BisFirstExon: Difference between revisions

From ZhangLabWiki
Jump to navigation Jump to search
>Jbrubake
(New page: ===bisFirstExon (bis) Creation=== '''PCR''' 1x 48x Template 0.4ul 19.2ul 2x Kapa Master Mix 50ul 50ul ...)
 
>Jbrubake
Line 40: Line 40:
  -Spin at 14k rpm for 1:30
  -Spin at 14k rpm for 1:30
       -Toss Qiaquick column
       -Toss Qiaquick column
==Enzymatic Digestion==
'''DpnII Enzyme'''
For each 50ul sample, add:
-2ul DpnII (50U/ul) enzyme
-5ul DpnII 10x Buffer
-Incubate at 37C for 2hrs -> 4C hold
'''USER Enzyme'''
For each ~60ul sample, add:
-4ul USER enzyme
-Incubate at 37C for 2hrs -> 4C hold
*Run another Qiaquick purification
'''Nanodrop Readings'''
CES Tube 1: 169.3 ng/ul * 50ul = 8.5ug
CES Tube 2: 148.7 ng/ul * 50ul = 7.4ug

Revision as of 21:19, 6 November 2009

bisFirstExon (bis) Creation

PCR

                         1x               48x
Template               0.4ul           19.2ul 
2x Kapa Master Mix      50ul             50ul
H2O                     50ul             50ul
AP1V41U (100uM)        0.4ul            0.4ul
AP2V4 (100uM)          0.4ul            0.4ul
95C, 30sec -> (95C, 3sec ->  60C, 50sec -> plate read) x 25 -> 60C, 2min -> 15C hold
  • Note: Amplification stated at ~12 cycles

Ethanol Precipitation

Collected 24 reactions in a 16mL tube and added:
0.1x 3M NaOAc (240ul)
2.5x 100% EtOH (6mL)
8ul GlycoBlue
-> Allow to cool in -70C freezer for at least 20 minutes
-> Spin in 4C at 4k rpm for 20min
-> Remove all liquid
-> Suspend palette in 750ul 75% EtOH
      -> Move solution from 16mL tube to fresh 1.6mL tube
-> Spin in 4C at 10k rpm for 5min
-> Remove all liquid, allow palette to dry
-> Suspend palette in 100ul H2O

Qiaquick Purification

Per tube of oligo solution:
-Add 5x PB buffer
-Mix in 1.6mL tubes and transfer solution to Qiaquick columns
-Spin at 14k rpm for 1min
      -Toss supernatant
-Add 750ul PE buffer to column
-Spin at 14k rpm for 1min
      -Toss supernatant
-Spin again, toss collection tube
-Transfer column to fresh 1.6mL tube
-Elute with 50ul H2O per column
-Spin at 14k rpm for 1:30
      -Toss Qiaquick column

Enzymatic Digestion

DpnII Enzyme

For each 50ul sample, add:
-2ul DpnII (50U/ul) enzyme
-5ul DpnII 10x Buffer
-Incubate at 37C for 2hrs -> 4C hold

USER Enzyme

For each ~60ul sample, add:
-4ul USER enzyme
-Incubate at 37C for 2hrs -> 4C hold
  • Run another Qiaquick purification

Nanodrop Readings

CES Tube 1: 169.3 ng/ul * 50ul = 8.5ug
CES Tube 2: 148.7 ng/ul * 50ul = 7.4ug