Roche MagNA Pure 96 v1.1

Overview

The Roche MagNA Pure 96 CDC COVID-19 RT-PCR is part of the CDC COVID-19 RT-PCR protocols that include the following functionality.

• Preconfigured CDC COVID-19 RT-PCR protocols that support the preparation of upper and lower respiratory specimens for real-time RT-PCR qualitative detection of nucleic acid from the 2019-nCoV.
• Automated calculation of sample and buffer volumes.
• Automated calculation or display of reagents at every step in the protocol.
• Automatic step transition when required.
• Automatic placement of samples when necessary.
• Automated assignment of QC Pass/Fail, based on user-selected threshold values.

Protocol 1: Roche MagNa Pure 96 (CDC COVID-19 RT-PCR v1.1)

Protocol Type = Sample Prep

Next Steps Configuration

Step 1: Sort Roche MagNA Pure 96 (CDC COVID-19 RT-PCR v1.1)

• Master Step Name = Sort Roche MagNA Pure 96 (CDC COVID-19 RT-PCR v1.1)
• Step Type = No Outputs

Automations

Set Next Step - Roche MagNA Pure 96

• Trigger Location = Record Details
• Trigger Style = Automatic upon exit

ℹ The version of the step name for nextStep may be different depending on the version of IPP installed.

Queue/Ice Bucket

• Defaults

  • Sample Grouping = Group by Containers
  • Well Sort Order = Row
• Sample Table (Column Headers)

  Category	Field Name	Field Type	Options	Additional Options and Dropdown Items
  Container	Container Name	Built-in
  Container	LIMS ID (Container)	Built-in
  Container	Well	Built-in
  Derived Sample	Sample Name	Built-in
  Derived Sample	Waiting	Built-in
  Project	Project Name	Built-in

Record Details

• Step File Placeholders

  • Log - Automatically attached
• Sample Table

  • Sample Display Default = Expand
  • Well Sort Order = Row
  • Table Columns - Global Fields

    Category	Field Name	Field Type	Options	Additional Options and Dropdown Items
    Derived Sample	MagNA Pure 96 Sample Type	Text Dropdown	Required Field	Presets Whole blood Plasma Serum Bacteria Stool Swabs Cultured Cells Fresh-frozen Tissue FFPE
    Derived Sample	Sample Name	Built-in

Step 2: Lysates (CDC COVID-19 RT-PCR v1.1)

• Master Step Name = Lysates (CDC COVID-19 RT-PCR v1.1)
• Step Type = Standard
• Derived Sample Generation = Fixed, 1
• Naming Convention = {InputItemName}
• Reagent Kits

  • MagNA Pure 96 External Lysis Buffer

    • Catalog Number = 06374913001

Automations

Calculate Lysed Sample (uL)

• Trigger Location = Record Details
• Trigger Style = Manual button

Set Next Step - Purification MagNa Pure 96

• Trigger Location = Record Details
• Trigger Style = Automatic upon exit

ℹ The version of the step name for nextStep may be different depending on the version of IPP installed.

Queue/Ice Bucket

• Defaults

  • Sample Grouping = Group by Containers
  • Well Sort Order = Row
• Sample Table (Column Headers)

  Category	Field Name	Field Type	Options	Additional Options and Dropdown Items
  Container	Container Name	Built-in
  Container	LIMS ID (Container)	Built-in
  Container	Well	Built-in
  Derived Sample	Sample Name	Built-in
  Derived Sample	Waiting	Built-in
  Project	Project Name	Built-in

Placement = Enabled

• Defaults

  • Sample Grouping = Group by Containers
  • Well Sort Order = Row
  • Placement Pattern = Row
• Destination Containers

  • Tube
  • 96 well plate

Record Details

• Step File Placeholders

  • Log - Automatically attached
• Sample Table

  • Sample Display Default = Expand
  • Well Sort Order = Row
  • Table Columns - Global Fields

    Category	Field Name	Field Type	Options	Additional Options and Dropdown Items
    Derived Sample	External Lysis Buffer (uL)	Numeric		Default = 200
    Derived Sample	Lysed Sample (uL)	Numeric
    Derived Sample	Sample Name	Built-in
    Derived Sample	Starting Sample Volume (uL)	Numeric Dropdown	Required Field Custom Entries	Presets 50 100 200

Step 3: Lysis Protocol using MagNA Pure 96 Bacterial Lysis Buffer (BLB) (CDC COVID-19 RT-PCR v1.1)

• Master Step Name = Lysis Protocol using MagNA Pure 96 Bacterial Lysis Buffer (BLB) (CDC COVID-19 RT-PCR v1.1)
• Step Type = Standard
• Derived Sample Generation = Fixed, 1
• Naming Convention = {InputItemName}
• Reagent Kits

  • MagNA Pure 96 Bacterial Lysis Buffer

    • Catalog Number = 06374921001
  • PBS
  • Proteinase K

    • Catalog Number = 03 115 828 001

Automations

Set Next Step - Purification MagNa Pure 96

• Trigger Location = Record Details
• Trigger Style = Automatic upon exit

ℹ The version of the step name for nextStep may be different depending on the version of IPP installed.

Queue/Ice Bucket

• Defaults

  • Sample Grouping = Group by Containers
  • Well Sort Order = Row
• Sample Table (Column Headers)

  Category	Field Name	Field Type	Options	Additional Options and Dropdown Items
  Container	Container Name	Built-in
  Container	LIMS ID (Container)	Built-in
  Container	Well	Built-in
  Derived Sample	Sample Name	Built-in
  Derived Sample	Waiting	Built-in
  Project	Project Name	Built-in

Placement = Enabled

• Defaults

  • Sample Grouping = Group by Containers
  • Well Sort Order = Row
  • Placement Pattern = Row
• Destination Containers

  • Tube
  • 96 well plate

Record Details

• Step File Placeholders

  • Log - Automatically attached
• Sample Table

  • Sample Display Default = Expand
  • Well Sort Order = Row
  • Table Columns - Global Fields

    Category	Field Name	Field Type	Options	Additional Options and Dropdown Items
    Container	Container Name	Built-in
    Container	LIMS ID (Container)	Built-in
    Container	Well	Built-in
    Derived Sample	Sample Name	Built-in
    Project	Project Name	Built-in

Step 4: Pretreatment of Stool Samples (CDC COVID-19 RT-PCR v1.1)

• Master Step Name = Pretreatment of Stool Samples (CDC COVID-19 RT-PCR v1.1)
• Step Type = Standard
• Derived Sample Generation = Fixed, 1
• Naming Convention = {InputItemName}
• Reagent Kits

  • MagNA Pure 96 Bacterial Lysis Buffer

    • Catalog Number = 06374921001
  • Proteinase K

    • Catalog Number = 03 115 828 001

Automations

Set Next Step - Purification MagNa Pure 96

• Trigger Location = Record Details
• Trigger Style = Automatic upon exit

ℹ The version of the step name for nextStep may be different depending on the version of IPP installed.

Queue/Ice Bucket

• Defaults

  • Sample Grouping = Group by Containers
  • Well Sort Order = Row
• Sample Table (Column Headers)

  Category	Field Name	Field Type	Options	Additional Options and Dropdown Items
  Container	Container Name	Built-in
  Container	LIMS ID (Container)	Built-in
  Container	Well	Built-in
  Derived Sample	Sample Name	Built-in
  Derived Sample	Waiting	Built-in
  Project	Project Name	Built-in

Record Details

• Sample Table

  • Sample Display Default = Collapse
  • Well Sort Order = Row
  • Table Columns - Global Fields

    Category	Field Name	Field Type	Options	Additional Options and Dropdown Items
    Container	Container Name	Built-in
    Container	LIMS ID (Container)	Built-in
    Container	Well	Built-in
    Derived Sample	Sample Name	Built-in
    Project	Project Name	Built-in

Step 5: Pretreatment of Swabs (CDC COVID-19 RT-PCR v1.1)

• Master Step Name = Pretreatment of Swabs (CDC COVID-19 RT-PCR v1.1)
• Step Type = Standard
• Derived Sample Generation = Fixed, 1
• Naming Convention = {InputItemName}
• Reagent Kits

  • MagNA Pure 96 Bacterial Lysis Buffer

    • Catalog Number = 06374921001
  • PBS
  • Proteinase K

    • Catalog Number = 03 115 828 001

Automations

Set Next Step - Purification MagNa Pure 96

• Trigger Location = Record Details
• Trigger Style = Automatic upon exit

ℹ The version of the step name for nextStep may be different depending on the version of IPP installed.

Queue/Ice Bucket

• Defaults

  • Sample Grouping = Group by Containers
  • Well Sort Order = Row
• Sample Table (Column Headers)

  Category	Field Name	Field Type	Options	Additional Options and Dropdown Items
  Container	Container Name	Built-in
  Container	LIMS ID (Container)	Built-in
  Container	Well	Built-in
  Derived Sample	Sample Name	Built-in
  Derived Sample	Waiting	Built-in
  Project	Project Name	Built-in

Placement = Enabled

• Defaults

  • Sample Grouping = Group by Containers
  • Well Sort Order = Row
  • Placement Pattern = Row
• Destination Containers

  • Tube
  • 96 well plate

Record Details

• Step Data (Master Step Fields)

  Field Name	Field Type	Options	Additional Options and Dropdown Items
  Directions	Multiline Text		Default = Suspend a dry swab in 200 l BLB; add 20 uL Proteinase K. For swabs in transport medium use 100 uL transport medium, add 100 uL BLB and 20 uL Proteinase K.

• Step File Placeholders

  • Log - Automatically attached
• Sample Table

  • Sample Display Default = Expand
  • Well Sort Order = Row
  • Table Columns - Global Fields

    Category	Field Name	Field Type	Options	Additional Options and Dropdown Items
    Container	Container Name	Built-in
    Container	LIMS ID (Container)	Built-in
    Container	Well	Built-in
    Derived Sample	Sample Name	Built-in
    Project	Project Name	Built-in

Step 6: Cultured Cells (CDC COVID-19 RT-PCR v1.1)

• Master Step Name = Cultured Cells (CDC COVID-19 RT-PCR v1.1)
• Step Type = Standard
• Derived Sample Generation = Fixed, 1
• Naming Convention = {InputItemName}
• Reagent Kits

  • PBS

Automations

Set Next Step - Purification MagNa Pure 96

• Trigger Location = Record Details
• Trigger Style = Automatic upon exit

ℹ The version of the step name for nextStep may be different depending on the version of IPP installed.

Queue/Ice Bucket

• Defaults

  • Sample Grouping = Group by Containers
  • Well Sort Order = Row
• Sample Table (Column Headers)

  Category	Field Name	Field Type	Options	Additional Options and Dropdown Items
  Container	Container Name	Built-in
  Container	LIMS ID (Container)	Built-in
  Container	Well	Built-in
  Derived Sample	Sample Name	Built-in
  Derived Sample	Waiting	Built-in
  Project	Project Name	Built-in

Placement = Enabled

• Defaults

  • Sample Grouping = Group by Containers
  • Well Sort Order = Row
  • Placement Pattern = Row
• Destination Containers

  • Tube
  • 96 well plate

Record Details

• Step File Placeholders

  • Log - Automatically attached
• Sample Table

  • Sample Display Default = Expand
  • Well Sort Order = Row
  • Table Columns - Global Fields

    Category	Field Name	Field Type	Options	Additional Options and Dropdown Items
    Container	Container Name	Built-in
    Container	LIMS ID (Container)	Built-in
    Container	Well	Built-in
    Derived Sample	Sample Name	Built-in
    Project	Project Name	Built-in

Step 7: Fresh-frozen Tissue Sorting (CDC COVID-19 RT-PCR v1.1)

• Master Step Name = Fresh-frozen Tissue Sorting (CDC COVID-19 RT-PCR v1.1)
• Step Type = No Outputs

Automations

Set Next Step - Fresh-frozen Tissue

• Trigger Location = Record Details
• Trigger Style = Automatic upon exit

ℹ The version of the step names for nextStep may be different depending on the version of IPP installed.

Queue/Ice Bucket

• Defaults

  • Sample Grouping = Group by Containers
  • Well Sort Order = Row
• Sample Table (Column Headers)

  Category	Field Name	Field Type	Options	Additional Options and Dropdown Items
  Container	Container Name	Built-in
  Container	LIMS ID (Container)	Built-in
  Container	Well	Built-in
  Derived Sample	Sample Name	Built-in
  Derived Sample	Waiting	Built-in
  Project	Project Name	Built-in

Record Details

• Step File Placeholders

  • Log - Automatically attached
• Sample Table

  • Sample Display Default = Expand
  • Well Sort Order = Row
  • Table Columns - Global Fields

    Category	Field Name	Field Type	Options	Additional Options and Dropdown Items
    Derived Sample	Homogenization Protocol	Text Dropdown	Required Field	Presets Proteinase K Digestion MagNA Lyser Instrument
    Derived Sample	Sample Name	Built-in

Step 8: Tissue Homogenization by Proteinase K Digestion (CDC COVID-19 RT-PCR v1.1)

• Master Step Name = Tissue Homogenization by Proteinase K Digestion (CDC COVID-19 RT-PCR v1.1)
• Step Type = Standard
• Derived Sample Generation = Fixed, 1
• Naming Convention = {InputItemName}
• Reagent Kits

  • MagNa Pure 96 DNA Tissue Lysis Buffer

    • Catalog Number = 06640702001
  • Proteinase K

    • Catalog Number = 03 115 828 001

Automations

Set Next Step - Purification MagNa Pure 96

• Trigger Location = Record Details
• Trigger Style = Automatic upon exit

ℹ The version of the step name for nextStep may be different depending on the version of IPP installed.

Queue/Ice Bucket

• Defaults

  • Sample Grouping = Group by Containers
  • Well Sort Order = Row
• Sample Table (Column Headers)

  Category	Field Name	Field Type	Options	Additional Options and Dropdown Items
  Container	Container Name	Built-in
  Container	LIMS ID (Container)	Built-in
  Container	Well	Built-in
  Derived Sample	Sample Name	Built-in
  Derived Sample	Waiting	Built-in
  Project	Project Name	Built-in

Record Details

• Step File Placeholders

  • Log - Automatically attached
• Sample Table

  • Sample Display Default = Expand
  • Well Sort Order = Row
  • Table Columns - Global Fields

    Category	Field Name	Field Type	Options	Additional Options and Dropdown Items
    Container	Container Name	Built-in
    Container	LIMS ID (Container)	Built-in
    Container	Well	Built-in
    Derived Sample	Sample Name	Built-in
    Project	Project Name	Built-in

Step 9: Tissue Homogenization using MagNA Lyser Instrument (CDC COVID-19 RT-PCR v1.1)

• Master Step Name = Tissue Homogenization using MagNA Lyser Instrument (CDC COVID-19 RT-PCR v1.1)
• Step Type = Standard
• Derived Sample Generation = Fixed, 1
• Naming Convention = {InputItemName}
• Reagent Kits

  • MagNA Lyser Green Beads

    • Catalog Number = 03358941001
  • MagNa Pure 96 DNA Tissue Lysis Buffer

    • Catalog Number = 06640702001

Automations

Set Next Step - Purification MagNa Pure 96

• Trigger Location = Record Details
• Trigger Style = Automatic upon exit

ℹ The version of the step name for nextStep may be different depending on the version of IPP installed.

Queue/Ice Bucket

• Defaults

  • Sample Grouping = Group by Containers
  • Well Sort Order = Row
• Sample Table (Column Headers)

  Category	Field Name	Field Type	Options	Additional Options and Dropdown Items
  Container	Container Name	Built-in
  Container	LIMS ID (Container)	Built-in
  Container	Well	Built-in
  Derived Sample	Sample Name	Built-in
  Derived Sample	Waiting	Built-in