How to set Dual AJS ESI and TOF Parameters for non-target measurements?

LC-TOFMS dual-ajs-esi 6230B 

I am looking forward to analyze water samples using LC-TOFMS in non-targeted manner. I am using Agilent 6230B LC-TOFMS system with Dual AJS ESI. (TOF Firmware: 17.723, LC/MS Data Acquisition Version B.09.00 Build 9.0.9044.0)

 

In method editor there are many parameters in Source, Acquisition and Ref Mass tab, where I do not know how to choose the most suitable value. In help file there is some information what these parameters mean but still having hard time to choose the values. Is there a documentation which explains the parameters and how to set the values? There are some screenshots where you can see the parameters. My flow rate will be between 0.200 - 0.300 mL/min.

 

Thank you for your help in advance

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  • In terms of reference mass- you need to know first if you will be running in positive or negative ion mode and what your intended mass range is going to be.  I would assume small molecules meaning you will collect from around 100 to 1000 m/z.  In this case, a good choice would be to use purine and HP-0921 in your reference mix (bottle A).  You will need to make sure your bottle A is filled with this reference solution that can be purchased as a kit with ampoules.  In positive ion mode purine will make the 121.0508 ion and HP-0921 will make the 922.0098 ion.  If you intend to work in negative ion mode, you can also use these two compounds for reference and purine will form a M-H species however you will need to form a formate or acetate ion of HP-0921 in negative ion mode (many mobile phases will have either formic acid or acetate in it to help you form this ion with no need to add anything additional into the reference bottle).  Also, the help menu in masshunter acquisition has good information on reference solutions (search for reference mix in the help).

     

    For your source parameters, you may want to set these fairly generic as you are not necessarily targeted in your analysis.  Many people have developed a set of parameters that they like to start with so there will not necessarily be one correct answer to this and you may choose to refine these settings over time.  I like to start with a drying gas temperature of 325C, drying gas flow of 10L/min (do not lower this one too much as you can dirty your entrance capillary), nebulizer should be ok around 25-35 psig for your flow rate, sheath temperature of 275C, sheath flow of 12L/min, nozzle 1000V, capillary voltage of 3500-4500 (lower this around 500V if you run in negative ion mode) and fragmentor around 150V (this one needs to be increased as the mass of your unknowns in your sample increase- if you are analyzing less than 200Da I would lower this from my suggested starting point).  For your application, I would not change the skimmer or OCT RF from the default setting.  Try loading the default.m method to double check these defaults as I think the values you have them set to now are for older style ion optics (6210 and 6220 TOFs).

     

    For your acquisition parameters, you could chose to narrow your mass range to 100 to 1000 m/z which is more typical for small molecule analysis (remember not to cut off your reference mass around 922 though by going below it).  For the acquisition rate, consider what your typical chromatographic peak width would be.  I'm not sure the chromatography you will be using but most people will have peak widths around 6-12 seconds wide.  If you consider on the narrower side being 6 seconds, the acquisition rate of 2.5 spectra/sec will give you 15 points across your peak which is ideal. 

Reply
  • In terms of reference mass- you need to know first if you will be running in positive or negative ion mode and what your intended mass range is going to be.  I would assume small molecules meaning you will collect from around 100 to 1000 m/z.  In this case, a good choice would be to use purine and HP-0921 in your reference mix (bottle A).  You will need to make sure your bottle A is filled with this reference solution that can be purchased as a kit with ampoules.  In positive ion mode purine will make the 121.0508 ion and HP-0921 will make the 922.0098 ion.  If you intend to work in negative ion mode, you can also use these two compounds for reference and purine will form a M-H species however you will need to form a formate or acetate ion of HP-0921 in negative ion mode (many mobile phases will have either formic acid or acetate in it to help you form this ion with no need to add anything additional into the reference bottle).  Also, the help menu in masshunter acquisition has good information on reference solutions (search for reference mix in the help).

     

    For your source parameters, you may want to set these fairly generic as you are not necessarily targeted in your analysis.  Many people have developed a set of parameters that they like to start with so there will not necessarily be one correct answer to this and you may choose to refine these settings over time.  I like to start with a drying gas temperature of 325C, drying gas flow of 10L/min (do not lower this one too much as you can dirty your entrance capillary), nebulizer should be ok around 25-35 psig for your flow rate, sheath temperature of 275C, sheath flow of 12L/min, nozzle 1000V, capillary voltage of 3500-4500 (lower this around 500V if you run in negative ion mode) and fragmentor around 150V (this one needs to be increased as the mass of your unknowns in your sample increase- if you are analyzing less than 200Da I would lower this from my suggested starting point).  For your application, I would not change the skimmer or OCT RF from the default setting.  Try loading the default.m method to double check these defaults as I think the values you have them set to now are for older style ion optics (6210 and 6220 TOFs).

     

    For your acquisition parameters, you could chose to narrow your mass range to 100 to 1000 m/z which is more typical for small molecule analysis (remember not to cut off your reference mass around 922 though by going below it).  For the acquisition rate, consider what your typical chromatographic peak width would be.  I'm not sure the chromatography you will be using but most people will have peak widths around 6-12 seconds wide.  If you consider on the narrower side being 6 seconds, the acquisition rate of 2.5 spectra/sec will give you 15 points across your peak which is ideal. 

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