In silico molecular docking: Evaluation of coumarin based derivatives against SARS-CoV-2 by Sathish Kumar Chidambaram, Daoud Ali, Saud Alarifi, Surendrakumar Radhakrishnan, Idhayadhulla Akbar

“…Whereas the 3D assembly of main protease of SARS coronavirus was forecast with SWISS MODEL web server, and molecular interaction studies amongst target protein and ligands were done with AutoDock Vina software. …”
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Prediction of vitamin interacting residues in a vitamin binding protein using evolutionary information by Panwar Bharat, Gupta Sudheer, Raghava Gajendra P S

“…In order to provide service to the scientific community, we have developed web-server and standalone software <it>VitaPred</it> (<url>http://crdd.osdd.net/raghava/vitapred/</url>).…”
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MetaMQAP: A meta-server for the quality assessment of protein models by Bujnicki Janusz M, Matlak Ryszard, Gajda Michal J, Pawlowski Marcin

“…</p> <p>We implemented the MetaMQAP as a web server available for free use by all academic users at the URL <url>https://genesilico.pl/toolkit/</url></p>…”
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Subtypes of NanS-p Sialate O-Acetylesterase Encoded by Stx2a Bacteriophages by Stefanía B. Pascal, Juan R. Lorenzo Lopez, Paula M. A. Lucchesi, Alejandra Krüger

“…A total of 59 DNA sequences of Stx2a phages were extracted from the NCBI GenBank database with the BLAST program using the <i>stx</i>_2a sequence from phage 933W as a query sequence, either as complete phage genomes (45) or from bacterial genomes by subsequent analysis with the PHASTER web server (14). Comparative analysis revealed that <i>nan</i>S-p was located downstream of <i>stx</i>_2a in all genomes. …”
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CTpathway: a CrossTalk-based pathway enrichment analysis method for cancer research by Haizhou Liu, Mengqin Yuan, Ramkrishna Mitra, Xu Zhou, Min Long, Wanyue Lei, Shunheng Zhou, Yu-e Huang, Fei Hou, Christine M. Eischen, Wei Jiang

“…The CTpathway interactive web server can be accessed here http://www.jianglab.cn/CTpathway/ . …”
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The Brain Monitoring with Information Technology (BrainIT) collaborative network: by Ian Piper, Iain Chambers, Giuseppe Citerio, Per Enblad, Barbara Gregson, Tim Howells, Karl Kiening, Julia Mattern, Pelle Nilsson, Arminas Ragauskas, Juan Sahuquillo, St. M. Iencean, R. Donald, R. Sinnott, A. Stell

“…Over a three year period, data collection client and web-server based tools were developed and core data (grouped into 9 categories) were collected from 200 head-injured patients by local nursing staff in 22 European neuro-intensive care centres. …”
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Tumor mutational burden presents limiting effects on predicting the efficacy of immune checkpoint inhibitors and prognostic assessment in adrenocortical carcinoma by Fangshi Xu, Yibing Guan, Peng Zhang, Li Xue, Yubo Ma, Mei Gao, Tie Chong, Bin-Cheng Ren

“…First, the effects of TMB levels on tumor immune microenvironment (TIM) were analyzed through CIBERSORT algorithm, ssGSEA method and TIMER web server. Second, we investigated the expressive correlations between TMB level and five pivotal immune checkpoints based on Pearson coefficient. …”
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The use of machine learning methods in the development of nasal dosage forms with cerebroprotective action by B. S. Burlaka, I. F. Bielenichev

“…They are posted on the web server of the expert system ExpSys Nasalia (nasalia.zsmu.zp.ua) in the calculations section. …”
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A Flexible 12-Lead/Holter Device with Compression Capabilities for Low-Bandwidth Mobile-ECG Telemedicine Applications by Flavio Pineda-López, Andrés Martínez-Fernández, José Luis Rojo-Álvarez, Arcadi García-Alberola, Manuel Blanco-Velasco

“…On the other hand, electronic health recording of the patients are registered in a web application, which in turn allows them to connect to the Internet from their cellphones, and the ECG signals are then sent though a web server for subsequent and ubiquitous analysis by doctors at any convenient terminal device. …”
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A genomic and transcriptomic study toward breast cancer by Shan Wang, Shan Wang, Pei Shang, Guangyu Yao, Changsheng Ye, Lujia Chen, Xiaolei Hu

“…MicroRNAs and transcription factors targeted different expression genes and were predicted by the Enrichr web server.Result: The analysis of these elements implied that the carcinogenesis and development of triple-negative breast cancer were the most important and complicated in breast carcinoma, occupying the most different expression genes, modules, seed genes, hub genes, and the most complex protein–protein interaction network and signal pathway. …”
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Analysis and prediction of cancerlectins using evolutionary and domain information by Chauhan Jagat S, Panwar Bharat, Kumar Ravi, Raghava Gajendra PS

“…The method developed in this study will be useful for researchers studying cancerlectins, lectins and cancer biology. The web-server based on the above study, is available at <url>http://www.imtech.res.in/raghava/cancer_pred/</url></p>…”
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PIDS: A User-Friendly Plant DNA Fingerprint Database Management System by Bin Jiang, Yikun Zhao, Hongmei Yi, Yongxue Huo, Haotian Wu, Jie Ren, Jianrong Ge, Jiuran Zhao, Fengge Wang

“…We developed the plant international DNA-fingerprinting system (PIDS) using an open source web server and free software that has automatic collection, storage, and efficient management functions based on merging and comparison algorithms to handle massive microsatellite DNA fingerprint data. …”
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Diosgenin and Monohydroxy Spirostanol from <i>Prunus amygdalus var amara</i> Seeds as Potential Suppressors of EGFR and HER2 Tyrosine Kinases: A Computational Approach by Mohammed Helmy Faris Shalayel, Ghassab M. Al-Mazaideh, Abdulkareem A. Alanezi, Afaf F. Almuqati, Meshal Alotaibi

“…Furthermore, the drug-likeness and ADMET predictions, performed using the admetSAR 2.0 web-server tool, suggested that diosgenin and monohydroxy spirostanol have similar safety and ADMET properties as the reference drugs. …”
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iTCep: a deep learning framework for identification of T cell epitopes by harnessing fusion features by Yu Zhang, Yu Zhang, Xingxing Jian, Xingxing Jian, Linfeng Xu, Linfeng Xu, Jingjing Zhao, Manman Lu, Yong Lin, Lu Xie

“…One can access the iTCep through a user-friendly web server at http://biostatistics.online/iTCep/, which supports prediction modes of peptide-TCR pairs and peptide-only. …”
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SeqCP: A sequence-based algorithm for searching circularly permuted proteins by Chi-Chun Chen, Yu-Wei Huang, Hsuan-Cheng Huang, Wei-Cheng Lo, Ping-Chiang Lyu

“…SeqCP has been implemented into a web server available at: http://pcnas.life.nthu.edu.tw/SeqCP/.…”
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Users Engage More with Interface than Materials at Welsh Newspapers Online Website by Kathleen Reed

“…Design – Analysis of Google Analytics and web server content logs. Setting – Welsh Newspapers Online website: http://newspapers.library.wales Subjects – WNO had 19,805 unique visitors from 12 March 2013 to 30 June 2013, who made 52,767 visits to the site. …”
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Recent development of machine learning-based methods for the prediction of defensin family and subfamily by Phasit Charoenkwan, Nalini Schaduangrat, S. M. Hasan Mahmud, Orawit Thinnukool, Watshara Shoombuatong

“…Herein, we cover different important aspects, including the dataset quality, feature encoding methods, feature selection schemes, ML algorithms, cross-validation methods and web server availability/usability. Moreover, we provide our thoughts on the limitations of existing methods and future perspectives for improving the prediction performance and model interpretability. …”
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Molecular docking of monkeypox (mpox) virus proteinase with FDA approved lead molecules by M.Valan Arasu, P. Vijayaragavan, Sumitha Purushothaman, M.A. Rathi, Naif Abdullah Al-Dhabi, V.K. Gopalakrishnan, Ki Choon Choi, S. Ilavenil

“…The binding pockets of the enzyme were determined in this study and two binding pockets were predicted using the automatic online tool using the web server. The selected FDA-approved drugs were ordered based on their minimum binding energy to the proteinase. …”
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Empirical comparison and analysis of machine learning-based predictors for predicting and analyzing of thermophilic proteins by Phasit Charoenkwan, Nalini Schaduangrat, Md Mehedi Hasan, Mohammad Ali Moni, Pietro Lió, Watshara Shoombuatong

“…With this goal in mind, we comprehensively investigate a large collection of fourteen state-of-the-art TPP predictors in terms of their dataset size, feature encoding schemes, feature selection strategies, ML algorithms, evaluation strategies and web server/software usability. To the best of our knowledge, this article represents the first comprehensive review on the development of ML-based methods for in silico prediction of TPPs. …”
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Expressions of miR-155 and miR-181 and predictions of their structures and targets in pigs (Sus scrofa) by Jirapat Ninsuwon, Pitchaporn Waiyamitra, Atthaporn Roongsitthichai, Win Surachetpong

“…Both miR-155 and miR-181 were investigated for their structures with RNAfold web server, for their target genes from three online web servers, and for their expressions using polymerase chain reaction (PCR). …”
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