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| Status |
Public on Oct 27, 2018 |
| Title |
Unaffected family member [0020] |
| Sample type |
genomic |
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| Source name |
iv3
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| Organism |
Homo sapiens |
| Characteristics |
group: Control
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| Treatment protocol |
NA
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| Growth protocol |
NA
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| Extracted molecule |
genomic DNA |
| Extraction protocol |
Saliva samples were collected and genomic DNA (gDNA) was purified using the QIAamp DNA Blood Mini Kit (Qiagen; 51104).
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| Label |
Cy5, Cy3
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| Label protocol |
200 ng of genomic DNA was whole-genome amplified in an overnight reaction at 37C using multi-sample master mixes (MA1, MA2 and MSM). After incubation the amplified DNA was fragmented with fragmentation solution (FMS), precipitated with isopropanol and precipitation solution (PM1) and resuspended in hybridization buffer (RA1).
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| Hybridization protocol |
RA1 resuspended DNA was loaded onto BeadChips arrays. After overnight incubation at 48C, single-base extension and allele-specific staining was performed on a Teflow chamber rack system (Tecan, Maennedorf, Switzerland). After allele-specific staining BeadChip arrays were coated with XC4/ethanol , dried for 1 hour and scanned on a BeadArray Reader (Illumina).
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| Scan protocol |
After allele-specific staining BeadChip arrays were coated with staining reagents (LX1, LX2, XC3 and XC4)/ethanol , dried for 1 hour and scanned on a HiScan Instrument (Illumina).
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| Data processing |
Genomic DNA from saliva sampeles were genotyped using Illumina HumanCoreExome-12 v1-1 BeadChip arrays
Genotype: AA,AB,BB,or NC (no call)
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| Submission date |
Oct 26, 2018 |
| Last update date |
Oct 27, 2018 |
| Contact name |
Neil Chi |
| Organization name |
University of California, San Diego
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| Department |
Medicine
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| Lab |
Dr. Neil Chi
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| Street address |
9500 Gilman Drive
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| City |
La Jolla |
| State/province |
CA |
| ZIP/Postal code |
92093 |
| Country |
USA |
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| Platform ID |
GPL23195 |
| Series (1) |
| GSE121844 |
SNV microarray data from "Genome-edited cardiac models reveal combinatorial genetic interactions in human cardiomyopathy" by Deacon et al |
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| Supplementary data files not provided |
| Processed data are available on Series record |
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