Tissue enrichment analysis for C. elegans genomics

BMC Bioinformatics

Table 2 Comparison of results for a GABAergic neuronal-enriched gene set from Watson [20] showing that results are similar regardless of annotation cutoff

Tissue	Q value33	Q value50	Enrichment fold change33	Enrichment fold change50
Nerve ring WBbt:0006749	0.005	0.0015	2.7	2.7
Nervous system WBbt:0005735	0.005	0.0015	1.4	1.4
Dorsal nerve cord WBbt:0006750	0.005	0.0015	3.8	3.8
Retrovesicular ganglion WBbt:0005656	0.011	0.0034	5	5
Ventral nerve cord WBbt:0005829	-	0.022	-	2.4

We ran the same gene list on a dictionary with a minimum annotation cutoff of 50, similarity threshold of 0.95 and similarity method ‘any’ versus another with a minimum annotation cutoff of 33, similarity threshold of 0.95 and similarity method ‘any’. In the table, columns are labeled with their significance value (Q-value) or enrichment fold change followed by a hyphen and a number which indicates which the cutoff for the dictionary that was used for testing. Not all tissues are present in either dictionary. Hyphens denote not-applicable values, which occurs when a particular tissue is not present in both dictionaries

ISSN: 1471-2105