Noi/NOTES/2014-12-8: Difference between revisions
Jump to navigation
Jump to search
>Noi (Created page with "= LMS + CRC BSPP capture on WGBS libraries prepared from ctDAN of CRC patient (Illumina) = '''Back to calendar'''<br> [[Noi/NOTES/2014-12-5|'''Co...") |
>Noi mNo edit summary |
||
Line 7: | Line 7: | ||
** Sample: WGBS libraries prepared by KAPA Hyper Prep Kit (2014-12-05) amount 400ng | ** Sample: WGBS libraries prepared by KAPA Hyper Prep Kit (2014-12-05) amount 400ng | ||
==== Probe calculation (Example) ==== | ==== Probe calculation (Example) ==== | ||
'''Probe set Probe size Probe:target ratio''' | |||
LMS 73,574 200:1 | |||
CRC 1,024 500:1 | |||
<br> | |||
{| {{table}} | |||
| align="center" style="width:220px;background:#f0f0f0;"|'''Probe:target''' | |||
| align="center" style="width:120px;background:#f0f0f0;"|'''200:1''' | |||
| align="center" style="background:#f0f0f0;"|'''''' | |||
|- | |||
| Probe size||73574|| | |||
|- | |||
| Template||400||ng | |||
|- | |||
| Human gDNA MW||1.95E+12||g/mol (3E+09 * 650Da/bp+157.9Da) | |||
|- | |||
| Human gDNA (400ng)||2.05128E-19||mol (400ng/1.9500E+12 g/mol) | |||
|- | |||
| Probe required (200:1)||4.10256E-17||mol (2.5641E-20 * 200) | |||
|- | |||
| Probe MW (73,574 probes, 110nt)||2.636E+09||g/mol (73,574 probes * (110nt * 325Da/nt + 79Da)) | |||
|- | |||
| Amount probe required||1.081E-07||g (2.051E-17mol * 2.636E+09g/mol) | |||
|- | |||
| Amount probe required||108||ng | |||
|- | |||
| |||| | |||
|- | |||
| CRC required (200:1)||1.50||ng | |||
|- | |||
| CRC required (500:1)||3.76||ng | |||
|- | |||
| CRC conc. ||13.2||ng/ul | |||
|} |
Revision as of 21:32, 10 December 2014
LMS + CRC BSPP capture on WGBS libraries prepared from ctDAN of CRC patient (Illumina)
Back to calendar
Continued from 2014-12-05
- Conditions:
- Probe set: MONOPD V5 set A (LMS) + CRC from Illumina
- Probe:target ratio: 200:1 for LMS probe set, 500:1 for CRC probe set from Illumina
- Sample: WGBS libraries prepared by KAPA Hyper Prep Kit (2014-12-05) amount 400ng
Probe calculation (Example)
Probe set Probe size Probe:target ratio LMS 73,574 200:1 CRC 1,024 500:1
Probe:target | 200:1 | ' |
Probe size | 73574 | |
Template | 400 | ng |
Human gDNA MW | 1.95E+12 | g/mol (3E+09 * 650Da/bp+157.9Da) |
Human gDNA (400ng) | 2.05128E-19 | mol (400ng/1.9500E+12 g/mol) |
Probe required (200:1) | 4.10256E-17 | mol (2.5641E-20 * 200) |
Probe MW (73,574 probes, 110nt) | 2.636E+09 | g/mol (73,574 probes * (110nt * 325Da/nt + 79Da)) |
Amount probe required | 1.081E-07 | g (2.051E-17mol * 2.636E+09g/mol) |
Amount probe required | 108 | ng |
CRC required (200:1) | 1.50 | ng |
CRC required (500:1) | 3.76 | ng |
CRC conc. | 13.2 | ng/ul |