Nextera Mate Pair v1.0
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Last updated
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Protocol Type = Library Prep
Next Steps Configuration
Master Step Name = Tagment Genomic DNA (Nextera Mate Pair v1.0.10)
Step Type = Standard
Derived Sample Generation = Fixed, 1
Naming Convention = {SubmittedSampleName}
Reagent Kits
Nextera Mate Pair Library Prep Kit - Box 1
Supplier = Illumina
Catalog Number = FC-132-1001
Nextera Mate Pair Library Prep Kit - Box 2
Supplier = Illumina
Catalog Number = FC-132-1001
Zymo Genomic DNA Clean & Concentrator
Supplier = Zymo Research
Catalog Number = D4010 (25 preps) or D4011 (100 preps)
ℹ The version of Tagment Genomic DNA master step name may be different depending on the version of IPP installed.
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
Well
Built-in
Derived Sample
Sample Name
Built-in
Derived Sample
Waiting
Built-in
Expanded View Fields
Category
Field Name
Field Type
Options
Additional Options and Dropdown Items
Container
LIMS ID (Container)
Built-in
Project
Project Name
Built-in
Step Data (Master Step Fields)
Field Name
Field Type
Options
Additional Options and Dropdown Items
Comment
Multiline Text
Mate Pair Tagment Enzyme Per Sample Volume (ul)
Numeric Dropdown
Custom Entries
Presets
4
12
Decimal Places Displayed = 2
Tagment Buffer Mate Pair Per Sample Volume (ul)
Numeric Dropdown
Custom Entries
Presets
20
80
Decimal Places Displayed = 2
Step File Placeholders
Log File - 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
Gel Type
Text Dropdown
Required Field
Presets
Gel-Free
Gel-Plus
Derived Sample
Sample Name
Built-in
Derived Sample
Sample Volume (ul)
Numeric
Decimal Places Displayed = 2
Derived Sample
Water Per Sample (ul)
Numeric
Decimal Places Displayed = 2
Project
Project Name
Built-in
Master Step Name = Bioanalyzer QC (DNA) v1.0
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
Category
Field Name
Field Type
Options
Additional Options and Dropdown Items
Container
Container Name
Built-in
Container
Well
Built-in
Derived Sample
Sample Name
Built-in
Derived Sample
Waiting
Built-in
Expanded View Fields
Category
Field Name
Field Type
Options
Additional Options and Dropdown Items
Container
LIMS ID (Container)
Built-in
Project
Project Name
Built-in
Defaults
Sample Grouping = Group by Containers
Well Sort Order = Row
Placement Pattern = Row
Destination Containers
BioAnalyzer DNA 7500 and DNA 1200 Chip
BioAnalyzer DNA High Sensitivity Chip
Step Data (Master Step Fields)
Field Name
Field Type
Options
Additional Options and Dropdown Items
Criteria 1 - Operator
Text Dropdown
Presets
>=
<=
=
!=
Criteria 1 - Source Data Field
Text Dropdown
Presets
Concentration
Conc. Units
Number of Peaks found
Peak 1 Size - bp
Peak 1 Conc.
Peak 1 Molarity
Peak 2 Size - bp
Peak 2 Conc.
Peak 2 Molarity
Peak 3 Size - bp
Peak 3 Conc.
Peak 3 Molarity
Peak 4 Size - bp
Peak 4 Conc.
Peak 4 Molarity
Peak 5 Size - bp
Peak 5 Conc.
Peak 5 Molarity
Number of Regions found
Region 1 Average Size - bp
Region 1 Conc.
Region 1 Molarity
Region 2 Average Size - bp
Region 2 Conc.
Region 2 Molarity
Region 3 Average Size - bp
Region 3 Conc.
Region 3 Molarity
Region 4 Average Size - bp
Region 4 Conc.
Region 4 Molarity
Region 5 Average Size - bp
Region 5 Conc.
Region 5 Molarity
Criteria 1 - Threshold Value
Numeric
Decimal Places Displayed = 2
Criteria 2 - Operator
Text Dropdown
Presets
>=
<=
=
!=
Criteria 2 - Source Data Field
Text Dropdown
Presets
Concentration
Conc. Units
Number of Peaks found
Peak 1 Size - bp
Peak 1 Conc.
Peak 1 Molarity
Peak 2 Size - bp
Peak 2 Conc.
Peak 2 Molarity
Peak 3 Size - bp
Peak 3 Conc.
Peak 3 Molarity
Peak 4 Size - bp
Peak 4 Conc.
Peak 4 Molarity
Peak 5 Size - bp
Peak 5 Conc.
Peak 5 Molarity
Number of Regions found
Region 1 Average Size - bp
Region 1 Conc.
Region 1 Molarity
Region 2 Average Size - bp
Region 2 Conc.
Region 2 Molarity
Region 3 Average Size - bp
Region 3 Conc.
Region 3 Molarity
Region 4 Average Size - bp
Region 4 Conc.
Region 4 Molarity
Region 5 Average Size - bp
Region 5 Conc.
Region 5 Molarity
Criteria 2 - Threshold Value
Numeric
Decimal Places Displayed = 2
Use strict matching for Bioanalyzer results
Toggle Switch
Default = None Set
Step File Placeholders
Bioanalyzer Input File - Automatically attached
Bioanalyzer Input File Generation Log - Automatically attached
Bioanalyzer XML Result File (required) - Manually uploaded
Result File (optional) - Manually uploaded
PDF Summary File (optional) - Manually uploaded
Bioanalyzer XML Parsing Log File - Automatically attached
QC Assignment Log File - Automatically attached
QC Assignment Report - Automatically attached
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
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
Measurement
A260/280 ratio
Numeric
Decimal Places Displayed = 2
Measurement
BA Sample Name
Text
Measurement
Concentration
Numeric
Decimal Places Displayed = 2
Measurement
Conc. Units
Text
Measurement
Number of Peaks found
Numeric
Decimal Places Displayed = 0
Measurement
Number of Regions found
Numeric
Decimal Places Displayed = 0
Measurement
Peak 1 Conc.
Numeric
Decimal Places Displayed = 2
Measurement
Peak 1 Molarity
Numeric
Decimal Places Displayed = 2
Measurement
Peak 1 Size - bp
Numeric
Decimal Places Displayed = 0
Measurement
Peak 2 Conc.
Numeric
Decimal Places Displayed = 2
Measurement
Peak 2 Molarity
Numeric
Decimal Places Displayed = 2
Measurement
Peak 2 Size - bp
Numeric
Decimal Places Displayed = 0
Measurement
Peak 3 Conc.
Numeric
Decimal Places Displayed = 2
Measurement
Peak 3 Molarity
Numeric
Decimal Places Displayed = 2
Measurement
Peak 3 Size - bp
Numeric
Decimal Places Displayed = 0
Measurement
Peak 4 Conc.
Numeric
Decimal Places Displayed = 2
Measurement
Peak 4 Molarity
Numeric
Decimal Places Displayed = 2
Measurement
Peak 4 Size - bp
Numeric
Decimal Places Displayed = 0
Measurement
Peak 5 Conc.
Numeric
Decimal Places Displayed = 2
Measurement
Peak 5 Molarity
Numeric
Decimal Places Displayed = 2
Measurement
Peak 5 Size - bp
Numeric
Decimal Places Displayed = 2
Measurement
Region 1 Average Size - bp
Numeric
Decimal Places Displayed = 0
Measurement
Region 1 Conc.
Numeric
Decimal Places Displayed = 2
Measurement
Region 1 Molarity
Numeric
Decimal Places Displayed = 2
Measurement
Region 2 Average Size - bp
Numeric
Decimal Places Displayed = 0
Measurement
Region 2 Conc.
Numeric