12
28
314743
H200006036 I
ENSG00000139180 1
ENST00000266544 NDUFA9
NM_005002 , X76665 GCATGGGGTCACAGGTAATCATACCCTATCGGTGTGATAAATATGACATCATGCACCTTCGTCCCATGG
18
12
4
11
28
313645
H200015671 I
ENSG00000136156 1
ENST00000258659 ITM2B
NM_021999 , BC000554 AAGGAAACTTACAAACTGCAACGCAGAGAAACTATTAAAGGTATTCAGAAACGTGAAGCCAGCAATTGT
19
12
4
10
28
312885
H300005545 I
ENSG00000133937 1
ENST00000238558 GSC
NM_173849 GACGTCGTCGTCGAAGGCGTCACCGGAGAAGAGGGAAGAGGAAGGTAAAAGCGATTTGGACTCGGACAGC
20
12
4
9
28
311775
H200014240 I
ENSG00000130202 2
ENST00000252485 PVRL2
NM_002856 , AF044964 CTTGTTCGTCTGGACGACACTGGAGTGGAACACTGCCTCCCACTTTCTTGGGACTTGGAGGGAGGTGGA
37632 5605 Kbytes .Supplementary data files not provided
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