Literature DB >> 23728082

Identification of synthetic lethal pairs in biological systems through network information centrality.

T Kranthi1, S B Rao, P Manimaran.   

Abstract

The immense availability of protein interaction data, provided with an abstract network approach is valuable for the improved interpretation of biological processes and protein functions globally. The connectivity of a protein and its structure are related to its functional properties. Highly connected proteins are often functionally cardinal and the knockout of such proteins leads to lethality. In this paper, we propose a new approach based on graph information centrality measures to identify the synthetic lethal pairs in biological systems. To illustrate the efficacy of our approach, we have applied it to a human cancer protein interaction network. It is found that the lethal pairs obtained were analogous to the experimental and computational inferences, implying that our approach can serve as a surrogate for predicting the synthetic lethality.

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Year:  2013        PMID: 23728082     DOI: 10.1039/c3mb25589a

Source DB:  PubMed          Journal:  Mol Biosyst        ISSN: 1742-2051


  9 in total

Review 1.  Computational methods, databases and tools for synthetic lethality prediction.

Authors:  Jing Wang; Qinglong Zhang; Junshan Han; Yanpeng Zhao; Caiyun Zhao; Bowei Yan; Chong Dai; Lianlian Wu; Yuqi Wen; Yixin Zhang; Dongjin Leng; Zhongming Wang; Xiaoxi Yang; Song He; Xiaochen Bo
Journal:  Brief Bioinform       Date:  2022-05-13       Impact factor: 13.994

2.  Candidate gene identification for systemic lupus erythematosus using network centrality measures and gene ontology.

Authors:  Bhaskara Rao Siddani; Lakshmi Priyanka Pochineni; Manimaran Palanisamy
Journal:  PLoS One       Date:  2013-12-02       Impact factor: 3.240

3.  Application of centrality measures in the identification of critical genes in diabetes mellitus.

Authors:  Chintagunta Ambedkar; Kiran Kumar Reddi; Naresh Babu Muppalaneni; Duggineni Kalyani
Journal:  Bioinformation       Date:  2015-02-28

4.  Ranking novel cancer driving synthetic lethal gene pairs using TCGA data.

Authors:  Hao Ye; Xiuhua Zhang; Yunqin Chen; Qi Liu; Jia Wei
Journal:  Oncotarget       Date:  2016-08-23

5.  Synthetic Lethality-based Identification of Targets for Anticancer Drugs in the Human Signaling Network.

Authors:  Lei Liu; Xiujie Chen; Chunyu Hu; Denan Zhang; Zhuo Shao; Qing Jin; Jingbo Yang; Hongbo Xie; Bo Liu; Ming Hu; Kehui Ke
Journal:  Sci Rep       Date:  2018-05-31       Impact factor: 4.379

6.  Functional buffering via cell-specific gene expression promotes tissue homeostasis and cancer robustness.

Authors:  Hao-Kuen Lin; Jen-Hao Cheng; Chia-Chou Wu; Feng-Shu Hsieh; Carolyn Dunlap; Sheng-Hong Chen
Journal:  Sci Rep       Date:  2022-02-22       Impact factor: 4.379

7.  Overcoming Selection Bias In Synthetic Lethality Prediction.

Authors:  Colm Seale; Yasin Tepeli; Joana P Gonçalves
Journal:  Bioinformatics       Date:  2022-07-25       Impact factor: 6.931

8.  Connectivity Homology Enables Inter-Species Network Models of Synthetic Lethality.

Authors:  Alexandra Jacunski; Scott J Dixon; Nicholas P Tatonetti
Journal:  PLoS Comput Biol       Date:  2015-10-09       Impact factor: 4.475

9.  Mapping the landscape of synthetic lethal interactions in liver cancer.

Authors:  Chen Yang; Yuchen Guo; Ruolan Qian; Yiwen Huang; Linmeng Zhang; Jun Wang; Xiaowen Huang; Zhicheng Liu; Wenxin Qin; Cun Wang; Huimin Chen; Xuhui Ma; Dayong Zhang
Journal:  Theranostics       Date:  2021-08-26       Impact factor: 11.556

  9 in total

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