27 papers · ranked by Valyu relevance
Kosuke Yoshida, Junichiro Yoshimoto, Kenji Doya
Background Advance in high-throughput technologies in genomics, transcriptomics, and metabolomics has created demand for bioinformatics tools to integrate high-dimensional data from different sources. Canonical correlation analysis (CCA) is a statistical tool for finding linear associations between different types of…
Christopher M. Wilson, Kaiqiao Li, Xiaoqing Yu, Pei-Fen Kuan + 1 more
'Xuefeng Wang'] Background Advances in medical technology have allowed for customized prognosis, diagnosis, and treatment regimens that utilize multiple heterogeneous data sources. Multiple kernel learning (MKL) is well suited for the integration of multiple high throughput data sources. MKL remains to be…
Wenjia Niu, Kewen Xia, Baokai Zu, Jianchuan Bai
Unlike Support Vector Machine (SVM), Multiple Kernel Learning (MKL) allows datasets to be free to choose the useful kernels based on their distribution characteristics rather than a precise one. It has been shown in the literature that MKL holds superior recognition accuracy compared with SVM, however, at the expense…
Mitja Briscik, Gabriele Tazza, László Vidács, Marie-Agnès Dillies + 1 more
'Sébastien Déjean'] Background Advances in high-throughput technologies have originated an ever-increasing availability of omics datasets. The integration of multiple heterogeneous data sources is currently an issue for biology and bioinformatics. Multiple kernel learning (MKL) has shown to be a flexible and valid…
Jérôme Mariette, Nathalie Villa-Vialaneix
Recent high-throughput sequencing advances have expanded the breadth of available omics datasets and the integrated analysis of multiple datasets obtained on the same samples has allowed to gain important insights in a wide range of applications. However, the integration of various sources of information remains a…
Nisar Wani, Khalid Raza
Computer aided diagnosis is gradually making its way into the domain of medical research and clinical diagnosis. With field of radiology and diagnostic imaging producing petabytes of image data. Machine learning tools, particularly kernel based algorithms seem to be an obvious choice to process and analyze this high…
Ahmad Navid Ghanizadeh, Kamaledin Ghiasi-Shirazi, Reza Monsefi, Mohammadreza Qaraei
'Mohammadreza Qaraei'] Multiple Kernel Learning is a conventional way to learn the kernel function in kernel-based methods. MKL algorithms enhance the performance of kernel methods. However, these methods have a lower complexity compared to deep learning models and are inferior to these models in terms of recognition…
Jinshan Qi, Xun Liang, Rui Xu
By utilizing kernel functions, support vector machines (SVMs) successfully solve the linearly inseparable problems. Subsequently, its applicable areas have been greatly extended. Using multiple kernels (MKs) to improve the SVM classification accuracy has been a hot topic in the SVM research society for several years.…
Christopher M. Wilson, Kaiqiao Li, Pei-Fen Kuan, Xuefeng Wang
Advances in medical technology have allowed for customized prognosis, diagnosis, and personalized treatment regimens that utilize multiple heterogeneous data sources. Multiple kernel learning (MKL) is well suited for integration of multiple high throughput data sources, however, there are currently no implementations…
Mark F. Rogers, Colin Campbell, Yiming Ying
There is significant interest in inferring the structure of subcellular networks of interaction. Here we consider supervised interactive network inference in which a reference set of known network links and nonlinks is used to train a classifier for predicting new links. Many types of data are relevant to inferring…
Yulin Jian, Daoyu Huang, Jia Yan, Kun Lu + 5 more
'Tanyue Zeng' 'Shijie Zhong' 'Qilong Xie'] A novel classification model, named the quantum-behaved particle swarm optimization (QPSO)-based weighted multiple kernel extreme learning machine (QWMK-ELM), is proposed in this paper. Experimental validation is carried out with two different electronic nose (e-nose)…
Babak Hosseini, Barbara Hammer
Multiple kernel learning (MKL) algorithms combine different base kernels to obtain a more efficient representation in the feature space. Focusing on discriminative tasks, MKL has been used successfully for feature selection and finding the significant modalities of the data. In such applications, each base kernel…
Claudio Cusano, Paolo Napoletano, Raimondo Schettini
—We propose a strategy for land use classification which exploits Multiple Kernel Learning (MKL) to automatically determine a suitable combination of a set of features without requiring any heuristic knowledge about the classification task. We present a novel procedure that allows MKL to achieve good performance in the…
Mehmet Gönen
Multiple kernel learning algorithms are proposed to combine kernels in order to obtain a better similarity measure or to integrate feature representations coming from different data sources. Most of the previous research on such methods is focused on the computational efficiency issue. However, it is still not feasible…
Shengbing Ren, Fa Liu, Weijia Zhou, Xian Feng + 2 more
'Chaudry Naeem Siddique' 'Robertas Damasevicius'] The deep multiple kernel Learning (DMKL) method has attracted wide attention due to its better classification performance than shallow multiple kernel learning. However, the existing DMKL methods are hard to find suitable global model parameters to improve…
Akhil Meethal, S. Asharaf, S. Sumitra
—Kernel based Deep Learning using multi-layer kernel machines(MKMs) was proposed by Y.Cho and L.K. Saul in [1]. In MKMs they used only one kernel(arc-cosine kernel) at a layer for the kernel PCA based feature extraction. We propose to use multiple kernels in each layer by taking a convex combination of many kernels…
Rong Jin, Tianbao Yang, Mehrdad Mahdavi
In this paper, we study the problem of sparse multiple kernel learning (MKL), where the goal is to efficiently learn a combination of a fixed small number of kernels from a large pool that could lead to a kernel classifier with a small prediction error. We develop an efficient algorithm based on the greedy coordinate…
Yunwen Lei, Alexander Binder, Ürün Doǧan, Marius Kloft
We propose a localized approach to multiple kernel learning that can be formulated as a convex optimization problem over a given cluster structure. For which we obtain generalization error guarantees and derive an optimization algorithm based on the Fenchel dual representation. Experiments on real-world datasets from…
Christopher M. Wilson, Kaiqiao Li, Qiang Sun, Pei Fen Kuan + 1 more
The Cox proportional hazard model is the most widely used method in modeling time-to-event data in the health sciences. A common form of the loss function in machine learning for survival data is also mainly based on Cox partial likelihood function, due to its simplicity. However, the optimization problem becomes…
Parisa Shahnazari, Kaveh Kavousi, Hamid Reza Khorram Khorshid, Bahram Goliaei + 1 more
Integrating multiple omics modalities is a crucial strategy in cancer research, particularly in metabolomics, enabling early detection and detailed exploration of cancer biomarker signatures. This study evaluates five strategies for integrating metabolomics data from liquid chromatography-mass spectrometry, gas…
Qi Mao, Ivor W. Tsang
Due to the growing ubiquity of unlabeled data, learning with unlabeled data is attracting increasing attention in machine learning. In this paper, we propose a novel semi-supervised kernel learning method which can seamlessly combine manifold structure of unlabeled data and Regularized Least-Squares (RLS) to learn a…
Authors not listed
We adapted an existing approach to identifying stabilisable crystal structures from prediction sets - the Generalised Convex Hull (GCH) - to improve its application to molecular crystal structures. This was achieved by modifying the Smooth Overlap of Atomic Positions (SOAP) kernel to define the similarity of molecular…
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Metastable states and the conformational transitions in between them are key to understanding dynamical behaviour and function of large-scale molecular systems. By combining basic dimensionality reduction techniques with a state-of-the art approximation of the Koopman operator associated to molecular dynamics…
Yinuo Yang, Shuhao Zhang, Kavindri Ranasinghe, Olexandr Isayev + 1 more
In the past two decades, machine learning potentials (MLPs) have driven significant developments in chemical, biological and material sciences. The construction and training of MLPs enables fast and accurate simulations and analysis on thermodynamic and kinetic properties. This review focuses on the applications of…
Martin Seifrid, Stanley Lo, Dylan Choi, Gary Tom + 12 more
Martin Seifrid 1 , Stanley Lo 2 , Dylan G. Choi 3 , Gary Tom 2 , My Linh Le 3 , Kunyu Li 3 , Rahul Sankar 3 , Hoai-Thanh Vuong 3 , Hiba Wakidi 3 , Ahra Yi 3 , Ziyue Zhu 3 , Nora Schopp 3 , Aaron Peng 3 , Benjamin Luginbuhl 3 , Thuc-Quyen Nguyen 3 , Alán Aspuru-Guzik 2
Authors not listed
Machine olfaction—the artificial replication of the sense of smell—faces significant challenges due to the absence of large, standardized training datasets. Unlike vision, language, and audio models, which benefit from extensive corpora such as ImageNet, GLUE, and AudioSet, olfaction lacks scaled equivalents and…
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The accurate representation of atoms within their environment forms the backbone of any reliable machine learning force field (MLFF). While modern MLFFs treat atoms of the same type as indistinguishable, their identities can be further resolved by accounting for the composition of their chemical environment. This can…