Swate template RNASeq assay
Transcriptomics, RNA-Seq, assay
v1.2.1 released on 01/01/0001
by Hajira Jabeen, Dominik Brilhaus
145 Downloads
Template Content
Building Blocks + example values
| Input [Source Name] | Protocol Type | Term Source REF (DPBO:1000161) | Term Accession Number (DPBO:1000161) | Protocol REF | Parameter [library strategy] | Term Source REF (DPBO:0000035) | Term Accession Number (DPBO:0000035) | Parameter [library selection] | Term Source REF (DPBO:0000036) | Term Accession Number (DPBO:0000036) | Parameter [library layout] | Term Source REF (DPBO:0000015) | Term Accession Number (DPBO:0000015) | Component [library preparation kit] | Term Source REF (GENEPIO:0000085) | Term Accession Number (GENEPIO:0000085) | Parameter [library preparation kit version] | Term Source REF (GENEPIO:0000149) | Term Accession Number (GENEPIO:0000149) | Parameter [adapter sequence] | Term Source REF (GENEPIO:0000083) | Term Accession Number (GENEPIO:0000083) | Parameter [library RNA amount] | Unit | Term Source REF (DPBO:0000016) | Term Accession Number (DPBO:0000016) | Component [next generation sequencing instrument model] | Term Source REF (DPBO:0000040) | Term Accession Number (DPBO:0000040) | Component [base-calling software] | Term Source REF (DPBO:0000017) | Term Accession Number (DPBO:0000017) | Parameter [base-calling software version] | Term Source REF (DPBO:0000018) | Term Accession Number (DPBO:0000018) | Parameter [base-calling software parameters] | Term Source REF (DPBO:0000019) | Term Accession Number (DPBO:0000019) | Parameter [library strand] | Term Source REF (DPBO:0000020) | Term Accession Number (DPBO:0000020) | Parameter [Raw data file format] | Term Source REF (DPBO:0000021) | Term Accession Number (DPBO:0000021) | Output [Data] |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
| assay protocol | DPBO | http://purl.org/nfdi4plants/ontology/dpbo/DPBO_1000177 | rnaseq-protocol.txt | RNA-Seq | EFO | https://bioregistry.io/EFO:0008896 | cDNA method | paired-end | DPBO | http://purl.org/nfdi4plants/ontology/dpbo/DPBO_1000087 | TruSeq RNA Sample Prep Kit | v2 | ACTTGA | 1 | microgram | UO | https://bioregistry.io/UO:0000023 | Illumina HiSeq 2000 | EFO | https://bioregistry.io/EFO:0004203 | Illumina Casava | 1.70 | user-specific | R1 | user-specific | .fastq | user-specific |