Structure-Based Approaches for Protein–Protein Interaction Prediction Using Machine Learning and Deep Learning by Despoina P. Kiouri, Georgios C. Batsis, Christos T. Chasapis

Subjects: “…Protein–Protein Interactions…”
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Targeting protein-protein interactions in drug discovery: Modulators approved or in clinical trials for cancer treatment by Cristina Camps-Fajol, Debora Cavero, Jordi Minguillón, Jordi Surrallés

Subjects: “…Protein-protein interaction…”
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SMAP3-ID for Identification of Endogenous Protein–Protein Interactions Reveals Regulation of Mitochondrial Activity by Lamins by Julia Warren, Jian Wang, Francis Dhoro, Bo Chao, Ashok Reddy, Stefanie Kaech Petrie, Larry L. David, Xiangshu Xiao, Bingbing X. Li

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Identification of Breast Cancer Biomarkers by Constructing Protein-Protein Interaction and miRNAs-mRNAs Networks by Azizeh Asadzadeh, Bita Behboodian, Parsa Bernoos, Masoumeh Shojaei Barjouei

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Identification of Host–Protein Interaction Network of Canine Parvovirus Capsid Protein VP2 in F81 Cells by Hongzhuan Zhou, Huanhuan Zhang, Xia Su, Fuzhou Xu, Bing Xiao, Jin Zhang, Qi Qi, Lulu Lin, Kaidi Cui, Qinqin Li, Songping Li, Bing Yang

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Protein-Protein Interactions Inferred from Domain-Domain Interactions in Genogroup II Genotype 4 Norovirus Sequences by Chuan-Ching Huang, Chuan Yi Tang

“…This study investigates the infection processes in protein-protein interactions between hosts and NoVs. Protein-protein interactions were collected from related Pfam NoV domains. …”
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Prediction of influenza A virus-human protein-protein interactions using XGBoost with continuous and discontinuous amino acids information by Binghua Li, Xin Li, Xiaoyu Li, Li Wang, Jun Lu, Jia Wang

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RAS, a Pentatricopeptide Repeat Protein, Interacts with OsTRX z to Regulate Chloroplast Gene Transcription and RNA Processing by Zhennan Qiu, Shiyong Wen, Peinan Sun, Dongdong Chen, Chunmiao Wang, Xiliang Song, Liying Xiao, Peiliang Zhang, Dongying Zhao, Cuiping Wen, Peiyan Guan, Xuechu Du, Yinghui Sun, Chenshan Xu, Jian Song

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Redesigning error control in cross-linking mass spectrometry enables more robust and sensitive protein-protein interaction studies by Boris Bogdanow, Max Ruwolt, Julia Ruta, Lars Mühlberg, Cong Wang, Wen-feng Zeng, Arne Elofsson, Fan Liu

“…Abstract Cross-linking mass spectrometry (XL-MS) allows characterizing protein-protein interactions (PPIs) in native biological systems by capturing cross-links between different proteins (inter-links). …”
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PATL2 mutations affect human oocyte maternal mRNA homeostasis and protein interactions in cell cycle regulation by Yin-Li Zhang, Zhanhong Hu, Huifang Jiang, Jiamin Jin, Yan Zhou, Mengru Lai, Peipei Ren, Siya Liu, Ying-Yi Zhang, Yan Rong, Wei Zheng, Shen Zhang, Xiaomei Tong, Songying Zhang

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Novel drug targets for monkeypox: From viral to host proteins by Zhaozhong Zhu, Qin Sun, Yunhai Xu, Youya Niu, Fei Yang, Shuidong Feng

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Pathway Detection from Protein Interaction Networks and Gene Expression Data Using Color-Coding Methods and A* Search Algorithms by Cheng-Yu Yeh, Hsiang-Yuan Yeh, Carlos Roberto Arias, Von-Wun Soo

“…With the large availability of protein interaction networks and microarray data supported, to identify the linear paths that have biological significance in search of a potential pathway is a challenge issue. …”
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Exploring the antifungal potential of Cannabis sativa-derived stilbenoids and cannabinoids against novel targets through in silico protein interaction profiling by Kevser Kübra Kırboğa, Aman Karim, Ecir Uğur Küçüksille, Mithun Rudrapal, Johra Khan, Raghu Ram Achar, Ekaterina Silina, Natalia Manturova, Victor Stupin

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Research Progress in the Formation of Flavor Substances in Soymilk, Their Interaction Mechanism with Proteins and Biological Methods for Improving the Flavor of Soymilk by GAO Yu, QI Baokun, LIAO Yi, YAN Shizhang, LI Yang, HUANG Yuyang

Subjects: “…soymilk; flavor substance-protein interactions; biological methods; flavor improvement…”
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Pooled PPIseq: Screening the SARS-CoV-2 and human interface with a scalable multiplexed protein-protein interaction assay platform. by Darach Miller, Adam Dziulko, Sasha Levy

“…Protein-Protein Interactions (PPIs) are a key interface between virus and host, and these interactions are important to both viral reprogramming of the host and to host restriction of viral infection. …”
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Computational structure-based design of antiviral peptides as potential protein–protein interaction inhibitors of rabies virus phosphoprotein and human LC8 by Saman Rahmati, Fatemeh Zandi, Khadijeh Ahmadi, Ahmad Adeli, Niloofar Rastegarpanah, Massoud Amanlou, Behrouz Vaziri

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Direct and Indirect Protein Interactions Link FUS Aggregation to Histone Post-Translational Modification Dysregulation and Growth Suppression in an ALS/FTD Yeast Model by Seth A. Bennett, Samantha N. Cobos, Raven M. A. Fisher, Elizaveta Son, Rania Frederic, Rianna Segal, Huda Yousuf, Kaitlyn Chan, David K. Dansu, Mariana P. Torrente

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Recognition and cleavage of human tRNA methyltransferase TRMT1 by the SARS-CoV-2 main protease by Angel D'Oliviera, Xuhang Dai, Saba Mottaghinia, Sophie Olson, Evan P Geissler, Lucie Etienne, Yingkai Zhang, Jeffrey S Mugridge

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Proteome-Wide Identification and Comparison of Drug Pockets for Discovering New Drug Indications and Side Effects by Renxin Zhang, Zhiyuan Chen, Shuhan Li, Haohao Lv, Jinjun Li, Naixue Yang, Shaoxing Dai

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An optimized deep-forest algorithm using a modified differential evolution optimization algorithm: A case of host-pathogen protein-protein interaction prediction by Jerry Emmanuel, Itunuoluwa Isewon, Jelili Oyelade

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