Klapperich Lab:Notebook/Lab Meeting Notes/2009/11/17: Difference between revisions
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'''‡ Announcements'''<br> | '''‡ Announcements'''<br> | ||
* Oakridge deadline is 1 Feb 2010. <br> | * Oakridge deadline is 1 Feb 2010. <br> | ||
* '''PAPERS Drafted before MicroTAS''' | * '''PAPERS Drafted before MicroTAS''' <br> | ||
<br> | <br> | ||
'''‡ Flu R01:Integration''' <br> | '''‡ Flu R01:Integration''' <br> | ||
* | * '''Set up new INTEGRATION MEETING for before 11/25.''' <br> | ||
* | |||
† HDA (Lead: Jaephil, Team:Sonali)<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.<br> | |||
* Dry reagent storage for RT and HDA <br> | |||
* Set-up meeting for 2nd HDA design - Target (Flu or Bacteria), include RT or not, Heat source, address evaporation loss, Reagent delivery and storage solution. Consider marginating flows and include RT? <br> | |||
* Paper resubmission. <br> | |||
<br> | <br> | ||
† Sample Concentration (Lead: Jane, Team: Jaephil) <br> | † Sample Concentration (Lead: Jane, Team: Jaephil) <br> | ||
* | * New design sent to make Rubber mold: outline octagon problem. Revised design sent yesterday. <br> | ||
<br> | |||
* Jane will train Cassidy once more on Wednesday and Thursday this week. <br> | |||
* | |||
** MM 040808 A/PR/8/34 flu stock with PFU = 2X10^4 available to Jane to train Cassidy in ultracentrifuging all tubes <br> | ** MM 040808 A/PR/8/34 flu stock with PFU = 2X10^4 available to Jane to train Cassidy in ultracentrifuging all tubes <br> | ||
** of virus, pour out sucrose,pipette remaining with 20uL pipette tip and pool for plaque assay for supplying virus <br> | ** of virus, pour out sucrose,pipette remaining with 20uL pipette tip and pool for plaque assay for supplying virus <br> | ||
* Jane working on the cell lysate control. | * Jane working on the cell lysate control. - have many tubes now, done <br> | ||
* Set up COMSOL and StarCD, look for governing equations for simulation of evaporation. - ongoing <br> | |||
<br> | |||
* Set up COMSOL and StarCD, look for governing equations for simulation of evaporation. <br> | |||
<br> | <br> | ||
† SPE Column Optimization for RNA. (Lead: Sonali, Team: Hussam, Jessie, Brendan) <br> | † SPE Column Optimization for RNA. (Lead: Sonali, Team: Hussam, Jessie, Brendan) <br> | ||
*pH the sample. Optimum 6.6. Make sure that we are there. <br> | |||
* Gold standard Qiagen Kit.?? <br> | |||
* silica nanoparticles from Fluka. <br> | |||
* Report Results today on 2 color dyes, best channel size for 1X 700 nm silica DNA, RNA and 3X 700 nm silica DNA, RNA <br> | * Report Results today on 2 color dyes, best channel size for 1X 700 nm silica DNA, RNA and 3X 700 nm silica DNA, RNA <br> | ||
* Did adhesive tape instead of bonding help with 3X chips? | * Did adhesive tape instead of bonding help with 3X chips? | ||
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† 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> | ||
- | - Fourth design was made and tested with PCR reagent(Flu assay).ATCC RNA from Jessie was used. | ||
- it works! | |||
- | - patient sample will be tested next. | ||
* PCR of C.Difficile DNA | * PCR of C.Difficile DNA | ||
- primer for toxin A. | - primer for toxin A. | ||
- on chip PCR with | - product size and concentration was verified by bio-analyzer. | ||
- | - on chip PCR was optimized with higher BSA concentration(0.02%).It did not work. | ||
- 40 cycle chip and 0.03% (BSA concentration) will be tested. | |||
- primer for toxin B. | |||
-Both two pairs of primers for toxin B works, with a ct value around 13. | |||
-on chip PCR has been done, the result has not been tested by bio-analyzer. | |||
* PCR2 Paper formatted for LOAC this week. <br> | * PCR2 Paper formatted for LOAC this week. <br> | ||
need to get back from Cathie | need to get back from Cathie | ||
* CMK: PCR 1 draft. Analytical Chem. MCK is running more simulations. <br> | * CMK: PCR 1 draft. Analytical Chem. MCK is running more simulations. <br> | ||
<br> | <br> | ||
'''‡C. diff Project''' (Cathie, Sonali, Satish Singh, Lisa J., His post doc )<br> | '''‡C. diff Project''' (Cathie, Sonali, Satish Singh, Lisa J., His post doc )<br> | ||
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'''‡ Agilent Automated Sample Preparation (Lead: Alex)'''<br> | '''‡ Agilent Automated Sample Preparation (Lead: Alex)'''<br> | ||
* So far tested on SNAP2: <br> | * So far tested on SNAP2: <br> | ||
B. subtilis gDNA <br> | ** B. subtilis gDNA <br> | ||
B. subtilis cells <br> | ** B. subtilis cells <br> | ||
* Planned tests SNAP2: <br> | * Planned tests SNAP2: <br> | ||
B. subtilis cells (higher concentrations) <br> | ** B. subtilis cells (higher concentrations) <br> | ||
MDCK gDNA <br> | ** MDCK gDNA <br> | ||
HotDog Sample <br> | ** HotDog Sample <br> | ||
*NANO-C: Straw making with two plugs in progress, first lysis test with B.Subtillis cells planned for this week.<br> | *NANO-C: Straw making with two plugs in progress, first lysis test with B.Subtillis cells planned for this week.<br> | ||
*PATH: straw holder for Blackbird is machined <br> | *PATH: straw holder for Blackbird is machined <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>''' | ||
* | * New metal piece design set.<br> | ||
* paper | * Evap paper 1st draft by the end of this week <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> |
Revision as of 14:18, 17 November 2009
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17 November 2009 Lab Meeting
‡ Announcements
† HDA (Lead: Jaephil, Team:Sonali)
† SPE Column Optimization for RNA. (Lead: Sonali, Team: Hussam, Jessie, Brendan)
- Fourth design was made and tested with PCR reagent(Flu assay).ATCC RNA from Jessie was used. - it works! - patient sample will be tested next.
- primer for toxin A. - product size and concentration was verified by bio-analyzer. - on chip PCR was optimized with higher BSA concentration(0.02%).It did not work. - 40 cycle chip and 0.03% (BSA concentration) will be tested. - primer for toxin B. -Both two pairs of primers for toxin B works, with a ct value around 13. -on chip PCR has been done, the result has not been tested by bio-analyzer.
need to get back from Cathie
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