PyroMark Q96 MD

Managing instrument methods for your PyroMark Q96 MD

The PyroMark Q96 MD dispenses the correct volume of enzyme mix, substrate mix, and nucleotides using variable pulse times and dispensing pressures. Settings for pulse times and dispensing pressure are specific for each lot of PyroMark Q96 dispensing tips (PyroMark Q96 HS Nucleotide Tips (NDT), PyroMark Q96 HS Reagent Tips (RDT), and PyroMark Q96 HS Capillary Tips (CDT)) and need to be updated in the PyroMark Q96 MD Software or in the PyroMark CpG Software under "Instrument Parameters".

Integrated Automated Solutions
Dispensing pressures and pulse time settings must be checked and, if necessary, updated every time a dispensing tip from a new lot number is used.

Managing instrument parameters in PyroMark Q96 MD Software

  • Click “Instrument” and then “Parameters” to reveal the list of installed instrument parameter files.
  • Right-click an existing instrument parameter file from the list and click “Duplicate”.
  • Enter a new file name. To easily identify the new instrument parameter file, name the file with the lot numbers of the dispensing tips to be used (e.g., “Instrument parameters 630088/450009” for NDTs and RDTs or “Instrument parameters 740001/450009” for CDTs and RDTs).
  • In the following tables, find the dispensing pressure and pulse time settings that correspond to the lot number printed on the label of the dispensing tips to be used.
  • Enter the dispensing pressures and pulse times in the corresponding fields of the “Instrument Parameters” dialog box.
  • Save the new instrument parameter file.
  • When creating a new Run Setup, select this new instrument parameter file (e.g., “Instrument parameters 630088/450009”) from the list of instrument parameter files.

Instrument parameter settings for different lots of PyroMark Q96 HS Nucleotide Tips (cat. no. 979103)

Lot number Nucleotide pressure (mbar)   Pulse time (ms)
630001 – 630087 650 10.4
630088 and higher 650 13.4
101801 and higher 650 13.4

Instrument parameter settings for different lots of PyroMark Q96 HS Capillary Tips (cat. no. 979104)
Lot number Nucleotide pressure (mbar) Pulse time (ms)
740001 – 625 4.0
1035519-0 625 4.0
1131380-0 625 4.0
1131441-0 625 4.0
1131747-0 625 4.0
1133495-0 625 4.0
1133831-0 625 4.0
1134388-0 625 4.0
1135298-0 625 4.0
1135496-0  625  4.0 
1135528-0 625 4.0
1231913-0  625  4.0 
1233781-0  625  4.0 
301218-10  625  4.0 
302118-10  625  4.0 
304539-10  625  4.0 
304954-10  625  4.0 
305199-10  625  4.0 
306094-10  625  4.0 
306898-10  625  4.0 
309059-10  625  4.0 
309615-10 625 4.0
Instrument parameter settings for different lots of PyroMark Q96 HS Reagent Tips (cat. no. 979102)
Reagent pressure (mbar) Pulse times (ms)
Lot number Enzyme Mix and Substrate Mix Enzyme Mix Substrate Mix
450001 – 450008 400 23.5 22
450009 – 4500099 400 30 27.5
1131146-0 400 30 27.5
1132585-0 400 30 27.5
1233958-0  400  30  27.5 
301355-10  400  30  27.5 
303846-10  400  30  27.7 
304951-10  400  30  27.5 
306194-10  400 30  27.5 
311503-10  400 30  27.5 
309097-10  400 30  27.5 
311767-10  400 30 27.5

Managing instrument parameters in PyroMa

Refer to the table below to determine the correct instrument parameter file for the exact combination of dispensing tips to be used. The lot number is printed on the label of the dispensing tips.

  • Access the list of downloadable instrument method files below or under the "Resources" at the PyroMark Q96 MD catalog page.
  • Click the instrument parameter file that corresponds to the combination of dispensing tips to be used.
  • Unzip the downloaded file and save the instrument parameter file to the operator computer:
    • If using PyroMark CpG SW Version 1.0.9 or lower, save the file to
      C:\Program Files\Biotage\Pyro Q-CpG 1.0.X\Instrument Parameters
      (Where "X" represents the installed version of PyroMark CpG Software)
    • If using PyroMark CpG SW Version 1.0.11 or higher, save the file to
      C:\Program Files\Qiagen\PyroMark CpG Software 1.0.11.14\Instrument parameters

    The downloaded file will now appear in the list of available instrument parameter files and can be selected when creating a new Run Setup.

Dispensing tips lot number Instrument
parameter file
NDT CDT RDT
630001 – 630087   450001 – 450008 Code 002 NDT
630001 – 630087   450009 – 4500099
1131146-0
1132585-0
1233958-0
301355-10
303846-10
304951-10 		Code 003 NDT
630088 –
101801 –		   450009 – 4500099
1131146-0
1132585-0
1233958-0
301355-10
303846-10
304951-10 		Code 004 NDT
  740001 – 450001 – 450008 Code 002 CDT
  740001 – 450009 – 4500099
1131146-0
1132585-0
1233958-0
301355-10
303846-10
304951-10 		Code 003 CDT
  1035519-0
1131380-0
1131441-0
1131747-0
1133495-0
1133831-0
1134388-0
1135298-0
1135496-0
1135528-0
1231913-0
1233781-0
301218-10
302118-10
304539-10
304954-10
305199-10
306094-10
306898-10
309059-10
309615-10  		 1131146-0
1132585-0
1233958-0
301355-10
303846-10
304951-10
306194-10
311503-10
309097-10
311767-10 		 Code 005 CDT