Table 4

Comparison among some different clustering strategies for protein complex problem.

Techniques

Protein Complexes

Protein Fraction

P-Value


G2/M TRANSITION OF MITOTIC CELL CYCLE


MCL (suggested)

app1, swe1, hsl7

2/3

2.17e-03

RNSC

app1, swe1, hsl7

2/3

2.17e-03

MCODE

--

2/3

2.17e-03


ACTIN FILAMENT DEPOLYMERIZATION


MCL (suggested)

act1, srv2, bnr1, bni1, cof1, trm5, aip1

4/7

4.92e-10

RNSC

act1, srv2, aip1, cof1

4/4

2.94e-05

MCODE

--

--

5.25e-03


ACTIN CYTOSKELETON ORGANIZATION


MCL (suggested)

sla2, abp1, yor284w, rvs167, ysc84, sla1, ynl086w, ypl246c, rvs161, acf2, ybr108w, yjr083c, ygr268c, ypr171w, yhr133c

7/15

4.65e-08

RNSC

sla2, yor284w, rvs167, ysc84, sla1, ygr268c, abp1

4/7

5.93e-05

MCODE

abp1, app1, rvs167, act1, yor284w, ysc84

4/6

1.93e-05


ACTIN POLYMERIZATION OR DEPOLYMERIZATION


MCL (suggested)

crn1, svl3

0/2

> 0.01

RNSC

crn1, svl3

0/2

> 0.01

MCODE

--

0/2

> 0.01


RHO PROTEIN SIGNAL TRASDUCTION


MCL (suggested)

--

--

--

RNSC

cla4, bni1, cdc42, gic2

3/4

1.04e-05

MCODE

cla4, cdc42, gic2

3/3

1.76e-06


Table reports a comparison among three clustering techniques contained into the knowledge base of the system: MCL, RNSC and MCODE. The suggested tool allows the system to reach the smallest p-values for all the complexes, but the Rho Protein Signal Trasduction cluster.

Fiannaca et al. BMC Bioinformatics 2013 14(Suppl 1):S5   doi:10.1186/1471-2105-14-S1-S5

Open Data