Search Results - Integrative computational algorithm

Recent advances in spatially resolved transcriptomics: challenges and opportunities by Lee, Jongwon, Yoo, Minsu, Choi, Jungmin

“…Single-cell RNA sequencing (scRNA-seq) has greatly advanced our understanding of cellular heterogeneity by profiling individual cell transcriptomes. However,…”
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Recent advances in spatially resolved transcriptomics: challenges and opportunities by Lee, Jongwon, Yoo, Minsu, Choi, Jungmin

“…Single-cell RNA sequencing (scRNA-seq) has greatly advanced our understanding of cellular heterogeneity by profiling individual cell transcriptomes. However,…”
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An Integrative Computational Framework Based on a Two-Step Random Forest Algorithm Improves Prediction of Zinc-Binding Sites in Proteins by Zheng, Cheng, Wang, Mingjun, Takemoto, Kazuhiro, Akutsu, Tatsuya, Zhang, Ziding, Song, Jiangning

“… Here, we present a new integrative framework that combines multiple sequence and structural properties and graph-theoretic network features, followed by an efficient feature selection to improve…”
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Perspectives and opportunities in forensic human, animal, and plant integrative genomics in the Pangenome era by He, Guanglin, Liu, Chao, Wang, Mengge

“… We comprehensively discuss the advancements in pangenome-based genomic integrative genomic discoveries across forensic-related species…”
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Parallel computational optimization in operations research: A new integrative framework, literature review and research directions by Schryen, Guido

“… in OR.•We suggest research directions for parallel computational optimization in OR. Solving optimization problems with parallel algorithms has a long tradition…”
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Integrative network alignment reveals large regions of global network similarity in yeast and human by Kuchaiev, Oleksii, Pržulj, Nataša

“…: We introduce a novel network alignment algorithm, called Matching-based Integrative GRAph ALigner (MI-GRAAL…”
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A multiscale MDCT image-based breathing lung model with time-varying regional ventilation by Yin, Youbing, Choi, Jiwoong, Hoffman, Eric A., Tawhai, Merryn H., Lin, Ching-Long

“… The algorithm constitutes the core of an integrative, image-based computational framework for subject-specific simulation of the breathing lung…”
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Effective Integration of Single-Cell Multi-Omics Data Using Improved Network-Based Integrative Clustering with Multigraph Regularization by Zhang, Shunqin, Kong, Wei, Wang, Shuaiqun, Wei, Kai, Liu, Kun, Wen, Gen, Yu, Yaling

“… and reveal the pathogenesis of Alzheimer's disease (AD) from two perspectives. However, implementing such algorithms faces challenges such as high data noise levels, increased dimensionality, and computational complexity…”
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Iterative single-cell multi-omic integration using online learning by Gao, Chao, Liu, Jialin, Kriebel, April R., Preissl, Sebastian, Luo, Chongyuan, Castanon, Rosa, Sandoval, Justin, Rivkin, Angeline, Nery, Joseph R., Behrens, Margarita M., Ecker, Joseph R., Ren, Bing, Welch, Joshua D.

“… Here we describe online integrative non-negative matrix factorization (iNMF), an algorithm for integrating large, diverse and continually arriving single-cell datasets…”
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DockStar: a novel ILP-based integrative method for structural modeling of multimolecular protein complexes by Amir, Naama, Cohen, Dan, Wolfson, Haim J.

“…: We present a novel integrative computational modeling method, which integrates both low and high resolution experimental data…”
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ZBP1, an M1 Macrophage‐Associated Biomarker Identified by Machine Learning, Suppresses Tumorigenesis and Predicts Immunotherapy Response in Head and Neck Squamous Cell Carcinoma by Gao, Feng, Wang, Suya, Fang, Tong, Wang, Kaifang, Sha, Ou

“… Using integrative computational approaches, including biological network algorithms and molecular subtyping, we established a robust gene signature associated with M1/M2 macrophage balance…”
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Computational modelling of detected persistent organic pollutants in adriatic pelagic fish: molecular and toxicokinetic perspectives for human health risk assessment by Obradović, D., Romanić, S.H., Mustać, B., Đinović-Stojanović, J., Popović, A., Lazović, S., Mitrović, T., Milicević, T.

“…In this study, an integrative computational approach combining molecular descriptors, genetic algorithm - multiple linear regression (GA-MLR…”
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Role of non-coding RNAs in quality improvement of horticultural crops: computational tools, databases, and algorithms for identification and analysis by Bashir, Tanzeel, Husaini, Amjad M.

“…Horticultural crops, including fruits, vegetables, flowers, and herbs, are essential for food security and economic sustainability. Advances in biotechnology,…”
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Applications of computational algorithm tools to identify functional SNPs by George Priya Doss, C, Sudandiradoss, C, Rajasekaran, R, Choudhury, Parikshit, Sinha, Priyanka, Hota, Pragnya, Batra, Udit Prakash, Rao, Sethumadhavan

“… To explore possible relationships between genetic mutation and phenotypic variation, different computational algorithm tools like Sorting Intolerant from Tolerant, Polymorphism Phenotyping, UTRscan…”
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Allosteric mechanism of the circadian protein Vivid resolved through Markov state model and machine learning analysis by Zhou, Hongyu, Dong, Zheng, Verkhivker, Gennady, Zoltowski, Brian D., Tao, Peng

“… We answered this question through a novel computational platform integrating Markov state models, machine learning methods, and newly developed community analysis algorithms…”
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Genome-wide expression quantitative trait loci analysis in asthma by Bossé, Yohan

“…Expression quantitative trait loci (eQTL) mapping studies are the next most important step in genomics to identify susceptibility genes and molecular pathways…”
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Integrative clustering of multi-level ‘omic data based on non-negative matrix factorization algorithm by Chalise, Prabhakar, Fridley, Brooke L.

“…Integrative analyses of high-throughput 'omic data, such as DNA methylation, DNA copy number alteration, mRNA and protein expression levels, have created unprecedented opportunities to understand…”
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Aligned deep neural network for integrative analysis with high-dimensional input by Zhang, Shunqin, Zhang, Sanguo, Yi, Huangdi, Ma, Shuangge

“… In this study, we conduct integrative analysis of multiple…”
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Integrative computational modeling of protein interactions by Rodrigues, João P. G. L. M., Bonvin, Alexandre M. J. J.

“…‐angle X‐ray scattering provide data that are too coarse. Computational structure prediction of protein complexes, or docking, was first developed to complement…”
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Principles for Integrative Structural Biology Studies by Rout, Michael P, Sali, Andrej

“…Integrative structure determination is a powerful approach to modeling the structures of biological systems based on data produced by multiple experimental and theoretical methods, with implications…”
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