Difference between revisions of "Domain2Pathway by Pathway Specificity (PS)"

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(Created page with "Protein domains are basic functional units of proteins, yet domain-based pathway annotations for proteins are still challenging tasks because many domains are pervasive among ...")
 
 
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Protein domains are basic functional units of proteins, yet domain-based pathway annotations for proteins are still challenging tasks because many domains are pervasive among diverse pathways.
 
Protein domains are basic functional units of proteins, yet domain-based pathway annotations for proteins are still challenging tasks because many domains are pervasive among diverse pathways.
 
Nevertheless, some domains may exist in specific pathways.
 
Nevertheless, some domains may exist in specific pathways.
We therefore developed a network-based scoring scheme to quantify '''specificity of domain-pathway associations''', and then used it to classify ''''pathway-specific domains (PSDs)'''' and ''''non-specific domains (NSDs)''''.
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We therefore developed a network-based scoring scheme to quantify '''specificity of domain-pathway associations (PS)''', and then used it to classify ''''Pathway-Specific Domains (PSDs)'''' and ''''Non-Specific Domains (NSDs)''''.
  
  
*[http://www.netbiolab.org/wiki/images/0/09/WMI_program.zip Source codes for PS calculation]
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*[https://netbiolab.org/wiki/images/6/68/Ps.zip Source codes and data files for PS calculation]
*[http://www.netbiolab.org/wiki/images/1/1e/SC_WMI_12K.txt Example datafile]
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'''''Citation''''' : Jung Eun Shim, Ji Hyun Kim, Junha Shin, Ji Eun Lee and Insuk Lee, Network-based identification of pathway-specific protein domains and their implications for human diseases
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'''''Citation''''' : Jung Eun Shim, Ji Hyun Kim, Junha Shin, Ji Eun Lee and Insuk Lee, Pathway-specific protein domains are predictive for human diseases. PLoS Comput Biol 15(5):e1007052
  
 
'''''Contact Information''''' : Insuk Lee (insuklee[at]yonsei[dot]ac[dot]kr)
 
'''''Contact Information''''' : Insuk Lee (insuklee[at]yonsei[dot]ac[dot]kr)

Latest revision as of 19:33, 10 May 2019

Protein domains are basic functional units of proteins, yet domain-based pathway annotations for proteins are still challenging tasks because many domains are pervasive among diverse pathways. Nevertheless, some domains may exist in specific pathways. We therefore developed a network-based scoring scheme to quantify specificity of domain-pathway associations (PS), and then used it to classify 'Pathway-Specific Domains (PSDs)' and 'Non-Specific Domains (NSDs)'.



Citation : Jung Eun Shim, Ji Hyun Kim, Junha Shin, Ji Eun Lee and Insuk Lee, Pathway-specific protein domains are predictive for human diseases. PLoS Comput Biol 15(5):e1007052

Contact Information : Insuk Lee (insuklee[at]yonsei[dot]ac[dot]kr)

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