Network-based disease gene prioritization based on Protein-Protein Interaction Networks

被引:5
|
作者
Kaushal, Palak [1 ]
Singh, Shailendra [1 ]
机构
[1] Deemed Be Univ, Dept Comp Sci & Engn, Punjab Engn Coll, Chandigarh 160012, India
关键词
Network disease gene prioritization; Protein-protein interaction network; Candidate gene prioritization; BIOLOGICAL NETWORKS; EXPRESSION DATA; ASSOCIATION; INFORMATION; DATABASE; TOOL; INTEGRATION; SIMILARITY; LINKAGE; BREAST;
D O I
10.1007/s13721-020-00260-9
中图分类号
Q [生物科学];
学科分类号
07 ; 0710 ; 09 ;
摘要
The process to identify genes responsible for a disease is a complex task. The various experimental techniques developed to identify disease-causing genes suffer from the problem of high-cost and high time consumption. Thus, with the increasing amount of biological information available online various computational techniques have been developed to complete this complex task of identification of disease-causing genes. A more accepted view is that the genes related to similar diseases reside in the same neighborhood of the molecular network. In this review, various categories of computational techniques for disease gene prioritization have been highlighted and compared. The work majorly focuses on various categories of approaches that use protein-protein interaction networks with data from heterogeneous sources and heterogeneous biological types. Furthermore, a comparison of these approaches is done and also some issues related to them are discussed.
引用
收藏
页数:16
相关论文
共 50 条
  • [41] A hub-protein based visualization of large protein-protein interaction networks
    Bang, SunLee
    Choi, JaeHun
    Park, JongMin
    Park, Soo-Jun
    2007 ANNUAL INTERNATIONAL CONFERENCE OF THE IEEE ENGINEERING IN MEDICINE AND BIOLOGY SOCIETY, VOLS 1-16, 2007, : 1217 - +
  • [42] Assessment of community efforts to advance network-based prediction of protein-protein interactions
    Wang, Xu-Wen
    Madeddu, Lorenzo
    Spirohn, Kerstin
    Martini, Leonardo
    Fazzone, Adriano
    Becchetti, Luca
    Wytock, Thomas P.
    Kovacs, Istvan A.
    Balogh, Oliver M.
    Benczik, Bettina
    Petervari, Matyas
    Agg, Bence
    Ferdinandy, Peter
    Vulliard, Loan
    Menche, Joerg
    Colonnese, Stefania
    Petti, Manuela
    Scarano, Gaetano
    Cuomo, Francesca
    Hao, Tong
    Laval, Florent
    Willems, Luc
    Twizere, Jean-Claude
    Vidal, Marc
    Calderwood, Michael A.
    Petrillo, Enrico
    Barabasi, Albert-Laszlo
    Silverman, Edwin K.
    Loscalzo, Joseph
    Velardi, Paola
    Liu, Yang-Yu
    NATURE COMMUNICATIONS, 2023, 14 (01)
  • [43] Identifying essential proteins based on protein domains in protein-protein interaction networks
    Wang, Jianxin
    Peng, Wei
    Chen, Yingjiao
    Lu, Yu
    Pan, Yi
    2013 IEEE INTERNATIONAL CONFERENCE ON BIOINFORMATICS AND BIOMEDICINE (BIBM), 2013,
  • [44] Prediction of Protein-Protein Interactions Related to Protein Complexes Based on Protein Interaction Networks
    Liu, Peng
    Yang, Lei
    Shi, Daming
    Tang, Xianglong
    BIOMED RESEARCH INTERNATIONAL, 2015, 2015
  • [45] NetLoc: Network Based Protein Localization Prediction Using Protein-Protein Interaction and Co-expression Networks
    Mondal, Ananda M.
    Hu, Jianjun
    2010 IEEE INTERNATIONAL CONFERENCE ON BIOINFORMATICS AND BIOMEDICINE, 2010, : 142 - 148
  • [46] Identifying protein complexes based on density and modularity in protein-protein interaction network
    Ren, Jun
    Wang, Jianxin
    Li, Min
    Wang, Lusheng
    BMC SYSTEMS BIOLOGY, 2013, 7
  • [47] Disease-Gene Networks of Skin Pigmentation Disorders and Reconstruction of Protein-Protein Interaction Networks
    D'Arcy, Cian
    Bass, Olivia
    Junk, Philipp
    Sevrin, Thomas
    Oliviero, Giorgio
    Wynne, Kieran
    Halasz, Melinda
    Kiel, Christina
    BIOENGINEERING-BASEL, 2023, 10 (01):
  • [48] Detecting disease genes based on semi-supervised learning and protein-protein interaction networks
    Thanh-Phuong Nguyen
    Tu-Bao Ho
    ARTIFICIAL INTELLIGENCE IN MEDICINE, 2012, 54 (01) : 63 - 71
  • [49] Protein-protein interaction networks and subnetworks in the biology of disease
    Nibbe, Rod K.
    Chowdhury, Salim A.
    Koyutuerk, Mehmet
    Ewing, Rob
    Chance, Mark R.
    WILEY INTERDISCIPLINARY REVIEWS-SYSTEMS BIOLOGY AND MEDICINE, 2011, 3 (03) : 357 - 367
  • [50] Collaboration-Based Function Prediction in Protein-Protein Interaction Networks
    Rahmani, Hossein
    Blockeel, Hendrik
    Bender, Andreas
    ADVANCES IN INTELLIGENT DATA ANALYSIS X: IDA 2011, 2011, 7014 : 318 - +