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Platform GPL5884 Query DataSets for GPL5884
Status Public on Dec 23, 2007
Title Agilent-016808 Custom Human 244K CGH Microarray
Technology type in situ oligonucleotide
Distribution custom-commercial
Organism Homo sapiens
Manufacturer Agilent Technologies
Manufacture protocol see manufacturer's web site at http://www.agilent.com/
 
Description Agilent Custom Human 244K CGH Microarray consisting of 60-mer oligonucleotides mapped to UCSC hg17 human genome (NCBI build 35).
Reference: Bovee et al. Nature Genetics, 2007
Orientation:
Features are numbered numbered Left-to-Right, Top-to-Bottom as scanned by an Agilent scanner (barcode on the left, DNA on the back surface, scanned through the glass), matching the FeatureNum output from Agilent's Feature Extraction software.
The FeatureNum column represents the Agilent Feature Extraction feature number.
 
Submission date Sep 17, 2007
Last update date Feb 08, 2008
Contact name Nick Sampas
E-mail(s) nick_sampas@agilent.com
Organization name Agilent Technologies
Department Life Science and Nanotechnology Department
Lab Molecular Technology Laboratory
Street address 5301 Stevens Creek Blvd
City Santa Clara
State/province CA
ZIP/Postal code 95051
Country USA
 
Samples (38) GSM230070, GSM230071, GSM230072, GSM230073, GSM230074, GSM230076 
Series (2)
GSE9075 Closing Gaps in the Human Genome with Fosmid Resources Generated from Multiple Individuals
GSE10008 Fine-Scale Mapping and Sequencing of Structural Variation from Eight Human Genomes

Data table header descriptions
ID
Row Row
Col Column
ControlType Control type
ProbeUID Numeric Unique Probe identifier
ProbeName Probe Name
SystematicName Systematic Name
SEQUENCE 60-mer oligo sequence
GB_RANGE ACCESSION.VERSION[start..end]
SPOT_ID spot identifier

Data table
ID Row Col ControlType ProbeUID ProbeName SystematicName SEQUENCE GB_RANGE SPOT_ID
1 1 1 1 0 HsCGHBrightCorner HsCGHBrightCorner --HsCGHBrightCorner
2 1 2 1 1 DarkCorner DarkCorner --DarkCorner
3 1 3 1 1 DarkCorner DarkCorner --DarkCorner
4 1 4 0 3 Hg17~chr19:059450194-059450238 chr19:059450194-059450238 TTCACCATTTGCATCCCAGGAGATGGGGCCAAGTGTGGGCATGCCATAACCGACGCCTAA NC_000019.8[059450194..059450238]
5 1 5 0 5 Hg17~chr5:055935885-055935944 chr5:055935885-055935944 AACATTCCTTATAATAAGTCTGCACACTCTGCTGTGCCAACAGAGAAGACCAATTATATG NC_000005.8[055935885..055935944]
6 1 6 0 7 Hg17~chr11:107281972-107282031 chr11:107281972-107282031 AACTCTCAGGAGGACTATAATAGTGACTTTTTAATAATATACCAGGTCTGTATGTTTTTT NC_000011.8[107281972..107282031]
7 1 7 0 9 EEE_INS_11117_000000068_000000128 EEE_INS_11117_000000068_000000128 TCATTTCCCTCTCTTACAAACCTCATATTTTCTTACCTACACAATAACCTCCCTCTATCG --EEE_INS_11117_000000068_000000128
8 1 8 0 11 Hg17~chr5:104464722-104464781 chr5:104464722-104464781 AGGCAGAACTGTTTCTTCAAGGTAGATCAGATACATTATCCTTTTTTTTATCCTACTCTT NC_000005.8[104464722..104464781]
9 1 9 0 13 g02_19_fa1029_left2_000000617_000000677 EEE_NOV_0013_000000626-000000685 GTTGGGAAGGGATGGGTGGGCCAGTGCTGGCAAGCCTTGATCTTTATAACCGACGCCTAA --EEE_NOV_0013_000000626-000000685
10 1 10 0 15 Hg17~chr9:135455460-135455504 chr9:135455460-135455504 GCTGCAGCAGGATGTGCCCGCCCTGGGCTAAGTCAGCACACTTGCATAACCGACGCCTAA NC_000009.9[135455460..135455504]
11 1 11 0 17 Hg17~chr19:056822889-056822938 chr19:056822889-056822938 CACACTCACAGTAAACTGAGAGATTCAGAAAAATTTGCAGGAAGCCCAGCATAACCGACG NC_000019.8[056822889..056822938]
12 1 12 0 19 Hg17~chr5:001245906-001245950 chr5:001245906-001245950 AGATATCATGAGAGGTGGAACGGCTCTGAGTGGGGGAGATGTCGTATAACCGACGCCTAA NC_000005.8[001245906..001245950]
13 1 13 0 21 Hg17~chr7:109789412-109789470 chr7:109789412-109789470 ATCAGTAAGTTGCATCCATTAAACAAAGAAAAGTCATTCAACCAGCCATCTGGAGACAAA NC_000007.11[109789412..109789470]
14 1 14 0 23 Hg17~chr17:076185811-076185860 chr17:076185811-076185860 TAGCCTGGGGACCAGGTGAAGGAATCTCAACCTTATATTGTAAAGGCAATATAACCGACG NC_000017.9[076185811..076185860]
15 1 15 0 25 Hg17~chr5:136884494-136884550 chr5:136884494-136884550 ATTTGAGAAATCTTTGCTGGTTCCCGGTTGTCTATGGGATAGAATCTAAAAGACTGTATA NC_000005.8[136884494..136884550]
16 1 16 0 27 Hg17~chr3:190568840-190568898 chr3:190568840-190568898 GAGTCCCAAAGCAATGAAAATGTTTCTCTGATGCTTTCTCCACTGTAGACCAAAATTTTA NC_000003.9[190568840..190568898]
17 1 17 0 29 Hg17~chr7:049487904-049487949 chr7:049487904-049487949 CTCCTCTTGCAGAGGCCCCATTCTTCAAGGTTCCTAGATGTGATTTATAACCGACGCCTA NC_000007.11[049487904..049487949]
18 1 18 0 31 EEE_INS_807_000001182_000001242 EEE_INS_807_000001182_000001242 GGGATACTTACTGAATAAGTCCTATGTTTAATATTTTACATTTAAATGACTAAAAAACCA --EEE_INS_807_000001182_000001242
19 1 19 0 33 g06_08_fa1490_fa1462_right_000075479_000075539 EEE_NOV_0029_000075479-000075538 AATGACTCTCATGTGAGCCTTTCCTAGATGCAGTCTTCAGCAAGAGGACATAACCGACGC --EEE_NOV_0029_000075479-000075538
20 1 20 0 35 Hg17~chr3:022251634-022251693 chr3:022251634-022251693 AGCAAAGAATTTAAATATTTTTTCTATATGAATCTGGAATTTTACCCTCAGCCAGACCCA NC_000003.9[022251634..022251693]

Total number of rows: 243504

Table truncated, full table size 41086 Kbytes.




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