[ HELP ]
Paste gene IDs (max. [%max_target_genes%] gene IDs): [%FOREACH in_t_gene_id = in_t_gene_ids%][%in_t_gene_id%] [%END%] OR upload a file containing a list of gene identifiers (max. [%max_target_genes%] gene IDs):
All [%total_genes%] genes in the oPOSSUM database OR a random set of genes from the oPOSSUM database OR paste gene IDs: [%FOREACH in_bg_gene_id = in_bg_gene_ids%][%in_bg_gene_id%] [%END%] OR upload a file containing a list of gene identifiers:
[%IF num_tax_groups > 1%] All profiles from the following tax groups: [%first_tax_group = 1%] [%FOREACH tax = tax_groups%] [%tax%] [%first_tax_group = 0%] [%END%] with a minimum specificity of [%ELSE%] All [%tax_group_list%] profiles with a minimum specificity of [%END%] bits (min. [%db_info.min_ic()%] bits) [%IF num_tax_groups > 1%] OR select specific profiles: [%ELSE%] OR select specific [%tax_group_list%] profiles: [%END%]
All profiles with a minimum specificity of bits (min. [%db_info.min_ic()%] bits) OR select specific profiles:
[%UNLESS species == 'yeast'%] Conservation cutoff: [%FOREACH level = cl_levels%] [%cl = cl_hash.$level%] [%cl.min_conservation()%] [%END%] [%END%] Matrix score threshold: [%FOREACH level = thl_levels%] [%thl = thl_hash.$level%] [%thl.threshold()*100%]% [%END%] OR enter score threshold [%dflt_threshold = thl_hash.$thl_dflt_level.threshold()%] % (min. = [%db_info.min_threshold()*100%]%) [%IF species == 'yeast'%] Amount of upstream sequence: [%FOREACH level = srl_levels%] [%srl = srl_hash.$level%] [%srl.upstream_bp()%] [%END%] OR enter custom values [%dflt_upstream_bp = srl_hash.$srl_dflt_level.upstream_bp()%] bp (max. = [%db_info.max_upstream_bp%]) [%ELSE%] Amount of upstream / downstream sequence: [%FOREACH level = srl_levels%] [%srl = srl_hash.$level%] [%srl.upstream_bp()%] / [%srl.downstream_bp()%] [%END%] OR enter custom values [%dflt_upstream_bp = srl_hash.$srl_dflt_level.upstream_bp()%] [%dflt_downstream_bp = srl_hash.$srl_dflt_level.downstream_bp()%] / bp (max. = [%db_info.max_upstream_bp%] / [%db_info.max_upstream_bp%]) [%END%] Number of results to return: Top [%FOREACH num = nresults%] [%num%] [%END%] results OR only results with Z-score >= [%FOREACH cutoff = zcutoffs%] [%cutoff%] [%END%] and Fisher score >= [%FOREACH cutoff = fcutoffs%] [%cutoff%] [%END%] (Default values have been chosen based on empirical studies) Sort results by: Z-score Fisher score
Press the Submit button to perform the analysis or Reset to reset the analysis parameters to their default values. Depending on parameters selected and server load, the analysis may take anywhere from a few seconds to several minutes to perform.