Design and Application of Data Acquisition and Analysis System for CropSense by WANG Jiaojiao, XU Bo, WANG Congcong, YANG Guijun, YANG Zhong, MEI Xin, YANG Xiaodong

“…The system can save data to web server through the Internet which improves the shortcoming of poor sharing in the traditional data exporting mode. …”
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Evolutionary Analysis of Makorin Ring Finger Protein 3 Reveals Positive Selection in Mammals by Muhammad Jamil Ahmad, Hafiz Ishfaq Ahmad, Muhammad Muzammal Adeel, Aixin Liang, Guohua Hua, Saeed Murtaza, Riaz Hussain Mirza, Abdelmotaleb Elokil, Farman Ullah, Liguo Yang

“…By applying the HyPhy software package implemented in the Data Monkey Web Server and CODEML implemented in PAML, evolutionary analysis based on two Ml frameworks were conducted. …”
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nifPred: Proteome-Wide Identification and Categorization of Nitrogen-Fixation Proteins of Diaztrophs Based on Composition-Transition-Distribution Features Using Support Vector Mach... by Prabina K. Meher, Tanmaya K. Sahu, Jyotilipsa Mohanty, Jyotilipsa Mohanty, Shachi Gahoi, Supriya Purru, Monendra Grover, Atmakuri R. Rao

“…Besides, the source code of nifPred is also available at https://github.com/PrabinaMeher/nifPred. The developed web server is expected to supplement the transcriptional profiling and comparative genomics studies for the identification and functional annotation of genes related to BNF.…”
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Whole-genome sequence of multi-drug resistant Pseudomonas aeruginosa strains UY1PSABAL and UY1PSABAL2 isolated from human broncho-alveolar lavage, Yaoundé, Cameroon. by Estelle Longla Madaha, Charlotte Mienie, Hortense Kamga Gonsu, Rhoda Nsen Bughe, Marie Christine Fonkoua, Wilfred Fon Mbacham, Kazeem Adekunle Alayande, Carlos Cornelius Bezuidenhout, Collins Njie Ateba

“…The PHAge Search Tool Enhanced Release (PHASTER) web server was used for the rapid identification and annotation of prophage sequences within bacterial genome. …”
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Identification and characterisation of thiamine pyrophosphate (TPP) riboswitch in Elaeis guineensis by Subki, Atiqah, Ho, Chai Ling, Ismail, Nur Farhah Nabihan, Zainal Abidin, Aisamuddin Ardi, Yusof, Zetty Norhana Balia

“…The secondary structure analysis was also carried out using Mfold Web server and it showed a stem-loop structure manifested with stems (P1-P5) with minimum free energy of -12.26 kcal/mol. …”
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Large language models assisted multi-effect variants mining on cerebral cavernous malformation familial whole genome sequencing by Yiqi Wang, Jinmei Zuo, Chao Duan, Hao Peng, Jia Huang, Liang Zhao, Li Zhang, Zhiqiang Dong

“…With multi-omics characterization and validation in biological function, FGF1 demonstrated to play a significant role in the development of CCMs, which proved the effectiveness of our model. The BRLM web server is available at http://1.117.230.196.…”
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PharmOmics: A species- and tissue-specific drug signature database and gene-network-based drug repositioning tool by Yen-Wei Chen, Graciel Diamante, Jessica Ding, Thien Xuan Nghiem, Jessica Yang, Sung-Min Ha, Peter Cohn, Douglas Arneson, Montgomery Blencowe, Jennifer Garcia, Nima Zaghari, Paul Patel, Xia Yang

“…Here, we present PharmOmics, a drug knowledgebase and analytical tool that is hosted on an interactive web server. Using tissue- and species-specific transcriptome data from human, mouse, and rat curated from different databases, we implemented a gene-network-based approach for drug repositioning. …”
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Gene knockdown by structure defined single-stem loop small non-coding RNAs with programmable regulatory activities by Yang Wang, Guobin Yin, Huanjiao Weng, Luyao Zhang, Guocheng Du, Jian Chen, Zhen Kang

“…A thermodynamic-based scoring model and a web server sslRNAD (http://www.kangzlab.cn/) were developed for automated design of ssl-sRNAs with well-defined structures and programmable activities. ssl-sRNAs displayed weak polar effects when regulating polycistronic mRNAs. …”
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RBCeq: A robust and scalable algorithm for accurate genetic blood typing by Sudhir Jadhao, Candice L. Davison, Eileen V. Roulis, Elizna M. Schoeman, Mayur Divate, Mitchel Haring, Chris Williams, Arvind Jaya Shankar, Simon Lee, Natalie M. Pecheniuk, David O Irving, Catherine A. Hyland, Robert L. Flower, Shivashankar H. Nagaraj

“…We have also developed a user-friendly web server that generates detailed blood typing reports with advanced visualization (https://www.rbceq.org/). …”
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Data-Driven Assisted Decision Making for Surgical Procedure of Hepatocellular Carcinoma Resection and Prognostic Prediction: Development and Validation of Machine Learning Models by Liyang Wang, Danjun Song, Wentao Wang, Chengquan Li, Yiming Zhou, Jiaping Zheng, Shengxiang Rao, Xiaoying Wang, Guoliang Shao, Jiabin Cai, Shizhong Yang, Jiahong Dong

“…On the external test set, the area under the receiver operating characteristic curve (AUC) of the proposed decision model was 0.7731, and the performance of the prognostic prediction models was also relatively excellent. The application web server based on automatic lesion segmentation was deployed and is available online. …”
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Clinicopathological value of long non-coding RNA profiles in gastrointestinal stromal tumor by Yan Zhao, Xinxin Liu, Keshuai Xiao, Liwen Wang, Yuping Li, Mingyun Kan, Zhiwei Jiang

“…Somatic copy number alterations of GIST patients (GSE40966) were analyzed via web server GenePattern GISTIC2 algorithm. Results A total of four lncRNA molecular subtypes of GIST were identified with distinct biological pathways and clinical characteristics. …”
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Aplikasi Website dan Media Sosial Telegram Untuk Sistem Pemantauan Daya Pada Beban Listrik DC Berbasis Raspberry Pi 3 by Eka Maulana, Adharul Muttaqin, Muhammad Anwar Sanusi

“…Sistem monitoring ini membutuhkan sensor ACS712 dan sensor tegangan yang berfungsi untuk membaca nilai arus dan tegangan, ESP32 yang berfungsi untuk mengolah data nilai pembacaan sensor dan mengirim data tersebut menuju server serta sebuah web server yang dijalankan oleh Raspberry Pi 3 yang berfungsi untuk menerima data dari tiap node dan akan disimpan pada database MySQL. …”
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GSHR, a Web-Based Platform Provides Gene Set-Level Analyses of Hormone Responses in Arabidopsis by Xiaojuan Ran, Xiaojuan Ran, Jian Liu, Jian Liu, Meifang Qi, Meifang Qi, Yuejun Wang, Yuejun Wang, Jingfei Cheng, Jingfei Cheng, Yijing Zhang, Yijing Zhang

“…Here, we present a web server providing gene set-level analyses of Arabidopsis thaliana hormone responses. …”
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CGKB: an annotation knowledge base for cowpea (<it>Vigna unguiculata L</it>.) methylation filtered genomic genespace sequences by Spraggins Thomas A, Rushton Paul J, Laudeman Thomas W, Chen Xianfeng, Timko Michael P

“…The web interface was implemented in JavaScript and Perl CGI running on an Apache web server. The CPU intensive data processing and analysis pipelines were run on a computer cluster of more than 30 dual-processor Apple XServes. …”
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Development and Validation of a Nomogram Prognostic Model for Patients With Advanced Non-Small-Cell Lung Cancer by Tao Wang, Rong Lu, Sunny Lai, Joan H Schiller, Fang Liz Zhou, Bo Ci, Stacy Wang, Xiaohan Gao, Bo Yao, David E Gerber, David H Johnson, Guanghua Xiao, Yang Xie

“…We implemented the proposed nomogram and several previously published prognostic models on an online Web server for easy user access. Conclusions: This nomogram model based on basic clinical features and routine lab testing predicts individual survival probabilities for advanced NSCLC and exhibits cross-study robustness.…”
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NeisseriaBase: a specialised Neisseria genomic resource and analysis platform by Wenning Zheng, Naresh V.R. Mutha, Hamed Heydari, Avirup Dutta, Cheuk Chuen Siow, Nicholas S. Jakubovics, Wei Yee Wee, Shi Yang Tan, Mia Yang Ang, Guat Jah Wong, Siew Woh Choo

“…The web application was developed following the secure four-tier web application architecture: (1) client workstation, (2) web server, (3) application server, and (4) database server. …”
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GCclassifier: An R package for the prediction of molecular subtypes of gastric cancer by Jiang Li, Lingli He, Xianrui Zhang, Xiang Li, Lishi Wang, Zhongxu Zhu, Kai Song, Xin Wang

“…To facilitate the use by non-bioinformaticians, we also provide an interactive, user-friendly web server implementing the major functionalities of GCclassifier. …”
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Whole Exome Sequencing of a Patient with a Milder Phenotype of Xeroderma Pigmentosum Group C by Ji-In Seo, Chikako Nishigori, Jung Jin Ahn, Jae Young Ryu, Junglok Lee, Mu-Hyoung Lee, Su Kang Kim, Ki-Heon Jeong

“…The functional effects of the resultant variants were predicted using the SNPinfo web server, and structural changes in the XPC protein using the 3D protein modeling program SWISS-MODEL. …”
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Development of an Open-source and Lightweight Sensor Recording Software System for Conducting Biomedical Research: Technical Report by Michael Single, Lena C Bruhin, Narayan Schütz, Aileen C Naef, Heinz Hegi, Pascal Reuse, Kaspar A Schindler, Paul Krack, Roland Wiest, Andrew Chan, Tobias Nef, Stephan M Gerber

“…MethodsThe proposed software system is based on a server-client architecture, consisting of multiple self-contained microservices that communicated with each other (eg, the web server transfers data to a database instance) and were implemented as Docker containers. …”
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Increased expression of TBC1D10B as a potential prognostic and immunotherapy relevant biomarker in liver hepatocellular carcinoma by Li Fan, Yongmei Tang, Jingjing Li, Wenjie Huang

“…The association between TBC1D10B mRNA expression and immune cell infiltration was investigated by the TIMER2 web server, tumor immune estimation resource and single-sample GSEA. …”
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