Alice:LabNotes/2010-1-21: Difference between revisions
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*previously captured libraries on CViB and PGP7 sets | *previously captured libraries on CViB and PGP7 sets | ||
*the protocol used for the previous steps can be found under labnotes 12-18-09 and 1-5-10 (for CViB sets) and 8-31-09 (for PGP7) | *the protocol used for the previous steps can be found under labnotes 12-18-09 and 1-5-10 (for CViB sets) and 8-31-09 (for PGP7) | ||
*for PGP7, capture products with Jan06 and Jan07 probes were disregarded | *for PGP7, capture products with Jan06 and Jan07 probes were disregarded | ||
PGP7 1 2 3 | |||
concnetration(ng/ul): 4.4ng/ul 4.5ng/ul 2.9ng/ul | |||
volume needed (ul): 5ul 2.4ul 5.5ul | |||
-------------------------------------------------------------------------- | |||
total (ng): 22ng 11ng 16ng | |||
PCR | PCR |
Revision as of 22:05, 21 January 2010
MmeI digestion on CViB sequencing libraries
- Previous library construction protocol can be found under labnotes 1-9-10
- size selection protocol can found under labnotes 1-15-10
setup: DNA(15nM) 10ul 10x buffer 4 2ul 1mM SAM 2ul MmeI(2U/ul) 2ul 37C 1hr, 80C 20min
RE-amplify CViB sets for Covaris shearing
- previously captured libraries on CViB and PGP7 sets
- the protocol used for the previous steps can be found under labnotes 12-18-09 and 1-5-10 (for CViB sets) and 8-31-09 (for PGP7)
- for PGP7, capture products with Jan06 and Jan07 probes were disregarded
PGP7 1 2 3 concnetration(ng/ul): 4.4ng/ul 4.5ng/ul 2.9ng/ul volume needed (ul): 5ul 2.4ul 5.5ul -------------------------------------------------------------------------- total (ng): 22ng 11ng 16ng
PCR Template: 0.25ul 2x Phusion master mix: 50ul 100uM AmpF6.3NH2 0.2ul 100uM AmpR6.3NH2 0.2ul 50X SYBG I: 0.4ul H2O 50ul 98C 30sec -> (98C 10sec -> 58C 20sec -> 72C 20sec) x 6 -> 72C 3min -> 4C hold.