Klapperich Lab:Notebook/Lab Meeting Notes/2010/02/04: Difference between revisions
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† HDA (Lead: Jaephil, Team:Sonali)<br> | † HDA (Lead: Jaephil, Team:Sonali)<br> | ||
* Start planning R01 for Submission on '''6/5/10.''' MM, JD, CMK. <br> | * Start planning R01 for Submission on '''6/5/10.''' MM, JD, CMK. <br> | ||
* | * HDA mix in dried form - Cathie found it<br> | ||
*HDA at | * LOD tests HDA in a cup - barely amplified at 3pg/mL<br> | ||
*HDA negative water reactions all have primer dimers/non-specific band at 70bp for c diff HDA | * HDA negative water reactions all have primer dimers/non-specific band at 70bp for c diff HDA (MM)<br> | ||
* 2nd HDA design - "microSPE" + "Flu primer" + "HDA in a cup" + "Detection kit from Biohelix"<br> | |||
* 2nd HDA design - | |||
† Sample Concentration (Lead: Jane, Team: Jaephil) <br> | † Sample Concentration (Lead: Jane, Team: Jaephil) <br> | ||
* New design transfer to COP | * New design transfer to COP | ||
* Set up COMSOL and StarCD, look for governing equations for simulation of evaporation | * Air resistance in the air channel is too large, redesign channel to reduce air resistance: now testing with cutter plotter | ||
* Leakage through the air channel from the fluid channel: now moving air pots farther from fluid channel | |||
* Set up COMSOL and StarCD, look for governing equations for simulation of evaporation: registered for COMSOL course Feb 25 <br> | |||
† SPE Column Optimization for DNA/RNA. (Lead: Sonali, Team: Hussam, Jessie, Brendan) <br> | † SPE Column Optimization for DNA/RNA. (Lead: Sonali, Team: Hussam, Jessie, Brendan) <br> | ||
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* Hussam Runs chip with RNA (confirm procedure is correct) [update]<br> | * Hussam Runs chip with RNA (confirm procedure is correct) [update]<br> | ||
* Jessie will run chips with serial virus dilutions from 1:1 to 1:1,000,000 to re-do previous dilution experimnent with WHO SYBR green assay on chip.<br> | * Jessie will run chips with serial virus dilutions from 1:1 to 1:1,000,000 to re-do previous dilution experimnent with WHO SYBR green assay on chip.<br> | ||
* Jessie will test 2mm wide channels with 4uL SPE with Black Beauty for efficiency. <br> | |||
* Sonali will assay BIDMC virus sample with newest protocol with 0.7uM Silica and compare with Qiagen RNA extraction with CDC PCR assay <br> | * Sonali will assay BIDMC virus sample with newest protocol with 0.7uM Silica and compare with Qiagen RNA extraction with CDC PCR assay <br> | ||
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'''‡ Coulter Flu Fraunhofer Project (Lead: Sonali, Team: Sonali, Jessie, Cathie, CMI Folks, Qingqing)''' | '''‡ Coulter Flu Fraunhofer Project (Lead: Sonali, Team: Sonali, Jessie, Cathie, CMI Folks, Qingqing)''' | ||
* New meeting time, T, 9:30 am every other week. <br> | * New meeting time, T, 9:30 am every other week. <br> | ||
* Will be done by next Tuesday - PCR with 3 different kits of same serial dilution RNA sample (Invitrogen - SuperscriptIII Platinum, Ambion - AgPath-ID, Qiagen - OneStep RT-PCR Kit)<br> | |||
<br> | <br> | ||
'''‡ Agilent Automated Sample Preparation (Lead: Alex)'''<br> | '''‡ Agilent Automated Sample Preparation (Lead: Alex)'''<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>''' | ||
* Evap paper - Additional experiment for Fig 3. <br> | |||
* Evap paper - | |||
<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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'''‡ PATH Grant (Lead:Cathie, Team:Frank, Sean, Mark, Jake Trueb (ME))''' <br> | '''‡ PATH Grant (Lead:Cathie, Team:Frank, Sean, Mark, Jake Trueb (ME))''' <br> | ||
* Submitted Gantt Document to PATH 11/25. <br> | * Submitted Gantt Document to PATH 11/25. <br> | ||
* Frank: 1-week | * Frank: Repeating 1-week stabilized extractions today (4 Feb).<br> | ||
* Sean: Started making straws for the new experiments we talked about (DNA weights of 1ng, 10ng, and 100ng through 700nm at SPE 100 monolith at 0-day time point). Have contacted the physics department shop floor to check the progress of the Blackbird pieces I ordered on Monday. <br> | * Sean: Started making straws for the new experiments we talked about (DNA weights of 1ng, 10ng, and 100ng through 700nm at SPE 100 monolith at 0-day time point). Have contacted the physics department shop floor to check the progress of the Blackbird pieces I ordered on Monday. <br> | ||
* Mark: as of 4 Feb. has loaded 6 and 4 month trials with 10ng/straw. Results of the 1ng/straw 0-day trial inconclusive, redo possible. Sticking with 10ng/straw for remaining tests. Loaded 2 month trial on Tuesday. Will load shorter time periods next week (i.e. 3-day, 1 week). Straw fabrication ongoing.<br> | * Mark: as of 4 Feb. has loaded 6 and 4 month trials with 10ng/straw. Results of the 1ng/straw 0-day trial inconclusive, redo possible. Sticking with 10ng/straw for remaining tests. Loaded 2 month trial on Tuesday. Will load shorter time periods next week (i.e. 3-day, 1 week). Straw fabrication ongoing.<br> | ||
<br> | <br> | ||
'''‡ IIH Senior Project.'''<br> | '''‡ IIH Senior Project.'''<br> | ||
* | * ELISA kits have been delivered | ||
* | * Protocol written for using cutter plotter. Will post to share drive | ||
** | * Made "test" chips from 100 micron COP but cuts are sloppy | ||
** | ** Will change settings on cutter to clean up cuts | ||
* | *** First thought is to slow down speed | ||
* | * Started acquiring images of the 100 micron "test" chips | ||
Revision as of 12:28, 4 February 2010
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4 February 2010 Lab MeetingQingqing Prospectus Practice Presentation. ‡ Announcements
† HDA (Lead: Jaephil, Team:Sonali)
† Sample Concentration (Lead: Jane, Team: Jaephil)
† SPE Column Optimization for DNA/RNA. (Lead: Sonali, Team: Hussam, Jessie, Brendan)
† integrated chip for flu(SPE+RT+PCR) (Lead: Qingqing)
† PCR of C.Difficile DNA (Qingqing)
-wrong size products(55bp). -no designed size product.
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