The Standard Workflow AmpliSeq for Illumina Cancer HotSpot Panel V2 is part of the AmpliSeq for Illumina Cancer HotSpot Panel V2 protocols that include the following functionality:
Preconfigured AmpliSeq for Illumina Cancer HotSpot Panel protocol that supports the preparation of up to 96 uniquely indexed libraries of genomic DNA using the AmpliSeq for Illumina workflow.
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 Type = Sample Prep
Next Steps Configuration
Master Step Name = Clean Up Library (AmpliSeq for Illumina v1.1)
Step Type = No Outputs
Reagent Kits
Agencourt AMPure XP Beads
Supplier = Thermo
Catalog Number = NC9959336; NC9933872
Defaults
Sample Grouping = Group by Containers
Well Sort Order = Row
Sample Table (Column Headers)
Step Data (Master Step Fields)
Step File Placeholders
Log - Automatically attached
Sample Table
Sample Display Default = Expand
Well Sort Order = Row
Table Columns - Global Fields
Master Step Name = Amplify Library (AmpliSeq for Illumina v1.1)
Step Type = No Outputs
Reagent Kits
Agencourt AMPure XP Beads
Supplier = Thermo
Catalog Number = NC9959336; NC9933872
Defaults
Sample Grouping = Group by Containers
Well Sort Order = Row
Sample Table (Column Headers)
Group of Defaults
Step Data
Group of Defaults = Standard Workflow
Master Step Fields
Step File Placeholders
Log - Automatically attached
Sample Table
Sample Display Default = Expand
Well Sort Order = Row
Table Columns - Global Fields
Master Step Name = Perform Second Clean Up (AmpliSeq for Illumina v1.1)
Step Type = Standard
Derived Sample Generation = Fixed, 1
Naming Convention = {InputItemName}
Reagent Kits
Agencourt AMPure XP Beads
Supplier = Thermo
Catalog Number = NC9959336; NC9933872
AmpliSeq Library PLUS for Illumina
Supplier = Illumina
Catalog Number = 24 - 20019101; 96 - 200191102; 384 - 200191103
Website = www.illumina.com
Defaults
Sample Grouping = Group by Containers
Well Sort Order = Row
Sample Table (Column Headers)
Step Data (Master Step Fields)
Step File Placeholders
Log - Automatically attached
Sample Table
Sample Display Default = Expand
Well Sort Order = Row
Table Columns - Global Fields
The Equalizer Workflow AmpliSeq for Illumina Cancer HotSpot Panel V2 is part of the AmpliSeq for Illumina Cancer HotSpot Panel V2 protocols that include the following functionality:
Preconfigured AmpliSeq for Illumina Cancer HotSpot Panel protocol that supports the preparation of up to 96 uniquely indexed libraries of genomic DNA using the AmpliSeq for Illumina workflow.
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 Type = Sample Prep
Next Steps Configuration
Master Step Name = Clean Up Library (AmpliSeq for Illumina v1.1)
Step Type = No Outputs
Reagent Kits
Agencourt AMPure XP Beads
Supplier = Thermo
Catalog Number = NC9959336; NC9933872
Defaults
Sample Grouping = Group by Containers
Well Sort Order = Row
Sample Table (Column Headers)
Step Data (Master Step Fields)
Step File Placeholders
Log - Automatically attached
Sample Table
Sample Display Default = Expand
Well Sort Order = Row
Table Columns - Global Fields
Master Step Name = Amplify Library (AmpliSeq for Illumina v1.1)
Step Type = No Outputs
Defaults
Sample Grouping = Group by Containers
Well Sort Order = Row
Sample Table (Column Headers)
Group of Defaults
Step Data
Group of Defaults = Equalizer Workflow
Master Step Fields
Step File Placeholders
Log - Automatically attached
Sample Table
Sample Display Default = Expand
Well Sort Order = Row
Table Columns - Global Fields
Master Step Name = Perform Capture and Clean Up (AmpliSeq for Illumina v1.1)
Step Type = Standard
Derived Sample Generation = Fixed, 1
Naming Convention = {InputItemName}
Reagent Kits
AmpliSeq Library Equalizer for Illumina
Supplier = Illumina
Defaults
Sample Grouping = Group by Containers
Well Sort Order = Row
Sample Table (Column Headers)
Step File Placeholders
Log - Automatically attached
Sample Table
Sample Display Default = Expand
Well Sort Order = Row
Table Columns - Global Fields
Master Step Name = Elute Library (AmpliSeq for Illumina v1.1)
Step Type = Standard
Derived Sample Generation = Fixed, 1
Naming Convention = {InputItemName}
Defaults
Sample Grouping = Group by Containers
Well Sort Order = Row
Sample Table (Column Headers)
Defaults
Sample Grouping = Group by Containers
Well Sort Order = Row
Placement Pattern = Column
Destination Containers
96 well plate
Step Data (Master Step Fields)
Step File Placeholders
Log - Automatically attached
Sample Table
Sample Display Default = Expand
Well Sort Order = Row
Table Columns - Global Fields
Website =
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
Field Name
Field Type
Options
Additional Options and Dropdown Items
70% EtOH Prep Date
Date
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
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
Field Name
Field Type
Options
Additional Options and Dropdown Items
1X Lib AMP Mix (uL)
Numeric
Decimal Places Displayed = 2
10X Library Amp Primers (uL)
Numeric
Decimal Places Displayed = 2
Thermal Cycler Program
Text Dropdown
Custom Entries
Presets
AMP_7
EQUAL
AMP
Total Samples
Numeric
Default = 0
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
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
Field Name
Field Type
Options
Additional Options and Dropdown Items
70% EtOH Prep Date
Date
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
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 |
Field Name | Field Type | Options | Additional Options and Dropdown Items |
70% EtOH Prep Date | Date |
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 |
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 |
Field Name | Field Type | Options | Additional Options and Dropdown Items |
1X Lib AMP Mix (uL) | Numeric | Decimal Places Displayed = 2 |
10X Library Amp Primers (uL) | Numeric | Decimal Places Displayed = 2 |
Thermal Cycler Program | Text Dropdown | Custom Entries | Presets
|
Total Samples | Numeric | Default = 0 |
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 |
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 |
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 |
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 |
Field Name | Field Type | Options | Additional Options and Dropdown Items |
Thermal Cycler Program | Text | Default = ELUTE |
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 |
The Library Prep AmpliSeq for Illumina Cancer HotSpot Panel V2 is part of the AmpliSeq for Illumina Cancer HotSpot Panel V2 protocols that include the following functionality:
Preconfigured AmpliSeq for Illumina Cancer HotSpot Panel protocol that supports the preparation of up to 96 uniquely indexed libraries of genomic DNA using the AmpliSeq for Illumina workflow.
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 Type = Library Prep
Next Steps Configuration
Master Step Name = Dilute DNA (AmpliSeq for Illumina v1.1)
Step Type = Standard
Derived Sample Generation = Fixed, 1
Naming Convention = {InputItemName}
Reagent Kits
AmpliSeq Library PLUS for Illumina
Supplier = Illumina
Catalog Number = 24 - 20019101; 96 - 200191102; 384 - 200191103
Website = www.illumina.com
Defaults
Sample Grouping = Group by Containers
Well Sort Order = Row
Sample Table (Column Headers)
Step Data (Master Step Fields)
Step File Placeholders
Log - Automatically attached
Sample Table
Sample Display Default = Expand
Well Sort Order = Row
Table Columns - Global Fields
Master Step Name = Qubit (AmpliSeq for Illumina v1.1)
Step Type = Standard QC
Measurement Generation = Fixed, 1
Naming Convention = {InputItemName}
Defaults
Sample Grouping = Group by Containers
Well Sort Order = Row
Sample Table (Column Headers)
Step Data (Master Step Fields)
Step File Placeholders
Log - Automatically attached
QC Log File - Automatically attached
QC Result File - Automatically attached
Upload File - Manually uploaded
Sample Table
Enable QC Flags = Yes
Sample Display Default = Expand
Well Sort Order = Row
File Column Options
File Column Display = Hide
File Attachment Method = Auto
Table Columns - Global Fields
Master Step Name = Dilute DNA (AmpliSeq for Illumina v1.1)
Step Type = Standard
Derived Sample Generation = Fixed, 1
Naming Convention = {InputItemName}
Reagent Kits
AmpliSeq Library PLUS for Illumina
Supplier = Illumina
Catalog Number = 24 - 20019101; 96 - 200191102; 384 - 200191103
Website = www.illumina.com
Defaults
Sample Grouping = Group by Containers
Well Sort Order = Row
Sample Table (Column Headers)
Step Data (Master Step Fields)
Step File Placeholders
Log - Automatically attached
Sample Table
Sample Display Default = Expand
Well Sort Order = Row
Table Columns - Global Fields
Master Step Name = Amplify Targets (AmpliSeq for Cancer Hotspot Illumina v1.1)
Step Type = Standard
Derived Sample Generation = Fixed, 1
Naming Convention = {InputItemName}
Reagent Kits
AmpliSeq Cancer HotSpot Panel V2 for Illumina
Supplier = Illumina
Catalog Number = 20019161
AmpliSeq Library PLUS for Illumina
Supplier = Illumina
Catalog Number = 24 - 20019101; 96 - 200191102; 384 - 200191103
Website = www.illumina.com
Defaults
Sample Grouping = Group by Containers
Well Sort Order = Row
Sample Table (Column Headers)
Step Data (Master Step Fields)
Step File Placeholders
Log - Automatically attached
Sample Table
Sample Display Default = Expand
Well Sort Order = Row
Table Columns - Global Fields
Master Step Name = Partially Digested Amplicons (AmpliSeq for Illumina v1.1)
Step Type = No Outputs
Reagent Kits
AmpliSeq Library PLUS for Illumina
Supplier = Illumina
Catalog Number = 24 - 20019101; 96 - 200191102; 384 - 200191103
Website = www.illumina.com
Defaults
Sample Grouping = Group by Containers
Well Sort Order = Row
Sample Table (Column Headers)
Step Data (Master Step Fields)
Step File Placeholders
Log - Automatically attached
Sample Table
Sample Display Default = Expand
Well Sort Order = Row
Table Columns - Global Fields
Master Step Name = Ligate Indexes (AmpliSeq for Illumina v1.1)
Step Type = Add Labels
Derived Sample Generation = Fixed, 1
Naming Convention = {InputItemName}
Reagent Kits
AmpliSeq Library PLUS for Illumina
Supplier = Illumina
Catalog Number = 24 - 20019101; 96 - 200191102; 384 - 200191103
Website = www.illumina.com
Defaults
Sample Grouping = Group by Containers
Well Sort Order = Row
Sample Table (Column Headers)
Label Groups
AmpliSeq CD Indexes Set A for Illumina
AmpliSeq CD Indexes Set B for Illumina
AmpliSeq CD Indexes Set C for Illumina
AmpliSeq CD Indexes Set D for Illumina
AmpliSeq UD Indexes for Illumina (24 Indexes)
Step Data (Master Step Fields)
Step File Placeholders
Log - Automatically attached
Sample Table
Sample Display Default = Expand
Well Sort Order = Row
Table Columns - Global Fields
The workflow version and step version for the routing script may vary depending on the version of the IPP.
The workflow version and step version for the routing script may vary depending on the version of the IPP.
The workflow version and step version for the routing script may vary depending on the version of the IPP.
The workflow version and step version for the routing script may vary depending on the version of the IPP.
The workflow version and step version for the routing script may vary depending on the version of the IPP.
The workflow version and step version for the routing script may vary depending on the version of the IPP.
The workflow version and step version for the routing script may vary depending on the version of the IPP.
The workflow version and step version for the routing script may vary depending on the version of the IPP.
The workflow version and step version for the routing script may vary depending on the version of the IPP.
The workflow version and step version for the routing script may vary depending on the version of the IPP.
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
Field Name
Field Type
Options
Additional Options and Dropdown Items
Desired Concentration (ng/uL)
Numeric
Range = 20 To 50
Decimal Places Displayed = 0
Category
Field Name
Field Type
Options
Additional Options and Dropdown Items
Derived Sample
Concentration
Numeric
Required Field
Decimal Places Displayed = 2
Derived Sample
Conc. Units
Numeric
Required Field
Derived Sample
Input Amount (ng)
Numeric
Decimal Places Displayed = 0
Derived Sample
Low TE (uL)
Numeric
Decimal Places Displayed = 2
Derived Sample
Sample Name
Built-in
Derived Sample
Sample Volume (uL)
Numeric
Decimal Places Displayed = 2
Derived Sample
Total Volume (uL)
Numeric
Decimal Places Displayed = 2
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
Field Name
Field Type
Options
Additional Options and Dropdown Items
Criteria 1 - Operator
Text
Default = >=
Criteria 1 - Source Data Field
Text
Default = Concentration
Criteria 1 - Threshold Value
Numeric
Criteria 2 - Operator
Text
Default = <=
Criteria 2 - Source Data Field
Text
Default = Concentration
Criteria 2 - Threshold Value
Numeric
Category
Field Name
Field Type
Options
Additional Options and Dropdown Items
Derived Sample
Concentration
Numeric
Required Field
Decimal Places Displayed = 2
Derived Sample
Conc. Units
Text
Required Field
Derived Sample
Sample Name
Built-in
Measurement
Concentration
Numeric
Decimal Places Displayed = 2
Measurement
Conc. Units
Text
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
Field Name
Field Type
Options
Additional Options and Dropdown Items
Desired Concentration (ng/uL)
Numeric
Range = 20 To 50
Decimal Places Displayed = 0
Category
Field Name
Field Type
Options
Additional Options and Dropdown Items
Derived Sample
Concentration
Numeric
Required Field
Decimal Places Displayed = 2
Derived Sample
Conc. Units
Numeric
Required Field
Derived Sample
Input Amount (ng)
Numeric
Decimal Places Displayed = 0
Derived Sample
Low TE (uL)
Numeric
Decimal Places Displayed = 2
Derived Sample
Sample Name
Built-in
Derived Sample
Sample Volume (uL)
Numeric
Decimal Places Displayed = 2
Derived Sample
Total Volume (uL)
Numeric
Decimal Places Displayed = 2
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
Field Name
Field Type
Options
Additional Options and Dropdown Items
PCR Cycles
Numeric
Decimal Places Displayed = 0
Recommended Prep Input (ng)
Multiline Text
Read Only
Default = This protocol supports 1-100 ng. The recommended input is 10 ng high-quality DNA.
Thermal Cycler Program
Text
Default = AMP
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
5X AmpliSeq Cancer HotSpot v2 Panel (uL)
Numeric
Decimal Places Displayed = 1
Derived Sample
5X AmpliSeq HiFi Mix (uL)
Numeric
Decimal Places Displayed = 1
Derived Sample
Concentration
Numeric
Required Field
Decimal Places Displayed = 2
Derived Sample
Conc. Units
Text
Required Field
Derived Sample
Input Amount (ng)
Numeric
Decimal Places Displayed = 0
Derived Sample
Nuclease-free water (uL)
Numeric
Decimal Places Displayed = 2
Derived Sample
Prep Input Amount (ng)
Numeric
Required Field
Range = 2 To 200
Decimal Places Displayed = 0
Derived Sample
Prep Input Volume (uL)
Numeric
Decimal Places Displayed = 2
Derived Sample
Sample Name
Built-in
Derived Sample
Total Volume (uL)
Numeric
Decimal Places Displayed = 2
Project
Project Name
Built-in
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
Field Name
Field Type
Options
Additional Options and Dropdown Items
Thermal Cycler Program
Text
Default = FUPA
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
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
Field Name
Field Type
Options
Additional Options and Dropdown Items
Thermal Cycler Program
Text
Default = LIGATE
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
AmpliSeq Workflow
Text Dropdown
Required Field
Preset
Standard Workflow
Equalizer Workflow
Derived Sample
Sample Name
Built-in
Project
Project Name
Built-in