4/6/2023 0 Comments Primordia probes![]() default = col_double(), #> Count = col_character() #> ) #> ℹ Use `spec()` for the full column specifications. This is modified from original Fig 2 in Johnston et al. This shows how the various tissue samples were microdissected. sheath Repeat:3įor more details refer to the figure below: sheath Repeat:2Īdaxial L1 tissue was captured. sheath Repeat:1Īdaxial L1 tissue was captured. ligule Repeat:3Īdaxial L1 tissue was captured. ligule Repeat:2Īdaxial L1 tissue was captured. ligule Repeat:1Īdaxial L1 tissue was captured. blade Repeat:3Īdaxial L1 tissue was captured. blade Repeat:2Īdaxial L1 tissue was captured. blade Repeat:1Īdaxial L1 tissue was captured. Lg1 mutant tissue from P6 leaf primordia all cell layers.¬†Repeat 3Īdaxial L1 tissue was captured. Lg1 mutant tissue from P6 leaf primordia all cell layers.¬†Repeat 2 Lg1 mutant tissue from P6 leaf primordia all cell layers.¬†Repeat 1 Wild-type tissue from P6 leaf primordia all cell layers.¬†Repeat 3 Wild-type tissue from P6 leaf primordia all cell layers.¬†Repeat 2 Wild-type tissue from P6 leaf primordia all cell layers.¬†Repeat 1 The SRX vs sample relation is given here broadly captured from the full metadata file: Sample_relation Specialized epidermal fringe ligule and auricle structures form at the blade-sheath boundary.įor full metadata: see the NCBI GEO page for GSE61333.It is divided into a proximal (close to stem) sheath and a distal blade each with distinct developmental patterning.The maize leaf is an ideal system to study plant morphogenesis.Brief Description of the experiment and data: The dataset can be downloaded from the NCBI entry or using wget from Ligule development recapitulates gene expression patterns that occur Transcriptomic analyses indicate that maize Johnston, R., Wang, M., Sun, Q., Sylvester, A.W., Hake, S.For more information, please see the following paper: We shall start with an example dataset about Maize and Liguleĭevelopment. The output of WGCNA is a list of clustered genes, and weighted geneĬorrelation network files. Usually we need to rotate (transpose) the input data so rows = The WGCNA pipeline is expecting an input matrix of RNA SequenceĬounts. Install.packages ( "WGCNA" ) # WGCNA is available on CRAN library ( WGCNA ) Since WGCNA is an R package, we will need to start an R environment and We will assume you have a working R environment. Video: ISCB Workshop 2016 - Co-expression network analysis using.Original WGCNA tutorials - Last updated. ![]() A general framework for weightedĪpplications in genetics and molecular biology, 4(1). The WGCNA R package builds “weighted gene correlation networks forĪnalysis” from expression data. There are many gene correlation network builders but we shall provide an ![]()
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