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Pacific Rim Conference on Lasers and Electro-Optics (CLEO/Pacific Rim)

作者： Nu-Ri Park Min-Joong Kim Jongsu Lee Minah Seo Yong-Sang Ryu Myung-Ki Kim KU-KIST Graduate School of Converging Science and Technology Korea University Seoul Republic of Korea Sensor System Research Center Korea Institute of Science and Technology Seoul Republic of Korea Department of Electrical Engineering and Computer Science Northwestern University Evanston IL USA School of Biomedical Engineering Korea University Seoul Republic of Korea Interdisciplinary Program in Precision Public Health Korea University Seoul Republic of Korea

Our research introduces a novel method for safe hydrogen detection. We've developed an advanced nano-candle sensor, combining Pd with nano-candles, enabling accurate detection of low-concentration hydrogen (<3%... 详细信息

ISBN: (数字)9798350372076

ISBN: (纸本)9798350372083

关键词： Electric potential Accuracy Hydrogen Lasers and electrooptics Optical sensors Electro-optical waveguides

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Protein Language Model-Powered 3D Ligand Binding Site Prediction from Protein Sequence

arXiv

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arXiv 2023年

作者： Zhang, Shuo Xie, Lei Department of Computer Science Hunter College City University of New York United States Ph.D. Program in Computer Science Graduate Center City University of New York United States Helen & Robert Appel Alzheimer’s Disease Research Institute Feil Family Brain & Mind Research Institute Weill Cornell Medicine Cornell University United States

Prediction of ligand binding sites of proteins is a fundamental and important task for understanding the function of proteins and screening potential drugs. Most existing methods require experimentally determined protein holo-structures as input. However, such structures can be unavailable on novel or less-studied proteins. To tackle this limitation, we propose LaMPSite, which only takes protein sequences and ligand molecular graphs as input for ligand binding site predictions. The protein sequences are used to retrieve residue-level embeddings and contact maps from the pre-trained ESM-2 protein language model. The ligand molecular graphs are fed into a graph neural network to compute atom-level embeddings. Then we compute and update the protein-ligand interaction embedding based on the protein residue-level embeddings and ligand atom-level embeddings, and the geometric constraints in the inferred protein contact map and ligand distance map. A final pooling on protein-ligand interaction embedding would indicate which residues belong to the binding sites. Without any 3D coordinate information of proteins, our proposed model achieves competitive performance compared to baseline methods that require 3D protein structures when predicting binding sites. Given that less than 50% of proteins have reliable structure information in the current stage, LaMPSite will provide new opportunities for drug discovery. Copyright © 2023, The Authors. All rights reserved.

关键词： Proteins

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Deep and shallow data science for multi-scale optical neuroscience

arXiv

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arXiv 2024年

作者： Mishne, Gal Charles, Adam Halıcıoğlu Data Science Institute Department of Electrical and Computer Engineering the Neurosciences Graduate Program UC San Diego 9500 Gilman Drive La Jolla CA92093 United States Department of Biomedical Engineering Kavli Neuroscience Discovery Institute Center for Imaging Science Department of Neuroscience Mathematical Institute for Data Science Johns Hopkins University BaltimoreMD21287 United States

Optical imaging of the brain has expanded dramatically in the past two decades. New optics, indicators, and experimental paradigms are now enabling in-vivo imaging from the synaptic to the cortex-wide scales. To match the resulting flood of data across scales, computational methods are continuously being developed to meet the need of extracting biologically relevant information. In this pursuit, challenges arise in some domains (e.g., SNR and resolution limits in micron-scale data) that require specialized algorithms. These algorithms can, for example, make use of state-of-the-art machine learning to maximally learn the details of a given scale to optimize the processing pipeline. In contrast, other methods, however, such as graph signal processing, seek to abstract away from some of the details that are scale-specific to provide solutions to specific sub-problems common across scales of neuroimaging. Here we discuss limitations and tradeoffs in algorithmic design with the goal of identifying how data quality and variability can hamper algorithm use and dissemination. © 2024, CC BY.

关键词： Neuroimaging

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Database management system design for automatic weather information with twitter data collection 6

Database management system design for automatic weather info...

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6th International Conference on Information Management and Technology, ICIMTech 2021

作者： Purwandari, Kartika Perbangsa, Anzaludin Samsinga Sigalingging, Join W. C. Krisna, Adhi Asta Anggrayani, Suci Pardamean, Bens Bina Nusantara University Bioinformatics and Data Science Research Center Jakarta11480 Indonesia Bina Nusantara University School of Information Systems Information Systems Department Jakarta11480 Indonesia Meteorological Climatological and Geophysical Agency Database Center Division of Bmkg Jakarta10720 Indonesia Bina Nusantara University Binus Graduate Program - Master of Computer Science Computer Science Department Jakarta11480 Indonesia

ISBN: (纸本)9781665449373

Improvement of data management about weather in Indonesia is very supportive of the need for weather information. Currently, the weather information that is disseminated to the public is only based on sensor location points that are spread across Indonesia. However, supporting data generated from these sensors is only limited to certain areas. We hence develop a database system that can help collect weather information automatically via Twitter. This facilitates the Indonesian people in knowing weather information based on the completeness of data from sensor data and Twitter. The steps from the database that are built will be very helpful in collecting data about the weather throughout Indonesia. The basic step that we use in our database are conceptual, logical and physical design. The information obtained in this study is very important for efficient and effective data collection to achieve real-time automation of weather information. © 2021 IEEE.

关键词： Database systems

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Genome data mining approach to identify potential protein in crop plants

引用

AIP Conference Proceedings 2024年第1期3026卷

作者： Joko Pebrianto Trinugroho Faisal Asadi Bens Pardamean Bioinformatics & Data Science Research Center Bina Nusantara University Jakarta Indonesia 11480 Computer Science Department BINUS Graduate Program - Master of Computer Science Program Bina Nusantara University Jakarta Indonesia 11480

There is a need to produce more crop plants to meet the future global demand. However, the climate change has affected the global crop yield. Consequently, finding an alternative approach to improve crop yield becomes essential. The development of sequencing techniques, as well as information technologies, have enabled us to perform genome data mining. Using genome data mining approach, it is possible to identify or discover a protein which has a particular characteristic. This study aims to identify a protein, which could potentially improve crop yield, using genome data mining approach. D1 protein was used as the target, as this protein is highly involved in photosynthesis. Then, protein sequences of various crop plants were collected from biological database. After conducting data trimming and filtering, sequence analysis was performed. The analysis was used to construct phylogenetic tree and create a 3D protein model. Sequence analysis displayed variation in amino acid sequence in D1 protein. Protein modelling located the variations, which scattered within D1 protein. Furthermore, we highlighted the amino acid residues that are the targets for genetic engineering. The research findings may provide a reference to improve crop production through genome mining approach.

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Pyramid Scene Parsing Net Model for Automated Paddy Field Map using SPOT 6 Satellite Images

Pyramid Scene Parsing Net Model for Automated Paddy Field Ma...

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IEEE Asia-Pacific Conference on Geoscience, Electronics and Remote Sensing Technology (AGERS)

作者： Yaya Heryadi Edy Irwansyah Eka Miranda Haryono Soeparno Herlawati Kiyota Hashimoto Computer Science Department BINUS Graduate Program-Doctor of Computer Science Bina Nusantara University Jakarta Indonesia Computer Science Department School of Computer Science Bina Nusantara University Jakarta Indonesia Information Systems Department School of Information Systems Bina Nusantara University Jakarta Indonesia Bioinformatics and Data Science Research Center Bina Nusantara University Jakarta Indonesia Faculty of Technology and Environment Prince of Songkla University Phuket Thailand

Food sustainability is still one of the main priorities for many countries as it contributes to the economy and stability of the nation. For government in many countries whose peoples consumes rice as its staple food, food self-sufficiency initiatives highly depend on accurate prediction of paddy field map. Mapping paddy field task is a challenging problem which cannot be handled manually especially when the paddy fields are spread out in very wide geographical areas such as those in Indonesia. Fortunately, wide availability of satellite imagery and the advent of deep learning technology in the past ten years have made it possible to improve efficiency of most parts of those manual works involving image semantic segmentation tasks. However, satellite image-based semantic segmentation is a challenging task. High object complexity, cloud partial occlusion, larger image size than a computer memory can stored can hinder accuracy of the image segmentation results. This paper presents a method for paddy field map generating using semantic image segmentation approach in which Pyramid Scene Parsing Net model is used for segmenting satellite imagery. The generated paddy map can be used as a basis for decision-making, especially in the agricultural sector. Analysis of local land use/land cover dynamics. The results of his experiments using SPOT 6 satellite imagery from the Pahung region of Central Kalimantan achieved average training accuracy, best training accuracy and test accuracy of 0.85, 0.86 and 0.89 respectively. These results indicated that the semantic segmentation model is suitable for addressing the same task in different crops.

关键词： Training Productivity Deep learning Satellites Semantic segmentation Crops Predictive models

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Compression for qubit clocks

arXiv

引用

arXiv 2022年

作者： Yang, Yuxiang Chiribella, Giulio Hayashi, Masahito Department of Computer Science The University of Hong Kong Hong Kong Department of Computer Science The University of Oxford United Kingdom Canadian Institute for Advanced Research CIFAR Program in Quantum Information Science Canada Graduate School of Mathematics Nagoya University Japan Centre for Quantum Technologies National University of Singapore Singapore

Two-level (qubit) clock systems are often used to perform precise measurement of time. In this work, we propose a compression protocol for n identically prepared states of qubit clocks. The protocol faithfully encodes the states into (1/2) log n qubits and (1/2) log n classical bits and works even in the presence of noise. If the purity of the clock states is fixed, (1/2) log n qubits are sufficient. We also prove that this protocol requires the minimum amount of total memory among all protocols with vanishing error in the large n limit. Copyright © 2022, The Authors. All rights reserved.

关键词： Quantum optics

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TODIM and TOPSIS with Z-numbers

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Frontiers of Information Technology & Electronic Engineering 2019年第2期20卷 283-291页

作者： Renato A.KROHLING André G.C.PACHECO Guilherme A.dos SANTOS Department of Production Engineering Federal University of Espirito Santo Graduate Program in Computer Science Federal University of Espirito Santo

In this paper, we present an approach that can handle Z-numbers in the context of multi-criteria decision-making problems. The concept of Z-number as an ordered pair Z=(A, B) of fuzzy numbers A and B is used, where A is a linguistic value of a variable of interest and B is a linguistic value of the probability measure of A. As human beings, we communicate with each other by means of natural language using sentences like "the journey from home to university most likely takes about half an hour." The Z-numbers are converted to fuzzy numbers. Then the Z-TODIM and Z-TOPSIS are presented as a direct extension of the fuzzy TODIM and fuzzy TOPSIS, respectively. The proposed methods are applied to two case studies and compared with the standard approach using crisp values. The results obtained show the feasibility of the approach.

关键词： Multi-criteria decision-making TODIM TOPSIS Fuzzy number Z-number

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Deep learning performance in sentiment analysis 4

Deep learning performance in sentiment analysis

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4th International Conference on Electrical, Telecommunication and computer Engineering, ELTICOM 2020

作者： Manalu, Boy Utomo Tulus Efendi, Syahril Graduate Program of Computer Science Universitas Sumatera Utara Medan Indonesia Universitas Sumatera Utara Department of Mathematics Medan Indonesia Universitas Sumatera Utara Department of Computer Science Medan Indonesia

ISBN: (纸本)9781728188706

A problem of sentiment analysis is the text representation, that encodes text into a continuous vector by arranging projections from semantics to the points in high dimensional space. Deep learning methods have been widely used to solve various sentiment analysis problems. To improve the performance of deep learning in sentiment analysis requires a good method of text representation to be used as an embedding layer. In this study, we analyzed deep learning with the Recurrent Neural Network (RNN) method with Long Short-Term Memory (LSTM) variants in sentiment classification. We compare the performance of the LSTM network with Word2Vec to the network without Word2Vec as word embedding. Sentiment data used is derived from user-provided reviews of the applications in Google Play. The training process involves the Dropout layer and Early Stopping points to prevent overfitting. The results showed that the LSTM network using a word embedding Word2Vec is better than without Word2Vec. LSTM with Word2Vec 300 words dimension got a low error value of 0.3287 with an accuracy of 86.76%. While the LSTM testing results without Word2Vec get the lowest error of 0.3751 with an accuracy of 84.14%. © 2020 IEEE.

关键词： Long short-term memory

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Voice-Based Virtual-Controlled Intelligent Personal Assistants

Voice-Based Virtual-Controlled Intelligent Personal Assistan...

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Computational Intelligence, Communication Technology and Networking (CICTN), International Conference on

作者： Satya Prakash Yadav Amit Gupta Caio Dos Santos Nascimento Victor Hugo C. de Albuquerque Mahaveer Singh Naruka Sansar Singh Chauhan Department of Computer Science and Engineering G.L. Bajaj Institute of Technology and Management (GLBITM) GreaterNoida U.P. India Graduate Program in Telecommunications Engineering. (PPGET) Federal Institute of Education Science and Technology of Ceará (IFCE) Fortaleza-CE Brazil Computer Science and Engineering Graphic Era Hill University Dehradun Uttarakhand India Department of Teleinformatics Engineering Federal University of Ceará Fortaleza Fortaleza/CE Brazil Computer Science & Engineering GL Bajaj Institute of Technology & Management Greater Noida India

Virtual assistants are improving and providing consumers with greater advantages. The comprehension and fulfilment of requests by virtual assistants will increase as voice recognition and natural language processing continue to grow. Virtual assistants are projected to be employed in more commercial activities as speech recognition technology advances. The main goal of developing personal assistant software (virtual assistant) is to use web-based semantic data sources, user-generated content, and knowledge from knowledge libraries. Basically, main objective of making this Voice-Based Virtual Assistant is to make life easier and having a personal assistant to everyone which can perform many tasks. As the end user interacts with a virtual assistant, the AI programming learns from the data provided and improves its ability to forecast the end user's needs. Virtual assistants are often used to do things like add tasks to a calendar, provide information that would normally be found in a website, and operate and monitor Smart Home devices like lighting and cameras and thermostats. Massive volumes of data are required to fuel virtual assistant technologies, which feed Artificial Intelligence (AI) platforms such as machine learning, natural language processing, and speech recognition. Speech recognition has a lengthy history and has seen several key advancements. On smartphones and wearable devices, speech recognition for dictation, search, and voice commands has become a standard feature. Design of a small, large vocabulary speech recognition system that can run quickly, accurately, and with minimum latency on mobile devices.

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