RSAT - network-interactions result

Analysis: result (03/03/2022 09:28)

Results Summary

matrix-scan Parameters
P-value uthScore lth
Complete Output Files [zip]Genome Assembly
0.00055
DownloadgalGal4
Complete Network
Only-TFs Network
Networks Overlap
Not Found Interactions
Newly Found Interactions
Indirect Interactions
Individual Files
File Description
Only-TFs Network This table shows the network done with all TFs for which its regulatory coordinates was indicated. Format is as follows: a TFx-TFy interaction per row (where the first putatively regulates the second one), coordinates where the TFx motif was found, strand and position starting from first coordinate and matrix-scan's related score
Indirect Interactions This file lists indirect interactions (composed by three nodes), as well as direct interactions and no interactions for all TFs. Putative interaction (or binding) information is given as in 'Only-TFs Network'.
Complete Network This table shows the network done with all the genes for which its regulatory corrdinates was indicated. Format is as follows: a TF-gene interaction per row, coordinates where the TF moif was found, strand and position starting from first coordinate and matrix-scan's related score.
Log This file specifies each step of the program, posible errors, warnings (e.g. which genes were actually taken into account), and execution time.
Newly Found Interactions This table lists interactions found by the program but that were not indicated in the input network. Format is as in 'Complete Network'.
Networks Overlap This table shows the intersection of interactions between the input network and the complete network outputted by the program. Format is as in 'Complete Network'.
Not Found Interactions This table lists interactions indicated in the input network but that were not corroborated by the program. Format is a gene-gene interaction per row.
Used Regulatory Regions FASTA Here are the regulatory sequences in FASTA format for all the genomic coordinates indicated in 'Used Regulatory Regions BED' file.
Used matrix-scan Results Here are the results outputted by matrix-scan used to build the networks.
Used PSSMs TRANSFAC Here are listed the used Position-Specific Score Matrixes (PSSMs) used to find the indicated TFs' motifs in TRANSFAC format.
Used Regulatory Regions BED Here is the used BED file with the coordinates of the regulatory regions of each gene.