Appendix C - Analysis workflow versions, species support and parameters
This appendix provides information on analysis workflow and sample comparability, gives an overview of analysis workflow versions and species support, and lists secondary analysis workflow parameters for the individual sample kits and analyses.
About analysis workflow versions and sample comparability
To ensure comparability of samples within a project, the analysis workflow version for a specific sample kit-reference combination is restricted to a single version. As an example, if QIAseq Stranded mRNA Select/Total RNA Lib Kit, Homo sapiens (GRCh38.103) samples were included in Project A in RNA-seq Analysis Portal 1.0, Project A will be locked to the analysis workflow version of RNA-seq Analysis Portal 1.0, i.e. v1.0. Consequently, QIAseq Stranded mRNA Select/Total RNA Lib Kit, Homo sapiens (GRCh38.103) samples added to this project at a later point in time will be processed with analysis workflow 1.0 regardless the version of RNA-seq Analysis Portal.
If you create a new project in the Align and count dialog, samples will be processed with the most recent analysis workflow version.
To have samples processed with an older analysis workflow version, e.g. to ensure that they can be included in experiments with older samples, in the Align and count dialog select an existing project with samples processed with the desired analysis workflow version.
The version of the analysis workflow with which samples were processed can be found from the Experiment summary tab of the Sample and Quality control, as well as from the Samples page.
Analysis workflow versions in RNA-seq Analysis Portal
Table 2 provides an overview of the most recent sample kit analysis workflow versions in each version of RNA-seq Analysis Portal.
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Sample kit analysis workflows and species support
Species support depends on the sample kit analysis workflow. Table 3 gives an overview of species support for the two categories of analysis workflows, miRNA and RNA:
- miRNA
- QIAseq miRNA Library Kit
- RNA
- QIAseq UPX 3' Transcriptome Kit
- QIAseq UPXome RNA Lib Kit
- QIAseq FastSelect RNA Lib Kit (N6-T RT + ODT-T RT primers)
- QIAseq FastSelect RNA Lib Kit (N6-T RT primer)
- QIAseq FastSelect RNA Lib Kit (ODT-T RT primer)
- QIAseq UPXome RNA Lib Kit (N6-T RT + ODT-T RT primers)
- QIAseq UPXome RNA Lib Kit (N6-T RT primer)
- QIAseq UPXome RNA Lib Kit (ODT-T RT primer)
- QIAseq Stranded mRNA Select/Stranded Total RNA Lib Kit
- TruSeq Stranded Total RNA Library Prep (Human/Rat, Gold, Globin)
- Illumina Stranded Total RNA Prep with Ribo-Zero Plus
- NEBNext Ultra II Directional RNA Library Prep Kit for Illumina
- KAPA RNA HyperPrep Kit
- SMARTer Stranded Total RNA Sample Prep Kit - HI Mammalian/Low Input Mammalian
- Collibri Stranded RNA Library Prep Kit for Illumina Systems
Biological insights support. Table 3 also indicates whether biological insights are supported. For species other than human, mouse and rat, Ingenuity Pathway Analysis (IPA) will map the gene identifiers according to HomoloGene to the corresponding human, mouse, and rat ortholog information in the QIAGEN Knowledge Base. Therefore, biological insights results will reflect content for human, mouse, and rat.
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Subsections
- QIAseq miRNA Library Kit
- QIAseq UPX 3' Transcriptome Kit
- QIAseq UPXome RNA Lib Kit
- QIAseq UPXome RNA Lib Kit (N6-T RT primer)
- QIAseq UPXome RNA Lib Kit (ODT-T RT primer)
- QIAseq UPXome RNA Lib Kit (N6-T + ODT-T RT primers)
- QIAseq FastSelect RNA Lib Kit (N6-T RT primer)
- QIAseq FastSelect RNA Lib Kit (ODT-T RT primer)
- QIAseq FastSelect RNA Lib Kit (N6-T + ODT-T RT primers)
- QIAseq Stranded mRNA Select/Stranded Total RNA Lib Kit
- TruSeq Stranded Total RNA Library Prep (Human/Rat, Gold, Globin)
- Illumina Stranded Total RNA Prep with Ribo-Zero Plus
- NEBNext Ultra II Directional RNA Library Prep Kit for Illumina
- KAPA RNA HyperPrep Kit
- SMARTer Stranded Total RNA Sample Prep Kit - HI Mammalian/Low Input Mammalian
- Collibri Stranded RNA Library Prep Kit for Illumina Systems