Drug–target interaction prediction: databases, web servers and computational models

X Chen, CC Yan, X Zhang, X Zhang, F Dai… - Briefings in …, 2016 - academic.oup.com
Identification of drug–target interactions is an important process in drug discovery. Although
high-throughput screening and other biological assays are becoming available …

Predictive genomics: a cancer hallmark network framework for predicting tumor clinical phenotypes using genome sequencing data

E Wang, N Zaman, S Mcgee, JS Milanese… - Seminars in cancer …, 2015 - Elsevier
Tumor genome sequencing leads to documenting thousands of DNA mutations and other
genomic alterations. At present, these data cannot be analyzed adequately to aid in the …

KATZLDA: KATZ measure for the lncRNA-disease association prediction

X Chen - Scientific reports, 2015 - nature.com
Accumulating experimental studies have demonstrated important associations between
alterations and dysregulations of lncRNAs and the development and progression of various …

[HTML][HTML] IRWRLDA: improved random walk with restart for lncRNA-disease association prediction

X Chen, ZH You, GY Yan, DW Gong - Oncotarget, 2016 - ncbi.nlm.nih.gov
In recent years, accumulating evidences have shown that the dysregulations of lncRNAs are
associated with a wide range of human diseases. It is necessary and feasible to analyze …

In silico polypharmacology of natural products

J Fang, C Liu, Q Wang, P Lin… - Briefings in bioinformatics, 2018 - academic.oup.com
Natural products with polypharmacological profiles have demonstrated promise as novel
therapeutics for various complex diseases, including cancer. Currently, many gaps exist in …

RKNNMDA: ranking-based KNN for MiRNA-disease association prediction

X Chen, QF Wu, GY Yan - RNA biology, 2017 - Taylor & Francis
Cumulative verified experimental studies have demonstrated that microRNAs (miRNAs)
could be closely related with the development and progression of human complex diseases …

DTI-HETA: prediction of drug–target interactions based on GCN and GAT on heterogeneous graph

K Shao, Y Zhang, Y Wen, Z Zhang… - Briefings in …, 2022 - academic.oup.com
Drug–target interaction (DTI) prediction plays an important role in drug repositioning, drug
discovery and drug design. However, due to the large size of the chemical and genomic …

Mathematical modeling and computational prediction of cancer drug resistance

X Sun, B Hu - Briefings in bioinformatics, 2018 - academic.oup.com
Diverse forms of resistance to anticancer drugs can lead to the failure of chemotherapy.
Drug resistance is one of the most intractable issues for successfully treating cancer in …

Identification and construction of combinatory cancer hallmark–based gene signature sets to predict recurrence and chemotherapy benefit in stage II colorectal cancer

S Gao, C Tibiche, J Zou, N Zaman, M Trifiro… - JAMA …, 2016 - jamanetwork.com
Importance Decisions regarding adjuvant therapy in patients with stage II colorectal cancer
(CRC) have been among the most challenging and controversial in oncology over the past …

LRLSHMDA: Laplacian regularized least squares for human microbe–disease association prediction

F Wang, ZA Huang, X Chen, Z Zhu, Z Wen, J Zhao… - Scientific reports, 2017 - nature.com
An increasing number of evidences indicate microbes are implicated in human physiological
mechanisms, including complicated disease pathology. Some microbes have been …