Swate template RNASeq assay
Transcriptomics, RNA-Seq, assay
v1.2.0 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) | Parameter [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) | Parameter [next generation sequencing instrument model] | Term Source REF (DPBO:0000040) | Term Accession Number (DPBO:0000040) | Parameter [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] |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
| RNA-Seq strategy | user-specific | cDNA method | user-specific | paired-end | DPBO | http://purl.org/nfdi4plants/ontology/dpbo/DPBO_1000087 | HiSeq 2000 | user-specific | Illumina Casava | user-specific | 1.70 | user-specific | R1 | user-specific | .fastq | user-specific | |||||||||||||||||||||||||||||
| ChIP-Seq strategy | user-specific | size fractionation method | user-specific | Single-end | user-specific | R2 | user-specific | .ab1 | user-specific | ||||||||||||||||||||||||||||||||||||
| ssRNA-seq | DPBO | http://purl.org/nfdi4plants/ontology/dpbo/DPBO_1000009 | PolyA | user-specific | Forward | user-specific | |||||||||||||||||||||||||||||||||||||||
| rRNA depletion | DPBO | http://purl.org/nfdi4plants/ontology/dpbo/DPBO_0000082 |