Article
Biochemistry & Molecular Biology
Xin Dong, Ke Tang, Yunfan Xu, Hailin Wei, Tong Han, Chenfei Wang
Summary: The study developed a method called SCRIP, which integrates scATAC-seq and a large-scale TR ChIP-seq reference to infer single-cell TR activity and targets. The method showed improved performance in evaluating TR binding activity and exhibited high consistency with TR expressions. Additionally, the method enables the identification of TR target genes and the construction of single-cell gene regulation networks (GRNs).
NUCLEIC ACIDS RESEARCH
(2022)
Article
Multidisciplinary Sciences
Sanjay R. Srivatsan, Mary C. Regier, Eliza Barkan, Jennifer M. Franks, Jonathan S. Packer, Parker Grosjean, Madeleine Duran, Sarah Saxton, Jon J. Ladd, Malte Spielmann, Carlos Lois, Paul D. Lampe, Jay Shendure, Kelly R. Stevens, Cole Trapnell
Summary: The study introduces a method called sci-Space, which allows for spatial heterogeneity analysis at larger scales while retaining single-cell resolution. By applying this method to developing mouse embryos, the researchers identified thousands of genes exhibiting anatomically patterned expression and leveraged spatial information to annotate cellular subtypes. The results show substantial variation in spatial patterning among cell types and reveal correlations between pseudotime and the migratory patterns of differentiating neurons.
Article
Computer Science, Information Systems
Yan Wu, Xianglong Liu, Haotong Qin, Ke Xia, Sheng Hu, Yuqing Ma, Meng Wang
Summary: In this paper, the multi-table learning problem for video search is studied, aiming to learn binary codes by capturing intrinsic video similarities from both visual and temporal aspects to build multiple hash table indices. Under the boosting learning framework, the binary codes, hash functions and temporal variation of each table are efficiently and jointly optimized.
IEEE TRANSACTIONS ON MULTIMEDIA
(2021)
Article
Biochemical Research Methods
Jiangshan Liang, Luchen Deng, Shize Chen, Yimin Wang, Zongcai Ruan, Lingli Zhang
Summary: Vaa3D is a widely used software package for visualizing and analyzing multidimensional microscopic images. The newly developed Vaa3D-x version addresses the need to maintain and disseminate the software on latest operating systems.
Article
Computer Science, Information Systems
Zhili Zhou, Q. M. Jonathan Wu, Xingming Sun
Summary: For scalable feature matching in large-scale web image search, a multiple distance-based feature coding scheme is proposed, which does not require visual codebook training and shows stability and discriminability. Experimental results demonstrate the superiority of this approach in comparison to other methods for large-scale web image search using recent feature quantization methods.
IEEE TRANSACTIONS ON BIG DATA
(2021)
Article
Computer Science, Information Systems
Nampoina Andriamilanto, Tristan Allard, Gaetan Le Guelvouit, Alexandre Garel
Summary: This article investigates the adequacy of browser fingerprints for web authentication and evaluates their distinctiveness, stability, collection time, size, and accuracy of a verification mechanism. Through a large-scale dataset assessment, it is found that browser fingerprints have high distinctiveness and stability, and perform well in terms of performance.
ACM TRANSACTIONS ON THE WEB
(2022)
Article
Computer Science, Information Systems
Luca Consalvi, Walter Didimo, Giuseppe Liotta, Fabrizio Montecchiani
Summary: This paper introduces BrowVis, a system that computes interactive visualizations of large graphs in the browser. The experiments show that BrowVis performs well on a common laptop and a case study validates its practical application.
Article
Biochemical Research Methods
Johannes Waschke, Mario Hlawitschka, Kerim Anlas, Vikas Trivedi, Ingo Roeder, Jan Huisken, Nico Scherf
Summary: Trajectory data in biology is dynamic and interconnected, making visualization a challenge that requires simplification and interactivity; the tool linus provides researchers with a solution to explore and share trajectory data, facilitating collaborative discovery of data patterns.
PLOS COMPUTATIONAL BIOLOGY
(2021)
Article
Computer Science, Software Engineering
Devin Lange, Eddie Polanco, Robert Judson-Torres, Thomas Zangle, Alexander Lex
Summary: A new microscopy-based approach for measuring the mass of individual cancer cells treated with different drugs promises to determine the most promising drug for a cancer patient. However, the data analysis process still requires human intervention for quality control and data accuracy. The visualization tool called Loon is developed to analyze drug screening data and provides selection and filtering capabilities for representative cell samples, aiding in the decision-making process for suitable drugs for specific patients.
IEEE TRANSACTIONS ON VISUALIZATION AND COMPUTER GRAPHICS
(2022)
Article
Computer Science, Artificial Intelligence
Elena Ryumina, Denis Dresvyanskiy, Alexey Karpov
Summary: Researchers have been searching for a robust emotion recognition system for the past two decades. However, one of the key problems is the lack of generalization ability. This study introduces a visual cross-corpus investigation and proposes a visual-based emotion recognition framework that demonstrates high generalization ability. The results show superior performance compared to state-of-the-art models.
Article
Biochemical Research Methods
Jianglin Feng, Nathan C. Sheffield
Summary: IGD is a method and tool for searching genome interval datasets faster and more efficiently, using a novel linear binning method to scale analysis to billions of genomic regions. It is able to handle large-scale genomic data with significantly improved speed and memory efficiency.
Article
Computer Science, Artificial Intelligence
Weiqing Min, Zhiling Wang, Yuxin Liu, Mengjiang Luo, Liping Kang, Xiaoming Wei, Xiaolin Wei, Shuqiang Jiang
Summary: Food recognition is important for food choice and intake, and can support various food-oriented vision tasks. In this paper, we introduce Food2K, the largest food recognition dataset, and propose a deep progressive region enhancement network for food recognition. Experimental results on Food2K demonstrate the effectiveness of our proposed method, and its better generalization ability in various tasks. Food2K can be further explored for more food-relevant tasks and serve as a benchmark for large-scale fine-grained visual recognition.
IEEE TRANSACTIONS ON PATTERN ANALYSIS AND MACHINE INTELLIGENCE
(2023)
Article
Physics, Applied
Fei Fan, Ziyan Gao, Louis Ponet, Jing Wang, Houbing Huang, Sergey Artyukhin, Jiawang Hong, Sang-Wook Cheong, Xueyun Wang
Summary: By creatively adopting an inclined polishing process, the study revealed the presence of large-scale CDWs in ferroelectric manganites, offering a new potential for the design of nano-devices.
APPLIED PHYSICS LETTERS
(2021)
Article
Computer Science, Artificial Intelligence
Songbai Liu, Jun Li, Qiuzhen Lin, Ye Tian, Kay Chen Tan
Summary: This article proposes an accelerated evolutionary search (AES) strategy to improve the efficiency of solving large-scale multiobjective optimization problems (LMOPs) by training a neural network to learn a gradient-descent-like direction vector (GDV) for each solution.
IEEE TRANSACTIONS ON EVOLUTIONARY COMPUTATION
(2023)
Article
Cell & Tissue Engineering
Leqian Yu, Deirdre Logsdon, Carlos A. Pinzon-Arteaga, Jialei Duan, Toshihiko Ezashi, Yulei Wei, Ana Elisa Ribeiro Orsi, Seiya Oura, Lizhong Liu, Lei Wang, Kun Liu, Xiaoyun Ding, Linfeng Zhan, Junfei Zhang, Asrafun Nahar, Caitlen Stobbe, Mandy Katz-Jaffe, William B. Schoolcraft, Tao Tan, Gary C. Hon, Ye Yuan, Jun Wu
Summary: Recent advances in human blastoids have provided a new approach for modeling early human development and implantation. An optimized protocol for efficient generation of high-fidelity human blastoids has been reported, allowing for proteomics analysis and identification of specific signatures involved in blastoid signaling states. Additionally, the effects of endometrial stromal cells on trophoblast cell survival, proliferation, and syncytialization have been uncovered. Single-cell RNA sequencing revealed similarities and differences between blastoids and blastocysts, as well as a population resembling early migratory trophoblasts during co-culture with endometrial stromal cells. This optimized protocol will facilitate broader use of human blastoids as a reliable model for human blastocysts.
Article
Agronomy
X. -M. Fan, Y. Q. Bi, Y. D. Zhang, D. P. Jeffers, W. H. Yao, H. M. Chen, L. Q. Zhao, M. S. Kang
Article
Agronomy
H. M. Chen, Y. D. Zhang, F. Y. Jiang, Y. X. Huang, W. H. Yao, X. H. Chen, M. S. Kang, X. M. Fan
Article
Agronomy
Li Liu, Daniel Jeffers, Yudong Zhang, Meiling Ding, Wei Chen, Manjit S. Kang, Xingming Fan
MOLECULAR BREEDING
(2015)
Article
Agronomy
Omid Ali Akbarpour, Hamid Dehghani, Bezad Sorkhi-Lalelo, Manjit Singh Kang
ACTA SCIENTIARUM-AGRONOMY
(2016)
Article
Agronomy
Omid Ali Akbarpour, Hamid Dehghani, Bezad Sorkhi-Lalelo, Manjit Singh Kang
ACTA SCIENTIARUM-AGRONOMY
(2016)
Article
Agronomy
W. H. Yao, Y. D. Zhang, M. S. Kang, H. M. Chen, L. Liu, L. J. Yu, X. M. Fan
Article
Agronomy
X. M. Fan, Y. D. Zhang, W. H. Yao, Y. Q. Bi, L. Liu, H. M. Chen, M. S. Kang
Article
Agronomy
Qingsheng Cai, Lijuan Yu, Wenhua Yao, Yudong Zhang, Lulu Wang, Xiuhua Chen, Junxia Deng, Manjit S. Kang, Xingming Fan
Article
Agronomy
Surinder S. Banga, Manjit S. Kang
JOURNAL OF CROP IMPROVEMENT
(2014)
Letter
Agronomy
Weikai Yan, Karl D. Glover, Manjit S. Kang
Article
Agronomy
Manjit S. Kang
JOURNAL OF CROP IMPROVEMENT
(2015)
Article
Agronomy
Surinder K. Sandhu, Sawanpreet S. Brar, R. S. Singh, Pritpal Singh, I. Bhagat, Manjit S. Kang
JOURNAL OF CROP IMPROVEMENT
(2014)
Article
Agronomy
Manjit S. Kang, Surinder S. Banga
JOURNAL OF CROP IMPROVEMENT
(2013)
Article
Agronomy
Charanjit S. Kahlon, James E. Board, Manjit S. Kang
Article
Agronomy
H. M. Chen, Y. D. Zhang, W. Chen, M. S. Kang, J. Tan, Y. F. Wang, J. Y. Yang, X. M. Fan