diff --git a/assays/Talinum_RNASeq_minimal/isa.assay.xlsx b/assays/Talinum_RNASeq_minimal/isa.assay.xlsx index 1ee1a4f320dc00b3b7d292242fae5321305e2157..2305b3f43257233eed2ed2a03142f9a8f23d90f9 100644 Binary files a/assays/Talinum_RNASeq_minimal/isa.assay.xlsx and b/assays/Talinum_RNASeq_minimal/isa.assay.xlsx differ diff --git a/assays/Talinum_RNASeq_minimal/protocols/RNAex_libraries.md b/assays/Talinum_RNASeq_minimal/protocols/RNAex_libraries.md deleted file mode 100644 index 6f0d1cdb16e0a75ff73bd0aa530584e5a47d53f2..0000000000000000000000000000000000000000 --- a/assays/Talinum_RNASeq_minimal/protocols/RNAex_libraries.md +++ /dev/null @@ -1,10 +0,0 @@ -``` -Note: -- This is a somewhat polished protocol as found in a publication. -- This is not an example for a typical lab protocol or method. -``` - - -# RNA Extraction, Preparation, and Sequencing of Illumina Libraries - -The topmost mature unshaded leaves (of approximately 3–4.5 cm length) of *T. triangulare* were harvested in the middle of the light or the middle of the dark period and immediately frozen in liquid nitrogen. RNA was isolated from ground tissue using the GeneMatrix Universal RNA Purification Kit (EURx Ltd.). Residues of DNA were removed with DNase (New England Biolabs). RNA integrity, sequencing library, and fragment size were analyzed on a 2100 Bioanalyzer (Agilent). Libraries were prepared using the TruSeq RNA Sample Prep Kit v2 (Illumina) and quantified with a Qubit 2.0 (Invitrogen). Samples were multiplexed with 12 libraries per lane and sequenced in single-end mode (Rapid Run, 150 bp read length) on an Illumina HiSeq 2000 platform. diff --git a/assays/Talinum_RNASeq_minimal/protocols/illumina.md b/assays/Talinum_RNASeq_minimal/protocols/illumina.md new file mode 100644 index 0000000000000000000000000000000000000000..fecf1eb717e733b86973299a71f6d3a22811505b --- /dev/null +++ b/assays/Talinum_RNASeq_minimal/protocols/illumina.md @@ -0,0 +1,3 @@ +# Preparation and Sequencing of Illumina Libraries + +RNA integrity, sequencing library, and fragment size were analyzed on a 2100 Bioanalyzer (Agilent). Libraries were prepared using the TruSeq RNA Sample Prep Kit v2 (Illumina) and quantified with a Qubit 2.0 (Invitrogen). Samples were multiplexed with 12 libraries per lane and sequenced in single-end mode (Rapid Run, 150 bp read length) on an Illumina HiSeq 2000 platform. diff --git a/assays/Talinum_RNASeq_minimal/protocols/rna_extraction.md b/assays/Talinum_RNASeq_minimal/protocols/rna_extraction.md new file mode 100644 index 0000000000000000000000000000000000000000..4a87be713f40d4c91fff21ad3becf8a2b657cffe --- /dev/null +++ b/assays/Talinum_RNASeq_minimal/protocols/rna_extraction.md @@ -0,0 +1,3 @@ +# RNA Extraction + +RNA was isolated from ground tissue using the GeneMatrix Universal RNA Purification Kit (EURx Ltd.). Residues of DNA were removed with DNase (New England Biolabs). \ No newline at end of file