ET-GRU : using multi-layer gated recurrent units to identify electron transport proteins by Le, Nguyen Quoc Khanh, Yapp, Edward Kien Yee, Yeh, Hui-Yuan

“…Conclusions: Through the proposed study, we provide ET-GRU, a web server for discriminating electron transport proteins in particular and other protein functions in general. …”
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Heterologous expression of Plasmodium vivax apical membrane antigen 1 (PvAMA1) for binding peptide selection by Chew, C.H., Lim, Yvonne Ai Lian, Chua, Kek Heng

“…The binding sites of each selected peptides toward PvAMA1 (Protein Data Bank, PDB ID: 1W8K) were in silico predicted using CABS-dock web server. In this case, the binding peptides provide a valuable starting point for the development of peptidomimetic as antimalarial antagonists directed at PvAMA1.…”

A multi-filter feature selection in detecting distributed denial-of-service attack by Yon, Yi Jun, Leau, Yu-Beng, Suraya Alias, Park, Yong Jin

“…Flash crowd attack is the most challenging problem among the attacks which targeting the web server during the Flash Events (FEs). It mimics the behaviour of legitimate users and sends high rate malicious traffics toward the server and block the normal users from using the desired services. …”
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An IoT-based coastal recreational suitability system using effective messaging protocol by Farashazillah Yahya, Ahmad Farhan Ahmad Zaki, Ervin Gubin Moung, Hasimi Sallehudin, Nur Azaliah Abu Bakar, Rio Guntur Utomo

“…The system is developed using PHP, MySQL, and Apache Web Server and can be accessed online at https://ipantai.xyz. …”
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Adaptive method to improve web recommendation system for anonymous users by Almurtadha, Yahya Mohammed

“…For the evaluating purpose, the experiments were carried out on the public CTI logs file dataset which contains the preprocessed and filtered sessionized data for the main DePaul CTI Web server. AWRS was evaluated and shows better performance as compared to several recommendation systems namely, iPACT, Association Rules and Hybrid systems. …”
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Monitoring cathodic protection system for underground pipeline by Thai, Seng Choong

“…An electronic prototype were designed, fabricated and tested to monitor the pipelines drain point voltage, transformer rectifier voltage, shunt current, humidity and temperature using a local server system whereby all the data collected are stored on a local storage before synchronizing to the internet’s web server database using the cloud system. In the software development, a mobile application was implemented on an Android platform to enable mobile users to view and monitor the cathodic protection seamlessly from anywhere around the world. …”
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Mitochondrial DNA mutations in Malaysian female breast cancer patients by Omasanggar, Raevathi, Yu, Choo Yee, Ang, Geik Yong, Emran, Nor Aina, Kitan, Normayah, Baghawi, Anita, Ahmad, Atiki Falparado, Abdullah, Maizaton Atmadini, Teh, Lay Kek, Maniam, Sandra

“…MtDNA variants were called and annotated using mtDNA-Server, a web server. A total of 18 of 20 patients had at least one somatic mtDNA mutation in their tumour samples. …”
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Prediction and expression of microrna targeting interleukin-17a in chondrocytes and synovial fibroblasts isolated from osteoarthritic knee by Ng Jun, Quan

“…DIANA-mirPATH analysis web server was used to identify potential pathways that could be targeted by the selected miRNAs. …”
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SNAP25 is a potential prognostic biomarker for prostate cancer by Longjiang Di, Maoli Gu, Yan Wu, Guoqiang Liu, Lishuo Zhang, Yifei Li, Wenjing Zhang

“…We identified SNAP25 as one such gene and analyzed the relationship between its expression in PCa to poor prognosis using GEPIA interactive web server. Results TCGA database demonstrated that SNAP25 was significantly downregulated in PCa. …”
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EukProt: A database of genome-scale predicted proteins across the diversity of eukaryotes by Richter, Daniel J., Berney, Cédric, Strassert, Jürgen F. H., Poh, Yu-Ping, Herman, Emily K., Muñoz-Gómez, Sergio A., Wideman, Jeremy G., Burki, Fabien, de Vargas, Colomban

“…The current version has a number of updates, notably ‘The Comparative Set’ (TCS), a reduced taxonomic set with high estimated completeness while maintaining a substantial phylogenetic breadth, which comprises 196 predicted proteomes. A BLAST web server and graphical displays of data set completeness are available at http://evocellbio.com/eukprot/. …”
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DeepMPF: deep learning framework for predicting drug–target interactions based on multi-modal representation with meta-path semantic analysis by Zhong-Hao Ren, Zhu-Hong You, Quan Zou, Chang-Qing Yu, Yan-Fang Ma, Yong-Jian Guan, Hai-Ru You, Xin-Fei Wang, Jie Pan

“…It can be utilized as a useful tool to prescreen the most potential drug candidates for the protein. The web server of the DeepMPF predictor is freely available at http://120.77.11.78/DeepMPF/ , which can help relevant researchers to further study.…”
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ACE: an efficient and sensitive tool to detect insecticide resistance-associated mutations in insect acetylcholinesterase from RNA-Seq data by Dianhao Guo, Jiapeng Luo, Yuenan Zhou, Huamei Xiao, Kang He, Chuanlin Yin, Jianhua Xu, Fei Li

“…Known ace resistance mutations were collected and used as a reference. We constructed a Web server for ACE, and the standalone software in both Linux and Windows versions is available for download. …”
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Neuropsychiatric Symptoms of COVID-19 Explained by SARS-CoV-2 Proteins’ Mimicry of Human Protein Interactions by Hale Yapici-Eser, Hale Yapici-Eser, Yunus Emre Koroglu, Yunus Emre Koroglu, Ozgur Oztop-Cakmak, Ozgur Oztop-Cakmak, Ozlem Keskin, Ozlem Keskin, Attila Gursoy, Attila Gursoy, Yasemin Gursoy-Ozdemir, Yasemin Gursoy-Ozdemir

“…HMI-PRED (Host-Microbe Interaction PREDiction), a recently developed web server for structural PREDiction of protein-protein interactions (PPIs) between host and any microbial species, was used to find the “interface mimicry” through which the microbial proteins hijack host binding surfaces. …”
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DeepSecE: A Deep-Learning-Based Framework for Multiclass Prediction of Secreted Proteins in Gram-Negative Bacteria by Yumeng Zhang, Jiahao Guan, Chen Li, Zhikang Wang, Zixin Deng, Robin B. Gasser, Jiangning Song, Hong-Yu Ou

“…The present analysis demonstrates that DeepSecE has major potential for the discovery of disease-associated secreted proteins in a diverse range of Gram-negative bacteria. An online web server of DeepSecE is also publicly available to predict and explore various secreted substrate proteins via the input of bacterial genome sequences.…”
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GeneCloudOmics: A Data Analytic Cloud Platform for High-Throughput Gene Expression Analysis by Mohamed Helmy, Mohamed Helmy, Rahul Agrawal, Javed Ali, Mohamed Soudy, Thuy Tien Bui, Kumar Selvarajoo, Kumar Selvarajoo, Kumar Selvarajoo

“…Here we present GeneCloudOmics, an easy-to-use web server for high-throughput gene expression analysis that extends the functionality of our previous ABioTrans with several new tools, including protein datasets analysis, and a web interface. …”
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Identification and Biological Evaluation of CK2 Allosteric Fragments through Structure-Based Virtual Screening by Chunqiong Li, Xuewen Zhang, Na Zhang, Yue Zhou, Guohui Sun, Lijiao Zhao, Rugang Zhong

“…The ChemBridge fragment library was searched by evaluating the fit values of these molecules with the optimized pharmacophore model, as well as the binding affinity of the CK2α-ligand complexes predicted by Alloscore web server. Six hits forming the holistic interaction mechanism with the αD pocket were retained after pharmacophore- and Alloscore-based screening for biological test. …”
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MTTLm⁶A: A multi-task transfer learning approach for base-resolution mRNA m⁶A site prediction based on an improved transformer by Honglei Wang, Wenliang Zeng, Xiaoling Huang, Zhaoyang Liu, Yanjing Sun, Lin Zhang

“…To enhance user convenience, we have made a user-friendly web server for MTTLm⁶A publicly available at <a target="_blank" xmlns:xlink="http://www.w3.org/1999/xlink" href="http://47.242.23.141/MTTLm6A/index.php">http://47.242.23.141/MTTLm6A/index.php…”
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Molecular analysis to identify novel potential biomarkers as drug targets in colorectal cancer therapy: an integrated bioinformatics analysis by Mansour K. Gatasheh, Sathan Raj Natarajan, Rajapandiyan Krishnamoorthy, Tawfiq S Alsulami, Ponnulakshmi Rajagopal, Chella Perumal Palanisamy, Vishnu Priya Veeraraghavan, Selvaraj Jayaraman

“…To gain insights into the functional roles of these hub genes, gene ontology and pathway enrichment were conducted thorough g: profiler web server. Subsequently, overall survival plots from GEPIA and oncogenic predictive functions like mRNA expressions for stages and nodal metastasis were employed to identify hub genes in CRC patient samples. …”
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Molecular docking study of sea urchin (Arbacia lixula) peptides as multi-target inhibitor for non-small cell lung cancer (NSCLC) associated proteins. by Muhammad Hermawan Widyananda, Setyaki Kevin Pratama, Rizky Senna Samoedra, Fikriya Novita Sari, Viol Dhea Kharisma, Arif Nur Muhammad Ansori, Yulanda Antonius

“…Methods: Peptide modeling was performed using the PEP-FOLD3 web server. Proteins that have a crucial role in NSCLC progression were determined using KEGG pathway database. 3D protein structures such as EGFR, PI3K, BRAF V600E, and JAK3 were taken from the RCSB PDB database. …”
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In silico Study of Antiviral Activity of Polyphenol Compounds from Ocimum basilicum by Molecular Docking, ADMET, and Drug-Likeness Analysis by Kurnia D, Putri SA, Tumilaar SG, Zainuddin A, Dharsono HDA, Amin MF

“…Apigenin-7-glucuronide, dihydrokaempferol-3-glucoside, and aesculetin are polyphenolic compounds found in Ocimum basilicum.Purpose: The purpose of this study was to analyze the mechanism of inhibition of the three polyphenolic compounds in Ocimum basilicum against the main protease and to predict pharmacokinetic activity and the drug-likeness of a compound using the Lipinski Rule of Five.Patients and Methods: The method used is to predict the molecular docking inhibition mechanism using Autodock 4.0 tools and use pkcsm and protox online web server to analyze ADMET and Drug-likeness.Results: The binding affinity for apigenin-7-glucuronide was − 8.77 Kcal/mol, dihydrokaempferol-3-glucoside was − 8.96 Kcal/mol, and aesculetin was − 5.79 Kcal/mol. …”
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