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Cytoscape test4: Difference between revisions

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Line 197: Line 197:
<!-- Data Loading Section -->
<!-- Data Loading Section -->
<script type="text/javascript">
<script type="text/javascript">
$("#f5_cytoscapeweb").wijsplitter({
orientation: "vertical",
collapsingPanel: "panel2",
splitterDistance: 400,
panel1: { minSize: 350, scrollBars:"none" }, // Bug in wijsplitter?, minSize must be set for panel1
panel2: { collapsed: true, scrollBars:"none" }
});
$(document).ready(function() {
$(document).ready(function() {
// Options for FANTOM5 Network view app
// Options for FANTOM5 Network view app

Revision as of 13:29, 31 July 2012

Details

Transcriptome profiling

hCAGE {{{profile_hcage}}}
RNA-seq {{{profile_rnaseq}}}
smallRNA seq {{{profile_srnaseq}}}
nanoCAGEscan {{{profile_cagescan}}}

Sample info

strain {{{sample_strain}}}
tissue {{{sample_tissue}}}
dev_stage {{{sample_dev_stage}}}
sex {{{sample_sex}}}
age {{{sample_age}}}
ethnicity {{{sample_ethnicity}}}
cell_type {{{sample_cell_type}}}
cell_line {{{sample_cell_line}}}
collaboration {{{sample_collaboration}}}
Experimental condition{{{sample_experimental_condition}}}
disease {{{sample_disease}}}
cell_lot {{{sample_cell_lot}}}
cell_catalog {{{sample_cell_catalog}}}
company {{{sample_company}}}
donor(cell lot) {{{sample_donor(cell lot)}}}
Note {{{sample_note}}}


RNA info

sample_id {{{sample_id}}}
tube_id {{{rna_tube_id}}}
box {{{rna_box}}}
position {{{rna_position}}}
lot_number {{{rna_lot_number}}}
catalog_number {{{rna_catalog_number}}}
RIN {{{rna_rin}}}
OD260/230 {{{rna_od260/230}}}
OD260/280 {{{rna_od260/280}}}
sample_type {{{rna_sample_type}}}
extraction_protocol {{{rna_extraction_protocol}}}
weight_ug {{{rna_weight_ug}}}
concentration{{{rna_concentration}}}


TF
, MOTIF
Promoter
TF-MOTIF Binding
Nodes
Edges
TF-MOTIF Binding
Promoters
Promoter Z-Score filter:

Motif degree filter:
TF indegree filter:
Source TF (Outdegree > 0)
Target TF (Outdegree = 0)


Union: A || B
Intersection: A && B
Difference: A - B
Difference: B - A
Subnetwork: A
Subnetwork: B