TruSeq RNA Access v2.0
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The TruSeq RNA Access v2.0 workflow includes the following functionality:
Preconfigured TruSeq RNA Access v2.0 protocol that supports the conversion of total RNA or FFPE samples into a library of template molecules suitable for subsequent cluster generation and sequencing.
Automated calculation of sample and buffer volumes.
Automated calculation or display of reagents at every step in the workflow.
Automatic step transition when required.
Automatic placement of samples when necessary.
Automated generation of Bioanalyzer input file that the user may upload to the Bioanalyzer instrument’s Expert Software and use to set up a run.
Automated parsing of a Bioanalyzer instrument's XML result file into the LIMS, and storing of QC measurement records for the completed run.
Automated assignment of QC Pass/Fail, based on user-selected threshold values.
Routing script that allows sequencing of libraries using any Illumina sequencing instrument.
Protocol Type = Library Prep
Next Steps Configuration
Master Step Name = Sort Samples (TruSeq RNA Access v2.0.10)
Step Type = No Outputs
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
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
Master Step Name = Fragment RNA v2.0
Step Type = Standard
Derived Sample Generation = Fixed, 1
Naming Convention = {SubmittedSampleName}
Reagent Kits
TruSeq RNA Access - 12 Index Set A or B, Box 2
Supplier = Illumina
Catalog Number = Set A Part # 15052311; Set B Part # 15052312
Website = https://support.illumina.com/
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
96 well plate
Step Data (Master Step Fields)
Field Name
Field Type
Options
Additional Options and Dropdown Items
Comment
Multiline Text
Thermal Cycler Program
Text
Default = Elution 2 - Frag - Prime
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
Buffer Volume (ul)
Numeric
Decimal Places Displayed = 2
Derived Sample
Sample Name
Built-in
Derived Sample
Sample Volume (ul)
Numeric
Decimal Places Displayed = 2
Project
Project Name
Built-in
Master Step Name = First Strand cDNA Synthesis v2.0
Step Type = No Outputs
Reagent Kits
TruSeq RNA Access - cDNA Synthesis-PCR, Box 1
Supplier = Illumina
Catalog Number = 15052309
Website = https://support.illumina.com/
Defaults
Sample Grouping = Group by Containers
Well Sort Order = Column
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
Thermal Cycler Program
Text Dropdown
Custom Entries
Presets
Synthesize 1st Strand
1stSS
Default = Synthesize 1st Strand
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
Sample Name
Built-in
Project
Project Name
Built-in
Master Step Name = Second Strand cDNA Synthesis v2.0
Step Type = Standard
Derived Sample Generation = Fixed, 1
Naming Convention = {SubmittedSampleName}
Reagent Kits
TruSeq RNA Access - cDNA Synthesis-PCR, Box 1
Supplier = Illumina
Catalog Number = 15052309
Website = https://support.illumina.com/
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
80% EtOH Prep Date
Date
Step File Placeholders
Log File - Automatically attached
Sample Table
Sample Display Default = Expand
Well Sort Order = Column
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
Master Step Name = Adenylate 3' Ends v2.0
Step Type = No Outputs
Reagent Kits
TruSeq RNA Access - 12 Index Set A or B, Box 2
Supplier = Illumina
Catalog Number = Set A Part # 15052311; Set B Part # 15052312
Website = https://support.illumina.com/
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
Step File Placeholders
Log File - Automatically attached
Sample Table
Sample Display Default = Expand
Well Sort Order = Column
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
Master Step Name = Ligate Adapters v2.0
Step Type = Add Labels
Derived Sample Generation = Fixed, 1
Naming Convention = {SubmittedSampleName}
Reagent Kits
TruSeq RNA Access - 12 Index Set A or B, Box 2
Supplier = Illumina
Catalog Number = Set A Part # 15052311; Set B Part # 15052312
Website = https://support.illumina.com/
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
Label Groups
TruSeq RNA Access
Step Data (Master Step Fields)
Field Name
Field Type
Options
Additional Options and Dropdown Items
Comment
Multiline Text
80% EtOH Prep Date
Date
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
Reagent Name
Built-in
Derived Sample
Sample Name
Built-in
Project
Project Name
Built-in
Master Step Name = First PCR Amplification (TruSeq RNA Access v2.0.10)
Step Type = Standard
Derived Sample Generation = Fixed, 1
Naming Convention = {SubmittedSampleName}
Reagent Kits
TruSeq RNA Access - cDNA Synthesis-PCR, Box 1
Supplier = Illumina
Catalog Number = 15052309
Website = https://support.illumina.com/
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
80% EtOH Prep Date
Date
Thermal Cycler Program
Text
Default = PCR
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
Sample Name
Built-in
Project
Project Name
Built-in
Master Step Name = Bioanalyzer QC (Library Validation) v2.0
Step Type = Standard QC
Measurement Generation = Fixed, 1
Naming Convention = {InputItemName} Bioanalyzer
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
Defaults
Sample Grouping = Group by Containers
Well Sort Order = Column
Placement Pattern = Column
Destination Containers
BioAnalyzer DNA High Sensitivity Chip
BioAnalyzer DNA 1000 Chip
Group of Defaults
Step Data
Group of Defaults = TruSeq RNA Access Library Validation
Master Step Fields
Field Name
Field Type
Options
Additional Options and Dropdown Items
Criteria 1 - Operator
Text Dropdown
Custom Entries
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
Custom Entries
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