SUPPLEMENTARY TABLE 3 OVERLAP BETWEEN PITA PREDICTIONS AND OTHER

PRACTICE NOTE SOURCING SUPPLEMENTARY EMERGENCY RESPONSE RESOURCES
SUPPLEMENTARY MATERIAL (ESI) FOR CHEMICAL COMMUNICATIONS THIS
(SUPPLEMENTARY ORDER PAPER) 19 DÁIL ÉIREANN DÉ MÁIRT 2

1 SUPPLEMENTARY MATERIAL FOR PERKIN TRANSACTIONS 1 THIS JOURNAL
1 SUPPLEMENTARY MATERIALS SUPPLEMENTARY TABLE 1 DESCRIPTION OF DES
1 SUPPLEMENTARY TABLE 1 CATEGORIZATION OF THE 120 NODULES

Organism

Supplementary Table 3: Overlap between PITA predictions and other microRNA target prediction methods, and among other methods. (a) Comparison between PITA predictions and other methods. For each comparison, shown is the number of targets predicted by the compared method, and the number of these targets that are also predicted by PITA (overlap column). For the PITA predictions, we selected its k highest ranking targets, where k in each comparison is equal to the number of targets predicted by the compared method. (b) Comparison between existing microRNA target prediction methods. For each pair of compared methods, shown is the number of targets of each method, and the overlap. The overlap is computed by constructing a binary set of microRNA-target pairs for each of the methods and counting the number of pairs that appear in both sets. The overlap percentage is given in respect to each of the compared prediction set sizes.

For each comparison, the input set of predictions was narrowed down to include only genes on which both methods have reported at least one target and only microRNAs for which both methods have reported at least one target.

(a)

Organism	Method	Num. Targets	Overlap	Overlap (%)
Human	PicTar	15,345	4,166	27
	TargetScan	7,847	1,471	18
	miRanda	1,142	183	16
Mouse	PicTar	46,928	9,938	21
Mouse	TargetScan	19,187	3,214	16
Fly	Stark	8,942	2,314	25
	PicTar (s1)	9,535	2,042	21
	PicTar (s3)	5,031	939	18
	miRanda	9,393	1,887	20

(b)

Organism	Method I	N. Targets I	Method II	N. Targets II	Overlap	Overlap (%)
Human	PicTar	17,137	TargetScan	16,891	13,010	75 / 77
	PicTar	16,522	miRanda	3,110	2,148	13 / 69
	TargetScan	7,297	miRanda	1,484	880	12 / 59
Mouse	PicTar	51,895	TargetScan	31,683	7,594	14 / 23
Fly	Stark	8,359	PicTar (s1)	6,736	6,487	77 / 96
	Stark	6,158	PicTar (s3)	3,891	3,773	61/ 96
	Stark	7,644	miRanda	6,162	3,164	41 / 51
	PicTar (s1)	7,817	miRanda	7,941	3,455	44 / 43
	PicTar (s3)	4,306	miRanda	5,791	2,178	50 / 37

10 SUPPLEMENTARY DATA FOR “THE VACUUM UV PHOTOABSORPTION SPECTROSCOPY
11 Supplementary Record Form Advanced Livestock Record Rabbits 20to
12 SUPPLEMENTARY MATERIALS THIS FILE CONTAINS THREE SUPPLEMENTARY TABLES

Tags: between pita, comparison between, supplementary, overlap, between, predictions, table, other