BPG is committed to discovery and dissemination of knowledge
Cited by in CrossRef
For: Farooq QUA, Shaukat Z, Aiman S, Li CH. Protein-protein interactions: Methods, databases, and applications in virus-host study. World J Virol 2021; 10(6): 288-300 [PMID: 34909403 DOI: 10.5501/wjv.v10.i6.288]
URL: https://www.wjgnet.com/2220-3249/full/v10/i6/288.htm
Number Citing Articles
1
Network Pharmacology of Thalictrum simplex var. brevipes: Linking Chemical Constituents to Hepatitis Treatment TargetsTropical Journal of Natural Product Research 2025; 9(10) doi: 10.26538/tjnpr/v9i10.35
2
David Arteaga, Maria Poptsova. Prediction of protein-protein interactions using point transformer and spherical Convex Hull graphsComputational and Structural Biotechnology Journal 2026; 31: 82 doi: 10.1016/j.csbj.2025.12.008
3
Harry Zaverdas, Filip Stojceski, Rocío Romero-Zaliz, Lampros Androutsos, Pantelis Makrygiannis, Lorenzo Pallante, Vanessa Martos, Gianvito Grasso, Marco A. Deriu, Konstantinos Theofilatos, Seferina Mavroudi. Unravelling the human taste receptor interactome: machine learning and molecular modelling insights into protein-protein interactionsnpj Science of Food 2025; 9(1) doi: 10.1038/s41538-025-00478-9
4
Xin Li, Chunfu Zheng, Zhen Yang, Gongguan Liu. Molecular VirologyMethods in Molecular Biology 2025; 2940: 79 doi: 10.1007/978-1-0716-4615-1_8
5
Alvaro Furones Cuadrado, Daniël Van Damme, Martin Janda. Unlocking protein–protein interactions in plants: a comprehensive review of established and emerging techniquesJournal of Experimental Botany 2024; 75(17): 5220 doi: 10.1093/jxb/erae088
6
Prabuddha Waduge, Hong Tian, Keith A. Webster, Wei Li. Profiling disease-selective drug targets: From proteomics to ligandomicsDrug Discovery Today 2023; 28(3): 103430 doi: 10.1016/j.drudis.2022.103430
7
Gomathy Subramanian, Hannah Lalengzuali Fanai, Jagdish Chand, Sheikh F. Ahmad, Sabry M. Attia, Talha Bin Emran. System biology-based assessment of the molecular mechanism of IMPHY000797 in Parkinson’s disease: a network pharmacology and in-silico evaluationScientific Reports 2024; 14(1) doi: 10.1038/s41598-024-75603-x
8
Peicong Lin, Yumeng Yan, Sheng-You Huang. DeepHomo2.0: improved protein–protein contact prediction of homodimers by transformer-enhanced deep learningBriefings in Bioinformatics 2023; 24(1) doi: 10.1093/bib/bbac499
9
Yasunari Matsuzaka, Ryu Yashiro. Applications of reinforcement learning, machine learning, and virtual screening in SARS-CoV-2-related proteins Computing and Artificial Intelligence 2024; 2(2): 1279 doi: 10.59400/cai.v2i2.1279
10
Maria-Anna Kyrgiafini, Themistoklis Giannoulis, Alexia Chatziparasidou, Nikolaos Christoforidis, Zissis Mamuris. Whole-Genome Profile of Greek Patients with Teratozοοspermia: Identification of Candidate Variants and GenesGenes 2022; 13(9): 1606 doi: 10.3390/genes13091606
11
Mengze Wu, Zhao Zou, Yuce Peng, Suxin Luo. Combination of machine learning and protein‑protein interaction network established one ATM‑DPP4‑TXN ferroptotic diagnostic model with experimental validationMolecular Medicine Reports 2025; 32(3): 1 doi: 10.3892/mmr.2025.13604
12
Jyoti Kant Choudhari, Abhinav Gupta, Shaifali Bhatt, Sonu Kurmi, Usha Chouhan. Systems Biology and In-Depth Applications for Unlocking Diseases2025; : 165 doi: 10.1016/B978-0-443-22326-6.00013-4
13
Gagandeep Kaur, Komal Thapa, Parul Sood, Lata Rani, Isha Rani, Rupesh K. Gautam, Kavita Goyal, Haider Ali, Rakhi Mishra, Md Sadique Hussain, Gaurav Gupta. Therapeutic potential of protein–protein interaction modulators in antiviral researchBioorganic Chemistry 2026; 168: 109346 doi: 10.1016/j.bioorg.2025.109346
14
Nitish Rai, Namita Ashish Singh, Vivek Jain, Preet Jain, Alexander Choi, Saurabh K. Sinha. Systems Biology Approaches: Prevention, Diagnosis, and Understanding Mechanisms of Complex Diseases2024; : 1 doi: 10.1007/978-981-99-9462-5_1
15
Network pharmacology and molecular docking insights into Sirtuin-2 inhibitors (AK-7 and AGK-2): A synergistic strategy for COPD treatmentHuman Gene 2025; 43: 201360 doi: 10.1016/j.humgen.2024.201360
16
Gulshan Kumar, Rajive Kumar Brahmchari, Rajesh Kumar, Prem Prakash Srivastava. Aquatic Genomics and Food Security2026; : 329 doi: 10.1007/978-3-032-14971-8_14
17
Bugude Laxmi, Palempalli Uma Maheswari Devi, Naveen Thanjavur, Viswanath Buddolla. The Applications of Artificial Intelligence (AI)-Driven Tools in Virus-Like Particles (VLPs) ResearchCurrent Microbiology 2024; 81(8) doi: 10.1007/s00284-024-03750-5
18
Preeti Thareja, Rajender Singh Chhillar, Sandeep Dalal, Sarita Simaiya, Umesh Kumar Lilhore, Roobaea Alroobaea, Majed Alsafyani, Abdullah M. Baqasah, Sultan Algarni. Intelligence model on sequence-based prediction of PPI using AISSO deep concept with hyperparameter tuning processScientific Reports 2024; 14(1) doi: 10.1038/s41598-024-72558-x
19
Deepanjan Chattopadhyay, Sanjib Das, Paromita Saha Mondal, Tanushree Mondal, Subhasree Samanta, Amalesh Mondal, Achintya Mohan Goswami, Tanima Saha. PPI network identifies interacting pathogenic signaling pathways in Candida albicans Molecular Omics 2025; 21(4): 315 doi: 10.1039/D5MO00042D
20
Zhipu Liu, Long Liu, Shutong Liu, Yuhao Ba, Anning Zuo, Hui Xu, Yuyuan Zhang, Senyan Wang, Libo Wang, Xinwei Han. Genome‐Scale CRISPR‐Cas9 Analysis Reveals Tumor Heterogeneity and Identifies NDC80 as Novel Biomarker in HCCJournal of Gastroenterology and Hepatology 2025; 40(8): 2078 doi: 10.1111/jgh.17016
21
Lorenzo Tagliazucchi, Maria Paola Costi. Mass Spectrometry Proteomics: A Key to Faster Drug DiscoveryJournal of Medicinal Chemistry 2025;  doi: 10.1021/acs.jmedchem.5c01986
22
Binghua Li, Xin Li, Xiaoyu Li, Li Wang, Jun Lu, Jia Wang. Prediction of influenza A virus-human protein-protein interactions using XGBoost with continuous and discontinuous amino acids informationPeerJ 2025; 13: e18863 doi: 10.7717/peerj.18863
23
Hamza Ali Mari, Maham Taqi, Abrar Ahmed Rattar, Ahsan Jamal Memon, Muhammad Talha Nasir, Arleen Yousuf. Next-Generation Computational Approaches for Biological Network AnalysisBioMed Target Journal 2025; 3(1): 32 doi: 10.59786/bmtj.313
24
Biswajit Karan, Satyajit Mahapatra, Sitanshu Sekhar Sahu, Dev Mani Pandey, Sumit Chakravarty. Computational models for prediction of protein–protein interaction in rice and Magnaporthe griseaFrontiers in Plant Science 2023; 13 doi: 10.3389/fpls.2022.1046209
25
Xiao Hu, Jinsong Feng, Xinyu Liao, Tian Ding, Ruiling Lü. Proteomic mechanism of Bacillus cereus endospore against plasma-activated water (PAW) Food Science and Human Wellness 2025; 14(5): 9250302 doi: 10.26599/FSHW.2024.9250302
26
Binghua Li, Xiaoyu Li, Xian Tang, Jia Wang. Prediction and Evaluation of Coronavirus and Human Protein–Protein Interactions Integrating Five Different Computational MethodsProteins: Structure, Function, and Bioinformatics 2025; 93(9): 1553 doi: 10.1002/prot.26826
27
Shuangyi Cai, Thomas Hu, Abhijeet Venkataraman, Felix G. Rivera Moctezuma, Efe Ozturk, Nicholas Zhang, Mingshuang Wang, Tatenda Zvidzai, Sandip Das, Adithya Pillai, Frank Schneider, Suresh S. Ramalingam, You-Take Oh, Shi-Yong Sun, Ahmet F. Coskun. Spatially resolved subcellular protein–protein interactomics in drug-perturbed lung-cancer cultures and tissuesNature Biomedical Engineering 2024; 9(7): 1039 doi: 10.1038/s41551-024-01271-x
28
Lingtao Chen, Kazi Fahim Ahmad Nasif, Bobin Deng, Shuteng Niu, Chloe Yixin Xie. Predicting Protein-Protein Binding Affinity with Deep Learning: A Comparative Analysis of CNN and Transformer Models2024 IEEE 36th International Conference on Tools with Artificial Intelligence (ICTAI) 2024; : 548 doi: 10.1109/ICTAI62512.2024.00083
29
Yane Li, Chengfeng Wang, Haibo Gu, Hailin Feng, Yaoping Ruan. ESMDNN-PPI: a new protein–protein interaction prediction model developed with protein language model of ESM2 and deep neural networkMeasurement Science and Technology 2024; 35(12): 125701 doi: 10.1088/1361-6501/ad761c
30
Jagdish Chand, Hannah Lalengzuali Fanai, Shriram D. Ranade, Sheikh F. Ahmad, Haneen A. Al-Mazroua, Talha Bin Emran, Gomathy Subramanian. Molecular Docking, Molecular Dynamics Simulation, Network Pharmacology, and Therapeutic Potential of SIRT-1720 Against MPP+-induced Toxicity in SH-SY5Y Cells in Parkinson’s Disease: In Vitro StudiesJournal of Computational Biophysics and Chemistry 2026; 25(07): 1053 doi: 10.1142/S2737416525500796
31
Jie Qian, Lin Yang, Zhen Duan, Renxiao Wang, Yifei Qi. PPAP: A Protein–protein Affinity Predictor Incorporating Interfacial Contact-Aware AttentionJournal of Chemical Information and Modeling 2025; 65(19): 9987 doi: 10.1021/acs.jcim.5c01390
32
Ali A. Rabaan, Muhammed A. Bakhrebah, Jawaher Alotaibi, Zuhair S. Natto, Rahaf S. Alkhaibari, Eman Alawad, Huda M. Alshammari, Sara Alwarthan, Mashael Alhajri, Mohammed S. Almogbel, Maha H. Aljohani, Fadwa S. Alofi, Nada Alharbi, Wasl Al-Adsani, Abdulrahman M. Alsulaiman, Jehad Aldali, Fatimah Al Ibrahim, Reem S. Almaghrabi, Awad Al-Omari, Mohammed Garout. Unleashing the power of artificial intelligence for diagnosing and treating infectious diseases: A comprehensive reviewJournal of Infection and Public Health 2023; 16(11): 1837 doi: 10.1016/j.jiph.2023.08.021
33
Giridhar Chandrasekharan, Meera Unnikrishnan. High throughput methods to study protein-protein interactions during host-pathogen interactionsEuropean Journal of Cell Biology 2024; 103(2): 151393 doi: 10.1016/j.ejcb.2024.151393
34
Andrea Angarita-Rodríguez, Yeimy González-Giraldo, Juan J. Rubio-Mesa, Andrés Felipe Aristizábal, Andrés Pinzón, Janneth González. Control Theory and Systems Biology: Potential Applications in Neurodegeneration and Search for Therapeutic TargetsInternational Journal of Molecular Sciences 2023; 25(1): 365 doi: 10.3390/ijms25010365
35
Daryl Zheng Hao Aw, Denzel Xugeng Zhang, Marco Vignuzzi. Strategies and efforts in circumventing the emergence of antiviral resistance against conventional antiviralsnpj Antimicrobials and Resistance 2025; 3(1) doi: 10.1038/s44259-025-00125-z
36
Betül Asiye Karpuzcu, Erdem Türk, Ahmad Hassan Ibrahim, Onur Can Karabulut, Barış Ethem Süzek. Protein-Protein InteractionsMethods in Molecular Biology 2023; 2690: 401 doi: 10.1007/978-1-0716-3327-4_31
37
David Arteaga, Nikita Chervov, Maria Poptsova. Multimodal graph, surface, and language-based model for protein protein interaction predictionScientific Reports 2026; 16(1) doi: 10.1038/s41598-025-34758-x
38
David Villar-Álvarez, Mikhail Oliveira Leastro, Vicente Pallas, Jesús Ángel Sánchez-Navarro. Identification of Host Factors Interacting with Movement Proteins of the 30K Family in Nicotiana tabacumInternational Journal of Molecular Sciences 2024; 25(22): 12251 doi: 10.3390/ijms252212251
39
Sutanu Mukhopadhyay, Krishnendu Sinha, Suman Chakrabarty. Harnessing Allostery to Modulate Protein–Protein Interactions: From Function to Therapeutic InnovationsJournal of Molecular Biology 2025; 437(20): 169382 doi: 10.1016/j.jmb.2025.169382
40
Huimin Chen, Jiaxin Liu, Gege Tang, Gefei Hao, Guangfu Yang, Yu Xue. Bioinformatic Resources for Exploring Human–virus Protein–protein Interactions Based on Binding ModesGenomics, Proteomics & Bioinformatics 2024; 22(5) doi: 10.1093/gpbjnl/qzae075
41
Irene Kai Ru Tiong, Cher Chien Lau, Mimi Iryani Mat Taib, Khor Waiho, Patrick Sorgeloos, Yeong Yik Sung. Artemia as a model organism in stress response studies: current progress and future prospectsMarine Biology 2025; 172(1) doi: 10.1007/s00227-024-04569-1
42
Sama Akbarzadeh, Özlem Coşkun, Başak Günçer. Studying protein–protein interactions: Latest and most popular approachesJournal of Structural Biology 2024; 216(4): 108118 doi: 10.1016/j.jsb.2024.108118
43
Hong Yu, Li Li, Anthony Huffman, John Beverley, Junguk Hur, Eric Merrell, Hsin-hui Huang, Yang Wang, Yingtong Liu, Edison Ong, Liang Cheng, Tao Zeng, Jingsong Zhang, Pengpai Li, Zhiping Liu, Zhigang Wang, Xiangyan Zhang, Xianwei Ye, Samuel K. Handelman, Jonathan Sexton, Kathryn Eaton, Gerry Higgins, Gilbert S. Omenn, Brian Athey, Barry Smith, Luonan Chen, Yongqun He. A new framework for host-pathogen interaction researchFrontiers in Immunology 2022; 13 doi: 10.3389/fimmu.2022.1066733
44
Tingting Shu, Yan Zhang, Tong Sun, Yunxia Zhu. Polypeptide N-Acetylgalactosaminyl transferase 14 is a novel mediator in pancreatic β-cell function and growthMolecular and Cellular Endocrinology 2024; 591: 112269 doi: 10.1016/j.mce.2024.112269
45
Luiza de Oliveira Possa, Maria Roméria da Silva, Larissa Cassemiro Pacheco Monteiro, Ramila Cristiane Rodrigues, Renato Lima Senra, Tiago Antônio de Oliveira Mendes. Characterization of Molecular InteractionsMethods and Protocols in Food Science 2025; : 105 doi: 10.1007/978-1-0716-4294-8_8
46
Sanae Esskhayry, Ichrak Benamri, Afaf Lamzouri, Ouafae Kaissi, Rachida Fissoune, Ahmed Moussa, Fouzia Radouani. Adoption of an in-silico analysis approach to assess the functional and structural impacts of rpoB-encoded protein mutations on Chlamydia pneumoniae sensitivity to antibioticsBMC Microbiology 2025; 25(1) doi: 10.1186/s12866-025-03860-5
47
Interaction of DL-Valine/DL-Serine with Cationic and Anionic Surfactants in Aqueous Media: Volumetric, UV-visible Spectroscopic, and Conductometric StudiesColloid Journal 2024; 86(4): 588 doi: 10.1134/S1061933X2460009X
48
Yashoda N. Tripathi, Vinay K. Singh, Sunil Kumar, Vaishali Shukla, Mukesh Yadav, Ram S. Upadhyay. Identification of hub genes and potential networks by centrality network analysis of PCR amplified Fusarium oxysporum f. sp. lycopersici EF1α geneBMC Microbiology 2024; 24(1) doi: 10.1186/s12866-024-03434-x
49
Alexandra N. Filiatraut, Jaber R. Mianroodi, Nima H. Siboni, Mehdi B. Zanjani. Predicting micro/nanoscale colloidal interactions through local neighborhood graph neural networksJournal of Applied Physics 2023; 134(23) doi: 10.1063/5.0175062
50
Kaniha Sivakumar, Usha Subbiah. Computational analysis of non-synonymous SNPs in the human LCN2 geneEgyptian Journal of Medical Human Genetics 2024; 25(1) doi: 10.1186/s43042-024-00565-8
51
Andrea Becchimanzi, Giovanna De Leva, Rosanna Mattossovich, Serena Camerini, Marialuisa Casella, Giovanni Jesu, Ilaria Di Lelio, Sabrina Di Giorgi, Joachim R. de Miranda, Anna Valenti, Silvia Gigliotti, Francesco Pennacchio. Deformed wing virus coopts the host arginine kinase to enhance its fitness in honey bees (Apis mellifera)BMC Biology 2025; 23(1) doi: 10.1186/s12915-025-02117-x