Tissue enrichment analysis for C. elegans genomics

BMC Bioinformatics

Table 1 Parameter specifications and number of tissues for all dictionaries

Annotation cutoff	Similarity threshold	Method	No. of terms in dictionary
25	0.9	any	460
25	0.9	avg	461
25	0.95	any	466
25	0.95	avg	468
25	1	any	476
25	1	avg	476
33	0.9	any	261
33	0.9	avg	255
33	0.95	any	261
33	0.95	avg	262
33	1	any	247
33	1	avg	247
50	0.9	any	83
50	0.9	avg	77
50	0.95	any	82
50	0.95	avg	81
50	1	any	70
50	1	avg	70
100	0.9	any	45
100	0.9	avg	35
100	0.95	any	42
100	0.95	avg	36
100	1	any	21
100	1	avg	21

The ‘Method’ column refers to the trimming criterion for the similarity metric. We used two such criteria, ‘any’ and ‘avg’.‘any’: For a given sister set, if any sister had a similarity exceeding the corresponding threshold, all sisters were removed from the final dictionary. ‘avg’: For a given sister set, if the average similarity across all the sisters in the set was greater than the corresponding threshold, all sisters were removed from the final dictionary

ISSN: 1471-2105