Noi/NOTES/2011-8-9
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Repeat BSPP DMR330k capture of GA and control gDNA from blood sample
- 2011_08_08: received new plate of GA sample plate1 (so called GA plate1-2) from Ling. She prepared gDNA concentration 100ng/ul and volume ~10-15ul)
- However, after measured the conc. by Nanodrop the conc. of the samples were very varied and were not enough for bisulfite conversion. The concentrations in plate 1-1 were verified by Nanodrop again. Then I calculated the volume required for 1200ng. I didn't pool the gDNA from the two plates because they have different conc. and some sample has too low conc.
- Used EZ-96 DNA Methylation-Gold™ Kit (deep well format) Cat#D5008
- Eluted volume 20ul with Elution buffer. After Qubit ss-DNA assay the total yields will be calculated based on ~16ul left in the well.
Sample ID | Conc. (ng/ul) | Volume plate1-2 enough? | Volume plate1-2 (ul) | Amount plate1-2 | Conc. plate#1-1 (ng/ul) | Volume plate 1-1 | Sample ID | H2O (ul) | Total volume (ul) | CT conversion reagent (ul) | Total volume (ul) |
A1 | 177.30 | 6.77 | 1200.00 | A1 | 13.23 | 20.00 | 130.00 | 150.00 | |||
B1 | 104.91 | 11.44 | 1200.00 | B1 | 8.56 | 20.00 | 130.00 | 150.00 | |||
C1 | 108.20 | 11.09 | 1200.00 | C1 | 8.91 | 20.00 | 130.00 | 150.00 | |||
D1 | 95.30 | 12.59 | 1200.00 | D1 | 7.41 | 20.00 | 130.00 | 150.00 | |||
E1 | 142.71 | 8.41 | 1200.00 | E1 | 11.59 | 20.00 | 130.00 | 150.00 | |||
F1 | 130.28 | 9.21 | 1200.00 | F1 | 10.79 | 20.00 | 130.00 | 150.00 | |||
G1 | 195.56 | 6.14 | 1200.00 | G1 | 13.86 | 20.00 | 130.00 | 150.00 | |||
H1 | 126.34 | 9.50 | 1200.00 | H1 | 10.50 | 20.00 | 130.00 | 150.00 | |||
A2 | 119.33 | 10.06 | 1200.00 | A2 | 9.94 | 20.00 | 130.00 | 150.00 | |||
B2 | 135.56 | 8.85 | 1200.00 | B2 | 11.15 | 20.00 | 130.00 | 150.00 | |||
C2 | 48.65 | no | 10.00 | 486.50 | 94.48 | 7.55 | C2 | 2.45 | 20.00 | 130.00 | 150.00 |
D2 | 242.84 | 4.94 | 1200.00 | D2 | 15.06 | 20.00 | 130.00 | 150.00 | |||
E2 | 109.93 | 10.92 | 1200.00 | E2 | 9.08 | 20.00 | 130.00 | 150.00 | |||
F2 | 139.81 | 8.58 | 1200.00 | F2 | 11.42 | 20.00 | 130.00 | 150.00 | |||
G2 | 87.91 | 13.65 | 1200.00 | G2 | 6.35 | 20.00 | 130.00 | 150.00 | |||
H2 | 64.74 | no | 15.00 | 971.10 | 138.55 | 1.65 | H2 | 3.35 | 20.00 | 130.00 | 150.00 |
A3 | 121.07 | 9.91 | 1200.00 | A3 | 10.09 | 20.00 | 130.00 | 150.00 | |||
B3 | 103.64 | 11.58 | 1200.00 | B3 | 8.42 | 20.00 | 130.00 | 150.00 | |||
C3 | 76.09 | no | 12.00 | 913.08 | 144.84 | 1.98 | C3 | 6.02 | 20.00 | 130.00 | 150.00 |
D3 | 154.51 | 7.77 | 1200.00 | D3 | 12.23 | 20.00 | 130.00 | 150.00 | |||
E3 | 198.30 | 6.05 | 1200.00 | E3 | 13.95 | 20.00 | 130.00 | 150.00 | |||
F3 | 138.66 | 8.65 | 1200.00 | F3 | 11.35 | 20.00 | 130.00 | 150.00 | |||
G3 | 163.20 | 7.35 | 1200.00 | G3 | 12.65 | 20.00 | 130.00 | 150.00 | |||
H3 | 56.20 | no | 10.00 | 562.00 | 124.85 | 5.11 | H3 | 4.89 | 20.00 | 130.00 | 150.00 |
A4 | 98.78 | 12.15 | 1200.00 | A4 | 7.85 | 20.00 | 130.00 | 150.00 | |||
B4 | 60.47 | no | 12.00 | 725.64 | 151.88 | 3.12 | B4 | 4.88 | 20.00 | 130.00 | 150.00 |
C4 | 66.43 | no | 12.00 | 797.16 | 119.93 | 3.36 | C4 | 4.64 | 20.00 | 130.00 | 150.00 |
D4 | 119.64 | 10.03 | 1200.00 | D4 | 9.97 | 20.00 | 130.00 | 150.00 | |||
E4 | 208.77 | 5.75 | 1200.00 | E4 | 14.25 | 20.00 | 130.00 | 150.00 | |||
F4 | 83.48 | no | 12.00 | 1001.76 | 58.64 | 3.38 | F4 | 4.62 | 20.00 | 130.00 | 150.00 |
G4 | 71.01 | no | 12.00 | 852.12 | 36.48 | 9.54 | G4 | 0.00 | 21.54 | 130.00 | 151.54 |
H4 | 210.32 | 5.71 | 1200.00 | H4 | 14.29 | 20.00 | 130.00 | 150.00 | |||
A5 | 266.74 | 4.50 | 1200.00 | A5 | 15.50 | 20.00 | 130.00 | 150.00 | |||
B5 | 105.58 | 11.37 | 1200.00 | B5 | 8.63 | 20.00 | 130.00 | 150.00 | |||
C5 | 89.41 | 13.42 | 1200.00 | C5 | 6.58 | 20.00 | 130.00 | 150.00 | |||
D5 | 61.84 | no | 15.00 | 927.60 | 177.45 | 1.54 | D5 | 3.46 | 20.00 | 130.00 | 150.00 |
E5 | 66.71 | no | 12.00 | 800.52 | 135.97 | 2.94 | E5 | 5.06 | 20.00 | 130.00 | 150.00 |
F5 | 125.29 | 9.58 | 1200.00 | F5 | 10.42 | 20.00 | 130.00 | 150.00 | |||
G5 | 121.31 | 9.89 | 1200.00 | G5 | 10.11 | 20.00 | 130.00 | 150.00 | |||
H5 | 88.27 | 13.59 | 1200.00 | H5 | 6.41 | 20.00 | 130.00 | 150.00 | |||
A6 | 134.70 | 8.91 | 1200.00 | A6 | 11.09 | 20.00 | 130.00 | 150.00 | |||
B6 | 62.68 | no | 12.00 | 752.16 | 154.46 | 2.90 | B6 | 5.10 | 20.00 | 130.00 | 150.00 |
C6 | 141.72 | 8.47 | 1200.00 | C6 | 11.53 | 20.00 | 130.00 | 150.00 | |||
D6 | 187.04 | 6.42 | 1200.00 | D6 | 13.58 | 20.00 | 130.00 | 150.00 | |||
E6 | 64.02 | no | 12.00 | 768.24 | 138.92 | 3.11 | E6 | 4.89 | 20.00 | 130.00 | 150.00 |
F6 | 58.78 | no | 12.00 | 705.36 | 188.15 | 2.63 | F6 | 5.37 | 20.00 | 130.00 | 150.00 |
G6 | 170.00 | 7.06 | 1200.00 | G6 | 12.94 | 20.00 | 130.00 | 150.00 | |||
H6 | 111.00 | 10.81 | 1200.00 | H6 | 9.19 | 20.00 | 130.00 | 150.00 | |||
A7 | 320.17 | 3.75 | 1200.00 | A7 | 16.25 | 20.00 | 130.00 | 150.00 | |||
B7 | 162.36 | 7.39 | 1200.00 | B7 | 12.61 | 20.00 | 130.00 | 150.00 | |||
C7 | 126.32 | 9.50 | 1200.00 | C7 | 10.50 | 20.00 | 130.00 | 150.00 | |||
D7 | 368.67 | 3.25 | 1200.00 | D7 | 16.75 | 20.00 | 130.00 | 150.00 | |||
E7 | 117.82 | 10.19 | 1200.00 | E7 | 9.81 | 20.00 | 130.00 | 150.00 | |||
F7 | 84.38 | no | 12.00 | 1012.56 | 107.02 | 1.75 | F7 | 6.25 | 20.00 | 130.00 | 150.00 |
G7 | 105.04 | 11.42 | 1200.00 | G7 | 8.58 | 20.00 | 130.00 | 150.00 | |||
H7 | 86.61 | 13.86 | 1200.00 | H7 | 6.14 | 20.00 | 130.00 | 150.00 | |||
A8 | 95.35 | 12.59 | 1200.00 | A8 | 7.41 | 20.00 | 130.00 | 150.00 | |||
B8 | 98.32 | 12.21 | 1200.00 | B8 | 7.79 | 20.00 | 130.00 | 150.00 | |||
C8 | 129.29 | 9.28 | 1200.00 | C8 | 10.72 | 20.00 | 130.00 | 150.00 | |||
D8 | 100.98 | 11.88 | 1200.00 | D8 | 8.12 | 20.00 | 130.00 | 150.00 | |||
E8 | 73.13 | no | 12.00 | 877.56 | 132.82 | 2.43 | E8 | 5.57 | 20.00 | 130.00 | 150.00 |
F8 | 111.10 | 10.80 | 1200.00 | F8 | 9.20 | 20.00 | 130.00 | 150.00 | |||
G8 | 30.00 | no | 10.00 | 300.00 | 162.10 | 5.55 | G8 | 4.45 | 20.00 | 130.00 | 150.00 |
H8 | 82.39 | no | 12.00 | 988.68 | 182.77 | 1.16 | H8 | 6.84 | 20.00 | 130.00 | 150.00 |
A9 | 61.85 | no | 12.00 | 742.20 | 136.13 | 3.36 | A9 | 4.64 | 20.00 | 130.00 | 150.00 |
B9 | 110.49 | 10.86 | 1200.00 | B9 | 9.14 | 20.00 | 130.00 | 150.00 | |||
C9 | 62.30 | no | 12.00 | 747.60 | 123.23 | 3.67 | C9 | 4.33 | 20.00 | 130.00 | 150.00 |
D9 | 118.40 | 10.14 | 1200.00 | D9 | 9.86 | 20.00 | 130.00 | 150.00 | |||
E9 | 75.01 | 16.00 | 1200.00 | E9 | 4.00 | 20.00 | 130.00 | 150.00 | |||
F9 (tube 49.9) | 60.63 | no | 15.00 | 909.45 | 38.24 | 7.60 | F9 (tube 49.9) | 0.00 | 22.60 | 130.00 | 152.60 |
G9 | 91.20 | no | 12.00 | 1094.40 | 142.40 | 0.74 | G9 | 7.26 | 20.00 | 130.00 | 150.00 |
H9 | 90.62 | 13.24 | 1200.00 | H9 | 6.76 | 20.00 | 130.00 | 150.00 | |||
A10 | 83.92 | no | 13.00 | 1090.96 | 193.87 | 0.56 | A10 | 6.44 | 20.00 | 130.00 | 150.00 |
B10 | 120.56 | 9.95 | 1200.00 | B10 | 10.05 | 20.00 | 130.00 | 150.00 | |||
C10 | 86.38 | no | 12.00 | 1036.56 | 168.48 | 0.97 | C10 | 7.03 | 20.00 | 130.00 | 150.00 |
D10 | 49.85 | no | 12.00 | 598.20 | 172.60 | 3.49 | D10 | 4.51 | 20.00 | 130.00 | 150.00 |
E10 | 123.63 | 9.71 | 1200.00 | E10 | 10.29 | 20.00 | 130.00 | 150.00 | |||
F10 | 14.38 | no | 12.00 | 172.56 | 89.90 | 11.43 | F10 | 0.00 | 23.43 | 130.00 | 153.43 |
G10 | 60.43 | no | 12.00 | 725.16 | 163.82 | 2.90 | G10 | 5.10 | 20.00 | 130.00 | 150.00 |
H10 | 71.01 | no | 12.00 | 852.12 | 251.70 | 1.38 | H10 | 6.62 | 20.00 | 130.00 | 150.00 |
A11 | 71.94 | no | 12.00 | 863.28 | 96.54 | 3.49 | A11 | 4.51 | 20.00 | 130.00 | 150.00 |
B11 | 72.80 | no | 12.00 | 873.60 | 181.22 | 1.80 | B11 | 6.20 | 20.00 | 130.00 | 150.00 |
C11 | 43.85 | no | 12.00 | 526.20 | 192.17 | 3.51 | C11 | 4.49 | 20.00 | 130.00 | 150.00 |
D11 | 201.88 | 5.94 | 1200.00 | D11 | 14.06 | 20.00 | 130.00 | 150.00 | |||
E11 | 221.63 | 5.41 | 1200.00 | E11 | 14.59 | 20.00 | 130.00 | 150.00 | |||
F11 | 68.94 | no | 12.00 | 827.28 | 139.05 | 2.68 | F11 | 5.32 | 20.00 | 130.00 | 150.00 |
G11 | 76.28 | no | 12.00 | 915.36 | 137.85 | 2.06 | G11 | 5.94 | 20.00 | 130.00 | 150.00 |
H11 | 73.95 | no | 12.00 | 887.40 | 126.45 | 2.47 | H11 | 5.53 | 20.00 | 130.00 | 150.00 |
A12 | 88.25 | no | 12.00 | 1059.00 | 126.33 | 1.12 | A12 | 6.88 | 20.00 | 130.00 | 150.00 |
B12 (tube 94.9) | 109.45 | 10.96 | 1200.00 | B12 (tube 94.9) | 9.04 | 20.00 | 130.00 | 150.00 | |||
C12 | 59.30 | no | 12.00 | 711.60 | 147.66 | 3.31 | C12 | 4.69 | 20.00 | 130.00 | 150.00 |
D12 | 42.39 | no | 12.00 | 508.68 | 153.07 | 4.52 | D12 | 3.48 | 20.00 | 130.00 | 150.00 |
E12 | 63.68 | no | 12.00 | 764.16 | 138.06 | 3.16 | E12 | 4.84 | 20.00 | 130.00 | 150.00 |
F12 | 26.25 | no | 12.00 | 315.00 | 144.07 | 6.14 | F12 | 1.86 | 20.00 | 130.00 | 150.00 |
G12 | 59.01 | no | 12.00 | 708.12 | 123.67 | 3.98 | G12 | 4.02 | 20.00 | 130.00 | 150.00 |
H12 | 142.64 | 8.41 | 1200.00 | H12 | 11.59 | 20.00 | 130.00 | 150.00 |