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One of the challenges in analyzing high-dimensional expression data is the detection of important biological signals. A common approach is to apply a dimension reduction method, such as principal component analysis. Typically, after…

Quantitative Methods · Quantitative Biology 2012-06-05 Andreas Lehrmann , Michael Huber , Aydin C. Polatkan , Albert Pritzkau , Kay Nieselt

The rapid advancement of artificial intelligence in materials science requires data standards and data management practices that can capture the complexity of real-world structures, including surfaces, interfaces, defects, and…

Materials Science · Physics 2026-02-17 Vsevolod Biryukov , Kamal Choudhary , Timur Bazhirov

Dimensionality reduction is used as an important tool for unraveling the complexities of high-dimensional datasets in many fields of science, such as cell biology, chemical informatics, and physics. Visualizations of the dimensionally…

Human-Computer Interaction · Computer Science 2025-07-16 Dylan Cashman , Mark Keller , Hyeon Jeon , Bum Chul Kwon , Qianwen Wang

Developing large-scale foundational datasets is a critical milestone in advancing artificial intelligence (AI)-driven scientific innovation. However, unlike AI-mature fields such as natural language processing, materials science,…

Chemical Physics · Physics 2025-11-18 Ryo Yoshida , Yoshihiro Hayashi , Hidemine Furuya , Ryohei Hosoya , Kazuyoshi Kaneko , Hiroki Sugisawa , Yu Kaneko , Aiko Takahashi , Yoh Noguchi , Shun Nanjo , Keiko Shinoda , Tomu Hamakawa , Mitsuru Ohno , Takuya Kitamura , Misaki Yonekawa , Stephen Wu , Masato Ohnishi , Chang Liu , Teruki Tsurimoto , Arifin , Araki Wakiuchi , Kohei Noda , Junko Morikawa , Teruaki Hayakawa , Junichiro Shiomi , Masanobu Naito , Kazuya Shiratori , Tomoki Nagai , Norio Tomotsu , Hiroto Inoue , Ryuichi Sakashita , Masashi Ishii , Isao Kuwajima , Kenji Furuichi , Norihiko Hiroi , Yuki Takemoto , Takahiro Ohkuma , Keita Yamamoto , Naoya Kowatari , Masato Suzuki , Naoya Matsumoto , Seiryu Umetani , Hisaki Ikebata , Yasuyuki Shudo , Mayu Nagao , Shinya Kamada , Kazunori Kamio , Taichi Shomura , Kensaku Nakamura , Yudai Iwamizu , Atsutoshi Abe , Koki Yoshitomi , Yuki Horie , Katsuhiko Koike , Koichi Iwakabe , Shinya Gima , Kota Usui , Gikyo Usuki , Takuro Tsutsumi , Keitaro Matsuoka , Kazuki Sada , Masahiro Kitabata , Takuma Kikutsuji , Akitaka Kamauchi , Yusuke Iijima , Tsubasa Suzuki , Takenori Goda , Yuki Takabayashi , Kazuko Imai , Yuji Mochizuki , Hideo Doi , Koji Okuwaki , Hiroya Nitta , Taku Ozawa , Hitoshi Kamijima , Toshiaki Shintani , Takuma Mitamura , Massimiliano Zamengo , Yuitsu Sugami , Seiji Akiyama , Yoshinari Murakami , Atsushi Betto , Naoya Matsuo , Satoru Kagao , Tetsuya Kobayashi , Norie Matsubara , Shosei Kubo , Yuki Ishiyama , Yuri Ichioka , Mamoru Usami , Satoru Yoshizaki , Seigo Mizutani , Yosuke Hanawa , Shogo Kunieda , Mitsuru Yambe , Takeru Nakamura , Hiromori Murashima , Kenji Takahashi , Naoki Wada , Masahiro Kawano , Yosuke Harada , Takehiro Fujita , Erina Fujita , Ryoji Himeno , Hiori Kino , Kenji Fukumizu

High-throughput molecular profiling technologies have produced high-dimensional multi-omics data, enabling systematic understanding of living systems at the genome scale. Studying molecular interactions across different data types helps…

Machine Learning · Computer Science 2020-10-23 Ehsan Hajiramezanali , Arman Hasanzadeh , Nick Duffield , Krishna R Narayanan , Xiaoning Qian

Motivation: Studies including more than one type of 'omics data sets are becoming more prevalent. Integrating these data sets can be a way to solidify findings and even to make new discoveries. However, integrating multi-omics data sets is…

Biomolecules · Quantitative Biology 2023-05-19 Thomaz F. S. Bastiaanssen , Thomas P. Quinn , John F. Cryan

The analysis of data streams has received considerable attention over the past few decades due to sensors, social media, etc. It aims to recognize patterns in an unordered, infinite, and evolving stream of observations. Clustering this type…

Machine Learning · Computer Science 2022-01-14 Mohammed Oualid Attaoui , Hanene Azzag , Mustapha Lebbah , Nabil Keskes

This work proposes a multi-image matching method to estimate semantic correspondences across multiple images. In contrast to the previous methods that optimize all pairwise correspondences, the proposed method identifies and matches only a…

Computer Vision and Pattern Recognition · Computer Science 2018-05-02 Qianqian Wang , Xiaowei Zhou , Kostas Daniilidis

Sampling from high-dimensional probability distributions is fundamental in machine learning and statistics. As datasets grow larger, computational efficiency becomes increasingly important, particularly in reducing adaptive complexity,…

Data Structures and Algorithms · Computer Science 2025-09-23 Huanjian Zhou , Masashi Sugiyama

The matched case-control design, up until recently mostly pertinent to epidemiological studies, is becoming customary in biomedical applications as well. For instance, in omics studies, it is quite common to compare cancer and healthy…

Methodology · Statistics 2024-02-05 Vera Djordjilović , Erica Ponzi , Therese Haugdahl Nøst , Magne Thoresen

Most data is multi-dimensional. Discovering whether any subset of dimensions, or subspaces, of such data is significantly correlated is a core task in data mining. To do so, we require a measure that quantifies how correlated a subspace is.…

Machine Learning · Statistics 2015-11-12 Hoang-Vu Nguyen , Jilles Vreeken

Omics technologies enable unbiased investigation of biological systems through massively parallel sequence acquisition or molecular measurements, bringing the life sciences into the era of Big Data. A central challenge posed by such omics…

Molecular Networks · Quantitative Biology 2014-11-04 Xiaoxi Dong , Anatoly Yambartsev , Stephen Ramsey , Lina Thomas , Natalia Shulzhenko , Andrey Morgun

The present work proposes the concept of induced percolation over multiple-object systems, so that features such as the number of merged clusters can be used as a relevant measurement. The suggested approach involves the expansion of the…

Disordered Systems and Neural Networks · Physics 2007-05-23 Luciano da Fontoura Costa

Given data obtained under two sampling conditions, it is often of interest to identify variables that behave differently in one condition than in the other. We introduce a method for differential analysis of second-order behavior called…

Methodology · Statistics 2016-02-26 Kelly Bodwin , Kai Zhang , Andrew Nobel

Multimodal data are now prevailing in scientific research. A central question in multimodal integrative analysis is to understand how two data modalities associate and interact with each other given another modality or demographic…

Methodology · Statistics 2021-04-27 Lexin Li , Jing Zeng , Xin Zhang

Heterogeneous, interconnected, systems-level, molecular data have become increasingly available and key in precision medicine. We need to utilize them to better stratify patients into risk groups, discover new biomarkers and targets,…

Other Quantitative Biology · Quantitative Biology 2024-05-17 Natasa Przulj , Noel Malod-Dognin

As the use and diversity of diagrams across many disciplines grows, there is an increasing interest in the diagrams research community concerning how such diversity might be documented and explained. In this article, we argue that one way…

Computation and Language · Computer Science 2022-06-14 Tuomo Hiippala , John A. Bateman

This paper models categorical data with two or multiple responses, focusing on the interactions between responses. We propose an efficient iterative procedure based on sufficient dimension reduction. We study the theoretical guarantees of…

Methodology · Statistics 2022-10-24 Yuehan Yang

Compared with real-time multi-object tracking (MOT), offline multi-object tracking (OMOT) has the advantages to perform 2D-3D detection fusion, erroneous link correction, and full track optimization but has to deal with the challenges from…

Computer Vision and Pattern Recognition · Computer Science 2025-03-19 Kemiao Huang , Yinqi Chen , Meiying Zhang , Qi Hao

The paper analyses properties of a large class of "path-based" Data Envelopment Analysis models through a unifying general scheme. The scheme includes the well-known oriented radial models, the hyperbolic distance function model, the…

Optimization and Control · Mathematics 2023-08-22 Margaréta Halická , Mária Trnovská , Aleš Černý