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Sample GSM191063 Query DataSets for GSM191063
Status Public on May 12, 2008
Title 1671 father of the CHD patient 1669
Sample type genomic
 
Channel 1
Source name DNA isolated from blood
Organism Homo sapiens
Characteristics DNA isolated from blood of the parent (1671). Gender: male
Extracted molecule genomic DNA
Extraction protocol DNA was extracted from peripheral blood by a salting out procedure (Grimberg et al.,1989).
Label Cy3
Label protocol Probes were labelled by random priming. Detailed protocols are available at our website (Molecular Cytogenetics at the Max Planck Institute for Molecular Genetics)
 
Channel 2
Source name DNA isolated from blood
Organism Homo sapiens
Characteristics DNA isolated from the blood of a healthy male donor
Extracted molecule genomic DNA
Extraction protocol DNA was extracted from peripheral blood by a salting out procedure (Blin and Stafford,1976).
Label Cy5
Label protocol Probes were labelled by random priming. Detailed protocols are available at our website (Molecular Cytogenetics at the Max Planck Institute for Molecular Genetics)
 
 
Hybridization protocol Hybridization was done overnight at 42?C in a slide booster (Advalytix, Brunnthal, Germany). Detailed protocols are available at our website (Molecular Cytogenetics at the Max Planck Institute for Molecular Genetics)
Scan protocol Slides were scanned using an Agilent scanner .
Description Array CGH analysis of a patient with congenital heart disease
Data processing TIFF images were analysed by Genepix 5.0 (Axon Instruments, Union City, CA) and raw intensities (gpr files) were imported into CGHPRO (Chen at al.,2005). Background intensities were not substracted. Signal intensities were normalized by subgridd LOWESS. Aberrant ratios involving three or more neighbouring clones wereconsidered as genomic aberrations, unless they coincided with a known polymorphism as listed in the Database of Genomic Variants (version Dec 2005)
 
Submission date May 23, 2007
Last update date May 12, 2008
Contact name Fikret Erdogan
E-mail(s) erdogan@molgen.mpg.de
Organization name Max-Planck-Institute
Street address Ihnestr. 73
City Berlin
ZIP/Postal code 14195
Country Germany
 
Platform ID GPL5000
Series (1)
GSE7527 Array CGH in congenital heart disease

Data table header descriptions
ID_REF
VALUE normalized log ratio (subgrid lowess)
Internal_ID Internal name
f635Mean foreground signal intensity Cy5
b635Mean background signal intensity Cy5
f532Mean foreground signal intensity Cy3
b532Mean background signal intensity Cy3
Flags 0: valid spots -50: clones with unverified chromosomal positions -100: excluded

Data table
ID_REF VALUE Internal_ID f635Mean b635Mean f532Mean b532Mean Flags
1_1_1_bK2185H17 -0.008 bK2185H17 225 153 235 86 0
1_1_2_empty null empty 160 184 101 232 -100
1_1_3_empty null empty 228 183 188 222 -100
1_1_4_bA208O6 -0.334 bA208O6 305 152 288 91 0
1_1_5_empty null empty 156 154 104 95 -100
1_1_6_empty null empty 218 162 149 98 -100
1_1_7_N0185M11 -0.195 N0185M11 475 151 598 87 0
1_1_8_N0723M08 -0.241 N0723M08 311 159 321 91 0
1_1_9_N0746C04 -0.082 N0746C04 483 154 670 93 0
1_1_10_Empty null Empty 707 177 812 119 -100
1_1_11_N0148D21 null N0148D21 812 193 1105 141 -100
1_1_12_N0081G14 null N0081G14 1239 159 1930 101 -100
1_1_13_F0609E06 null F0609E06 489 156 671 95 -100
1_1_14_N0266L23 null N0266L23 164 156 98 97 -100
1_1_15_N0736B01 -0.187 N0736B01 369 156 427 105 0
1_1_16_N0753J19 -0.075 N0753J19 397 153 518 94 0
1_1_17_N0472L10 -0.103 N0472L10 281 154 311 93 0
1_1_18_N0490A23 0.076 N0490A23 804 155 1411 95 0
1_1_19_empty null empty 156 156 99 95 -100
1_1_20_N0007P15 -0.149 N0007P15 337 159 389 97 0

Total number of rows: 44640

Table truncated, full table size 2147 Kbytes.




Supplementary file Size Download File type/resource
GSM191063.gpr.gz 3.4 Mb (ftp)(http) GPR
Processed data included within Sample table

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