Skip to main content

Table 1 Comparison of different software functions for CpG island

From: CpGPAP: CpG island predictor analysis platform

Year of publication

2011

2006

2003

2002

2000

Software

CpGPAP

CpGcluster

CpGIS

CpGProD

CpGPlot

Reference

[22]

[8]

[7]

[6]

[5]

Availability

http://140.127.113. 93/CpGPAP/

http://bioinfo2.ugr. es/CpGcluster/

http://cpgislands.usc.edu/

http://pbil.univ-lyon1.fr/softwar e/cpgprod_quer

http://www.ebi.ac.uk/Tools/emboss/cpgp

F

u

n

c

t

i

o

n

Type

Web-based

Web-based

Web-based

Web-

based

Web-

based

 

Parameters

settings

√

√

√

√

√

 

CpG island result

√

√

√

√

√

 

CpG dinucleotides

√

 

√

  
 

TSS

√

  

√

 
 

O/E ratio bar

√

   

√

 

GC% bar

√

    
 

Upload sequence

√

  

√

√

 

Data integrator

√

    
 

Standalone

√

    
 

version

√

√

√

√

 
 

Method

CPSO and

CGA

cluster

Sliding

window

Sliding

window

Sliding

window

  1. TSS: transcription start site. CPSO: complementary particle swarm optimization. CGA: complementary genetic algorithm