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| Status |
Public on Jun 30, 2016 |
| Title |
SNP microarray of T-REx-293-based clones overexpressing the DNA cytosine deaminase APOBEC3B |
| Organism |
Homo sapiens |
| Experiment type |
Genome variation profiling by SNP array
SNP genotyping by SNP array
|
| Summary |
A conditional and isogenic system for APOBEC3B (A3B) induction in T-REx-293 cells. Cells were engineered to express doxycycline-inducible A3B-eGFP or eGFP constructs and subjected to 10 rounds of A3B-eGFP exposure causing 80-90% cell death. Control pools (eGFP) were subjected to parallel rounds of non-toxic eGFP exposure, and dilutions were done each round to mimic A3B-eGFP induced population fluctuations. DNA was extracted and subjected to SNP analyses using the Human OmniExpress-24v1-0 BeadChip (Illumina, San Diego, CA). Genotyping was performed using the humanomniexpress_24v1-0_a cluster file.
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| Overall design |
SNP data is avaiable for a total of 16 samples, all derived from single cells mother lines A and C. For each series, each consisting of 8 samples, A3B-eGFP and eGFP daugther clones were processed on the SNP microarray, as well as 3 A3B-eGFP and 3 eGFP grand-daugther clones.
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| Contributor(s) |
Quist J, Harris RS, Tutt AN, Grigoriadis A |
| Citation missing |
Has this study been published? Please login to update or notify GEO. |
| Submission date |
Feb 26, 2016 |
| Last update date |
Jul 02, 2016 |
| Contact name |
Anita Grigoriadis |
| Organization name |
King's College London
|
| Street address |
Great Maze Pond
|
| City |
London |
| ZIP/Postal code |
SE1 9RT |
| Country |
United Kingdom |
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| Platforms (1) |
| GPL21168 |
HumanOmniExpress-24 v1.0 BeadChip [SNP_ID version] |
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| Samples (16)
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| GSM2073108 |
T-REx-293 A-series A3B-eGFP Grand-daugther #2 |
| GSM2073109 |
T-REx-293 A-series A3B-eGFP Grand-daugther #3 |
| GSM2073110 |
T-REx-293 A-series eGFP Grand-daugther #1 |
| GSM2073111 |
T-REx-293 A-series eGFP Grand-daugther #2 |
| GSM2073112 |
T-REx-293 A-series eGFP Grand-daugther #3 |
| GSM2073113 |
T-REx-293 C-series A3B-eGFP Daugther |
| GSM2073114 |
T-REx-293 C-series eGFP Daugther |
| GSM2073115 |
T-REx-293 C-series A3B-eGFP Grand-daugther #1 |
| GSM2073116 |
T-REx-293 C-series A3B-eGFP Grand-daugther #2 |
| GSM2073117 |
T-REx-293 C-series A3B-eGFP Grand-daugther #3 |
| GSM2073118 |
T-REx-293 C-series eGFP Grand-daugther #1 |
| GSM2073119 |
T-REx-293 C-series eGFP Grand-daugther #2 |
| GSM2073120 |
T-REx-293 C-series eGFP Grand-daugther #3 |
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| Relations |
| BioProject |
PRJNA314329 |
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