Klapperich Lab:Notebook/Lab Meeting Notes/2009/10/27: Difference between revisions
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* Dr. Shichu Huang from Auburn talking on 11/10. ''Need folks to have lunch with her at 12pm and also for lab tours and chatting at 4-5pm.''<br> | * Dr. Shichu Huang from Auburn talking on 11/10. ''Need folks to have lunch with her at 12pm and also for lab tours and chatting at 4-5pm.''<br> | ||
* Oakridge deadline is 1 Feb 2010. <br> | * Oakridge deadline is 1 Feb 2010. <br> | ||
* '''PAPERS Drafted before MicroTAS''' Are we done with this? <br> | * '''PAPERS Drafted before MicroTAS''' Are we done with this? 1st draft by Thur <br> | ||
* '''Posters for MicroTAS''' Can Jaephil take them all? <br> | * '''Posters for MicroTAS''' Can Jaephil take them all? Yes. Give me a tube <br> | ||
<br> | <br> | ||
'''‡ Flu R01:Integration''' <br> | '''‡ Flu R01:Integration''' <br> | ||
* New design - address evaporation loss, Reagent delivery and storage solution. Consider marginating flows? <br> | * New design - address evaporation loss, Reagent delivery and storage solution. Consider marginating flows? <br> | ||
* New design sent to make Rubber mold <br> | |||
<br> | <br> | ||
† Sample Concentration (Lead: Jane, Team: Jaephil) <br> | † Sample Concentration (Lead: Jane, Team: Jaephil) <br> | ||
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† SPE Column Optimization for RNA. (Lead: Sonali, Team: Hussam, Jessie, Brendan) <br> | † SPE Column Optimization for RNA. (Lead: Sonali, Team: Hussam, Jessie, Brendan) <br> | ||
* | *Video with two color dyes and [red(primer) then blue, green, water+tween] | ||
*repeat experiment reported on 10/27 with 700nm Silica 3X. | |||
* controls for these: empties, non-silica monolith and full silica monolith, std. recipe. <br> | * controls for these: empties, non-silica monolith and full silica monolith, std. recipe. <br> | ||
* Load DNA in a straw of 5,50,100ul SPE, quick test of hypothesis: more SPE = more DNA, <i>To be repeated with Alex and Mark </i> <br> | * Load DNA in a straw of 5,50,100ul SPE, quick test of hypothesis: more SPE = more DNA, <i>To be repeated with Alex and Mark </i> <br> | ||
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* New virus prep (JC, 6/11/09), getting Ct's of 27 for 1:16 dilution and 28 for 1:64 dilution. Use more diluted sample for future optimization experiments? Channels were 700nm silica/1X. pfu/ml is 10^6. <br> | * New virus prep (JC, 6/11/09), getting Ct's of 27 for 1:16 dilution and 28 for 1:64 dilution. Use more diluted sample for future optimization experiments? Channels were 700nm silica/1X. pfu/ml is 10^6. <br> | ||
* Tried 2 more chips with 3X 0.15um Silica. Chips are breaking b/c of no crosslinking. SPE was coming out even at 2ml/hr flow rate.<br> | * Tried 2 more chips with 3X 0.15um Silica. Chips are breaking b/c of no crosslinking. SPE was coming out even at 2ml/hr flow rate.<br> | ||
* Running no silica and no SPE chips with virus. (JC/RNA)<br> | * Running no silica and no SPE chips with virus. (JC/RNA) - No Silica channels grab comparable amounts of RNA with the channels with silica, lower with no SPE.<br> | ||
* PCR is running on the samples from the new channel design. Will compare results with Hussam after the meeting and report back if significantly different.<br> | |||
<br> | <br> | ||
† PCR - CMI (Lead: Qingqing) <br> | † PCR - CMI (Lead: Qingqing) <br> | ||
* QQ will work on the initial integration steps of SPE + RT (reservoir)+ PCR. <br> | * QQ will work on the initial integration steps of SPE + RT (reservoir)+ PCR. <br> | ||
* new design has been tested <br> | |||
It solved some problems, however bubbles were still created at the <br> high-temperature section at slow flow rate. And they grow up to big <br> bubbles and did not move along the channel, which affect the moving of <br> reagent. | |||
- some new method will be tested this week to solve this problem. | |||
* PCR of C.Difficile DNA | * PCR of C.Difficile DNA | ||
- primer for toxin A. | - primer for toxin A. | ||
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b.700nM had a ct value of 27.A small peak (0.63ng/ul) was detected on bio-analyzer | b.700nM had a ct value of 27.A small peak (0.63ng/ul) was detected on bio-analyzer | ||
- DNA template dilution experiments has been done. | - DNA template dilution experiments has been done. | ||
- Primer for toxin B did not work on real-time machine. No result was detected by bio-analyzer. | - Primer for toxin B did not work on real-time machine. No result was<br> detected by bio-analyzer. | ||
* PCR2 Paper formatted for LOAC this week. <br> | * PCR2 Paper formatted for LOAC this week. <br> | ||
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† HDA (Lead: Jaephil, Team:Sonali)<br> | † HDA (Lead: Jaephil, Team:Sonali)<br> | ||
* Start planning R01 for Submission on 2/5/10. MM, JD, CMK. <br> | * Start planning R01 for Submission on 2/5/10. MM, JD, CMK. <br> | ||
* | * HDA chip fabrication training will be after new process settled (comeback from mTAS). <br> | ||
* Two methods, Hot embossing and cutter plotting will be combined to reduce whole process time. New mold design sent. <br> | |||
* Paper submitted 10/6. <br> | * Paper submitted 10/6. <br> | ||
<br> | <br> | ||
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'''‡ COBRA (Lead: Jaephil, Team: Cathie, Jane for virus only, PHO folks)<br>''' | '''‡ COBRA (Lead: Jaephil, Team: Cathie, Jane for virus only, PHO folks)<br>''' | ||
* Metal piece modification for the integration - | * Metal piece modification for the integration - Fix did not turned out good. Make new or try fix again?<br> | ||
* paper 1: Evap with Sol Gel substrate. Not integrated. MSSA, E coli. <br> | * paper 1, 1st draft by Thu(10.29): Evap with Sol Gel substrate. Not integrated. MSSA, E coli. <br> | ||
<br> | <br> | ||
'''‡ Biointerfaces group (Lead: MinCheol, Team: Cathie, MCK, Wong and Meller folks)'''<br> | '''‡ Biointerfaces group (Lead: MinCheol, Team: Cathie, MCK, Wong and Meller folks)'''<br> | ||
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* Frank contacted Biomatrica (RNAstable) last Thursday via phone and email; has not heard anything back yet. <br> | * Frank contacted Biomatrica (RNAstable) last Thursday via phone and email; has not heard anything back yet. <br> | ||
* Sean is currently working on designing a straw-holding piece for the new fixture in 709. <br> | * Sean is currently working on designing a straw-holding piece for the new fixture in 709. <br> | ||
* Sean met with Alex for an | * Sean met with Alex for an integration of straws on black machine. They sketched a design. Sean will make a professional drawing and create a required parts list. Alex will supervise the design. Before handing in the job to the shop floor, the design will be presented to Cathie. <br> | ||
Revision as of 12:40, 27 October 2009
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27 October 2009 Lab Meeting
† SPE Column Optimization for RNA. (Lead: Sonali, Team: Hussam, Jessie, Brendan)
* new design has been tested
- primer for toxin A. a.300nM did not amplify on real-time machine.nothing was detected by bio-analyzer b.700nM had a ct value of 27.A small peak (0.63ng/ul) was detected on bio-analyzer - DNA template dilution experiments has been done. - Primer for toxin B did not work on real-time machine. No result was
need to get back from Cathie
‡ COBRA (Lead: Jaephil, Team: Cathie, Jane for virus only, PHO folks)
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