Klapperich Lab:Notebook/Lab Meeting Notes/2009/09/08: Difference between revisions

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† Sample Concentration (Lead: Jane) <br>
† Sample Concentration (Lead: Jane) <br>
* Volume collection issues at this time. Where is the loss? <br>
* Volume collection issues at this time. Where is the loss? <br>
* '''Alexa Fluo-488 succinimidyl ester (Molecular Probes) stains the flu virus fluorescent. <br>
* Alexa Fluo-488 succinimidyl ester (Molecular Probes) stains the flu virus fluorescent. <br>
'''The current problem is not how to visualize virus right now, because the design is clearly not optimized for collecting all the samples at the outlet. The major loss is from sample handling instead of from non specific binding to the material. <br>'''
* The current problem is not how to visualize virus right now, because the design is clearly not optimized for collecting all the samples at the outlet. The major loss is from sample handling instead of from non specific binding to the material. <br>
<br>
<br>
† SPE Column Optimization for RNA. (Lead: Sonali) <br>
† SPE Column Optimization for RNA. (Lead: Sonali) <br>
Line 27: Line 27:
† PCR - CMI  (Lead: Qingqing) <br>
† PCR - CMI  (Lead: Qingqing) <br>
* QQ will work on the initial integration steps of SPE + RT (resevoir)+ PCR. <br>
* QQ will work on the initial integration steps of SPE + RT (resevoir)+ PCR. <br>
* CMK: PCR 2 paper draft. <br>
* CMK: PCR 1 draft. Analytical Chem. <br>
* on-chip PCR on a series of diluted lambda phage DNA. LOD for ABI is 10<sup>-9</sup>g/ul
  on-chip PCR have the same sensitivity.<br>
* With new syring and tubing, on-chip PCR for the patient sample does not have detectable amplified product. however, the postitive control on the thermal cycle works good. <br>
* New primers? <br>
* Double PCR on chip. <br>
<br>
<br>
† HDA (Lead: Jaephil)<br>
† HDA (Lead: Jaephil)<br>
<br>
*<br>


* <br>
* <br>
*
'''‡ 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)'''  
* Meeting time will have to move <br>
* Meeting time will have to move <br>
<br>
<br>
† Agilent Automated Sample Preparation
'''‡ Agilent Automated Sample Preparation (Lead: Alex)'''<br>
* With Straws in Parallel at this point. Speeding up the assay. <br>
* With Straws in Parallel at this point. Speeding up the assay. <br>
* Waiting for the machine. <br>
* Waiting for the machine. <br>
<br>
<br>
† COBRA <br>  
'''‡ COBRA (Lead: Jaephil, Team: Cathie, Jane for virus only, PHO folks)<br>'''
* Update on concentration of live bugs? MSSA? <br>
* Update on concentration of live bugs? MSSA? <br>
* Virus concentration (dialyzed against PBS, no SERS signal, dialyze against water now). <br>
* Virus concentration (dialyzed against PBS, no SERS signal, dialyze against water now). <br>
* paper 1: Evap with Sol Gel substrate.  Not integrated. MSSA, E coli. <br>
* paper 1: Evap with Sol Gel substrate.  Not integrated. MSSA, E coli. <br>
<br>
<br>
† Biointerfaces group <br>
'''‡ Biointerfaces group (Lead: MinCheol, Team: Cathie, MCK, Wong and Meller folks)'''<br>
* New fabrcation in process.  <br>
* New fabrcation in process.  <br>
* took SEM images of parallelized designs, will show them if possible in the meeting. <br>
* took SEM images of parallelized designs, will show them if possible in the meeting. <br>
Line 52: Line 56:
  * set up 2 week check in meeting with team. <br>
  * set up 2 week check in meeting with team. <br>
<br>
<br>
† CIMIT- Sepsis<br>
'''‡ CIMIT- Sepsis (Lead:Cathie, Team:TBA)'''<br>
* IRB approved. <br>
* IRB approved. <br>
* Cathie submitted the companion BU IRB form for exemption. <br>
* Cathie submitted the companion BU IRB form for exemption. <br>
<br>
<br>
† PCR (will get absorbed into the Flu agenda item at the top) <br>
† PCR (will get absorbed into the Flu agenda item at the top) <br>
* CMK: PCR 2 paper draft. <br>
 
* CMK: PCR 1 draft. Analytical Chem. <br>
'''* on-chip PCR on a series of diluted lambda phage DNA.'''
''' the detect limitation for ABI is 10<sup>-9</sup>g/ul
  on-chip PCR have the same sensitivity.'''
'''* With new syring and tubing, on-chip PCR for the patient sample does not have detectable amplified product. however, the postitive control on the thermal cycle works good.''' <br>
* New primers? <br>
* Double PCR on chip. <br>
<br>
<br>
† RCA/HDA<br>
† RCA/HDA<br>

Revision as of 11:07, 26 August 2009

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8 September 2009 Lab Meeting

  • Attending:
  • Missing:
  • Presentation: Cathie: Fill in the Blanks Document on FLU. Delegation of Tasks. Definition of "Tiger Teams."


‡ Announcements


‡ Flu R01:Integration
* Need to update IBC to include rDNA work.

† Sample Concentration (Lead: Jane)

  • Volume collection issues at this time. Where is the loss?
  • Alexa Fluo-488 succinimidyl ester (Molecular Probes) stains the flu virus fluorescent.
  • The current problem is not how to visualize virus right now, because the design is clearly not optimized for collecting all the samples at the outlet. The major loss is from sample handling instead of from non specific binding to the material.


† SPE Column Optimization for RNA. (Lead: Sonali)

  • RNA extraction troubleshooting. Do deinhibition of monolith components. Test those with the Ambion RNAse kit.


† PCR - CMI (Lead: Qingqing)

  • QQ will work on the initial integration steps of SPE + RT (resevoir)+ PCR.
  • CMK: PCR 2 paper draft.
  • CMK: PCR 1 draft. Analytical Chem.
  • on-chip PCR on a series of diluted lambda phage DNA. LOD for ABI is 10-9g/ul
 on-chip PCR have the same sensitivity.
  • With new syring and tubing, on-chip PCR for the patient sample does not have detectable amplified product. however, the postitive control on the thermal cycle works good.
  • New primers?
  • Double PCR on chip.


† HDA (Lead: Jaephil)


‡ Coulter Flu Fraunhofer Project (Lead: Sonali, Team: Sonali, Jessie, Cathie, CMI Folks, Qingqing)

  • Meeting time will have to move


‡ Agilent Automated Sample Preparation (Lead: Alex)

  • With Straws in Parallel at this point. Speeding up the assay.
  • Waiting for the machine.


‡ COBRA (Lead: Jaephil, Team: Cathie, Jane for virus only, PHO folks)

  • Update on concentration of live bugs? MSSA?
  • Virus concentration (dialyzed against PBS, no SERS signal, dialyze against water now).
  • paper 1: Evap with Sol Gel substrate. Not integrated. MSSA, E coli.


‡ Biointerfaces group (Lead: MinCheol, Team: Cathie, MCK, Wong and Meller folks)

  • New fabrcation in process.
  • took SEM images of parallelized designs, will show them if possible in the meeting.
  • Through SEM images, we found the smallest feature size is 1.2 um. 
* set up 2 week check in meeting with team.


‡ CIMIT- Sepsis (Lead:Cathie, Team:TBA)

  • IRB approved.
  • Cathie submitted the companion BU IRB form for exemption.


† PCR (will get absorbed into the Flu agenda item at the top)


† RCA/HDA

  • Start planning R01 for Submission on 2/5/10. MM, JD, CMK.
  • JD working on paper. Will deliver to MM this week.
  • Figures discussion.


  • PATH Grant
  • Frank J.
  • 12 mos, 24 mos. working prototypes of SNAP.


† Silica Optimization (Lambda): (get absorbed into the flu agenda item at top)

  • August-18-presentation [1]
  • Results Summary of Aug-18-09 [2]
  • Amorphous Chip results [3]



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