User:Tara K. Luckau/Notebook/Team ConGen/2012/03/27: Difference between revisions

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===PCR===
===PCR===
====SCOC MPY====
* Problem: marker ranges in yellow lane of SCOC Multiplex may be wider than currently set (particularly Scun11)
* Problem: marker ranges in yellow lane of SCOC Multiplex may be wider than currently set (particularly Scun11)
* Experiment: run Scun3, Scun11 and sar80 in uniplex on wide range of samples to establish marker ranges
* Experiment: run Scun3, Scun11 and sar80 in uniplex on wide range of samples to establish marker ranges
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====SCOC MPG====
* Problem: Scun19 showing up low intensity
* Problem: Scun19 showing up low intensity
* Experiment: decrease tall Scun15, increase short Scun19 to even out peak heights
* Experiment: decrease tall Scun15, increase short Scun19 to even out peak heights
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====SCPC MPG + sar80====
* Problem: sar80 seems to want to be run in uniplex because it doesn't play well with others in the sandbox
* Problem: sar80 seems to want to be run in uniplex because it doesn't play well with others in the sandbox
* Experiment: try to stick sar80 primers into MPG (same buffer and annealing temperature as MPY) to prevent having to run sar80 in uniplex always
* Experiment: try to stick sar80 primers into MPG (same buffer and annealing temperature as MPY) to prevent having to run sar80 in uniplex always

Revision as of 12:27, 27 March 2012

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SCOC Multiplex Optimization

PCR

SCOC MPY

  • Problem: marker ranges in yellow lane of SCOC Multiplex may be wider than currently set (particularly Scun11)
  • Experiment: run Scun3, Scun11 and sar80 in uniplex on wide range of samples to establish marker ranges


SCOC MPG

  • Problem: Scun19 showing up low intensity
  • Experiment: decrease tall Scun15, increase short Scun19 to even out peak heights


SCPC MPG + sar80

  • Problem: sar80 seems to want to be run in uniplex because it doesn't play well with others in the sandbox
  • Experiment: try to stick sar80 primers into MPG (same buffer and annealing temperature as MPY) to prevent having to run sar80 in uniplex always


CNHY Multiplex Optimization

PCR

  • start trying to group markers together into multiplexes
  • start with same volume of each primer (can modify primer volumes based on results of this PCR)


CNHY MPA

  • Ai5033, Ai5057, Ai5037, Acos5, Ai5035, Ai5062


CNHY MPB

  • Ai5043, Acos3, Ai5013, Ai5071





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