Selected Parameters

[%IF cl_select_criteria == 'specific'%] [%END%] [%IF result_sort_by == 'zscore'%] [%display_sort_by = 'Z-score'%] [%ELSIF result_sort_by == 'fisher_p_value'%] [%display_sort_by = 'Fisher score'%] [%ELSE%] [%display_sort_by = result_sort_by%] [%END%] [%IF result_type == 'top_x_results'%] [%IF num_display_results == 'All'%] [%ELSE%] [%END%] [%ELSIF result_type == 'significant_hits'%] [%END%]
Job ID: [%job_id%]
Number of genes submitted for analysis: [%num_t_gene_ids%]
Number of genes included in analysis: [%num_t_included_gene_ids%]
Number of genes missing from analysis: [%num_t_missing_gene_ids%]
Number of unique oPOSSUM genes in analysis: [%num_t_gids%]
TFBS profile matrix source: JASPAR CORE profiles
Anchoring TF: [%anchor_tf_name%] ([%anchor_cluster.name()%])
Maximum Inter-Binding Distance: [%max_site_distance%]
TF cluster families: [%FOREACH fam = tf_families%][%fam%] [%END%]
Conservation cutoff: [%min_conservation%]
Matrix score threshold: [%threshold*100%]%
Upstream sequence length: [%upstream_bp%]
Downstream sequence length: [%downstream_bp%]
Results returned:All results sorted by [%display_sort_by%]Top [%num_display_results%] results sorted by [%display_sort_by%]All results with a Z-score >= [%zscore_cutoff%] and a Fisher score >= [%fisher_cutoff%] sorted by [%display_sort_by%]

Target Genes

[%IF num_t_missing_gene_ids > 0%] [%END%]
Analyzed: [%FOREACH gene_id = t_included_gene_ids%] [%gene_id%][%END%]
Omitted: [%FOREACH gene_id = t_missing_gene_ids%] [%gene_id%][%END%]

Results - click column headers to sort by that column

[%IF message%]

[%message%]

[%ELSIF results%] [%IF warn_zero_bg_hits%]

Warning: The provided background set resulted in zero binding sites for one or more TF clusters. These cases are highlighted in red. In cases where there were also zero binding sites for the target set, the Z-score is undefined (NA). In cases where there were one or more binding sites in the target set, the Z-score is infinite (Inf). However, the result may or may not be considered significant. Results for which this was the case are marked with an asterisk (*).

[%END%] [%FOREACH result = results%] [%cl = tf_cluster_set.get_tf_cluster(result.id)%] [%IF result.bg_gene_hits == 0 and result.t_gene_hits > 0%] [%ELSE%] [%END%] [%IF result.bg_gene_hits == 0%] [%IF result.zscore == 'inf' or result.zscore == 'Inf'%] [%ELSE%] [%END%] [%ELSE%] [%END%] [%IF result.fisher_p_value == 'inf' or result.fisher_p_value == 'Inf'%] [%ELSE%] [%END%] [%END%]
TFBS cluster name Target gene hits Target gene non-hits Background gene hits Background gene non-hits Target cluster hits Target cluster nucleotide rate Background cluster hits Background cluster nucleotide rate Z-score Fisher score
*[%cl.name%][%cl.name%] [%IF result.t_gene_hits > 0%] [%result.t_gene_hits%] [%ELSE%] [%result.t_gene_hits%] [%END%] [%result.t_gene_no_hits%] [%IF result.bg_gene_hits == 0%] [%result.bg_gene_hits%] [%ELSE%] [%result.bg_gene_hits%] [%END%] [%result.bg_gene_no_hits%] [%IF result.t_cluster_hits > 0%] [%result.t_cluster_hits%] [%ELSE%] [%result.t_cluster_hits%] [%END%] [%formatg(3, result.t_cluster_rate)%] [%IF result.bg_gene_hits == 0%] [%result.bg_cluster_hits%] [%ELSE%] [%result.bg_cluster_hits%] [%END%] [%IF result.bg_gene_hits == 0%] [%formatg(3, result.bg_cluster_rate)%] [%ELSE%] [%formatg(3, result.bg_cluster_rate)%] [%END%] InfNA[%formatf(3, result.zscore)%]Inf[%formatf(3, result.fisher_p_value)%]

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Consult the help file for an explanation of the column headings.

[%ELSE%]

No TFBSs clusters were found which matched your search criteria

[%END%]