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Metabolomics is the high-throughput study of small molecule metabolites. Besides offering novel biological insights, these data contain unique statistical challenges, the most glaring of which is the many non-ignorable missing metabolite…

We consider the problem of handling missing data with deep latent variable models (DLVMs). First, we present a simple technique to train DLVMs when the training set contains missing-at-random data. Our approach, called MIWAE, is based on…

Machine Learning · Statistics 2019-02-05 Pierre-Alexandre Mattei , Jes Frellsen

Metabolomics is the study of small molecules in biological samples. Metabolomics data are typically high-dimensional and contain highly correlated variables and frequent missing values. Both missing at random (MAR) data, due to acquisition…

Missing data imputation is an important research topic in data mining. Large-scale Molecular descriptor data may contains missing values (MVs). However, some methods for downstream analyses, including some prediction tools, require a…

Computational Engineering, Finance, and Science · Computer Science 2013-12-13 Doreswamy , Chanabasayya . M. Vastrad

The aetiology of polygenic obesity is multifactorial, which indicates that life-style and environmental factors may influence multiples genes to aggravate this disorder. Several low-risk single nucleotide polymorphisms (SNPs) have been…

Genomics · Quantitative Biology 2018-08-27 Casimiro A. Curbelo Montañez , Paul Fergus , Carl Chalmers , Jade Hind

The missing data issue is ubiquitous in health studies. Variable selection in the presence of both missing covariates and outcomes is an important statistical research topic but has been less studied. Existing literature focuses on…

Methodology · Statistics 2021-07-09 Liangyuan Hu , Jung-Yi Joyce Lin , Jiayi Ji

BACKGROUND: As databases grow larger, it becomes harder to fully control their collection, and they frequently come with missing values: incomplete observations. These large databases are well suited to train machine-learning models, for…

Machine Learning · Computer Science 2022-02-23 Alexandre Perez-Lebel , Gaël Varoquaux , Marine Le Morvan , Julie Josse , Jean-Baptiste Poline

Advancements in data collection techniques and the heterogeneity of data resources can yield high percentages of missing observations on variables, such as block-wise missing data. Under missing-data scenarios, traditional methods such as…

Methodology · Statistics 2022-05-17 Wei Lan , Xuerong Chen , Tao Zou , Chih-Ling Tsai

Missing data imputation (MDI) is a fundamental problem in many scientific disciplines. Popular methods for MDI use global statistics computed from the entire data set (e.g., the feature-wise medians), or build predictive models operating…

Machine Learning · Computer Science 2020-06-25 Indro Spinelli , Simone Scardapane , Aurelio Uncini

Omic data are characterized by the presence of strong dependence structures that result either from data acquisition or from some underlying biological processes. In metabolomics, for instance, data resulting from Liquid Chromatography-Mass…

Missing values are a notable challenge when analysing mass spectrometry-based proteomics data. While the field is still actively debating on the best practices, the challenge increased with the emergence of mass spectrometry-based…

Quantitative Methods · Quantitative Biology 2023-07-12 Christophe Vanderaa , Laurent Gatto

Background. Emerging technologies now allow for mass spectrometry based profiling of up to thousands of small molecule metabolites (metabolomics) in an increasing number of biosamples. While offering great promise for revealing insight into…

Multivariate time series data for real-world applications typically contain a significant amount of missing values. The dominant approach for classification with such missing values is to impute them heuristically with specific values…

Machine Learning · Computer Science 2023-08-15 SeungHyun Kim , Hyunsu Kim , EungGu Yun , Hwangrae Lee , Jaehun Lee , Juho Lee

As the adoption of Artificial Intelligence (AI) models expands into critical real-world applications, ensuring the explainability of these models becomes paramount, particularly in sensitive fields such as medicine and finance. Linear…

Machine Learning · Computer Science 2024-10-10 Tuan L. Vo , Uyen Dang , Thu Nguyen

In many machine learning applications, we are faced with incomplete datasets. In the literature, missing data imputation techniques have been mostly concerned with filling missing values. However, the existence of missing values is…

Machine Learning · Computer Science 2020-09-07 Mohammad Kachuee , Kimmo Karkkainen , Orpaz Goldstein , Sajad Darabi , Majid Sarrafzadeh

Dealing with missing data in data analysis is inevitable. Although powerful imputation methods that address this problem exist, there is still much room for improvement. In this study, we examined single imputation based on deep…

Machine Learning · Computer Science 2020-04-07 Najmeh Abiri , Björn Linse , Patrik Edén , Mattias Ohlsson

Multiple imputation is a well-established general technique for analyzing data with missing values. A convenient way to implement multiple imputation is sequential regression multiple imputation (SRMI), also called chained equations…

Case-cohort studies are conducted within cohort studies, wherein collection of exposure data is limited to a subset of the cohort, leading to a large proportion of missing data by design. Standard analysis uses inverse probability weighting…

Untargeted metabolomics using LC-MS/MS offers the potential to comprehensively profile the chemical diversity of biological samples. However, the process is fundamentally limited by the "identification bottleneck," where only a small…

Quantitative Methods · Quantitative Biology 2025-10-14 Hansol Hong , Sangwon Lee , Jang-Ho Ha , Sung-June Chu , So-Hee An , Woo-Hyun Paek , Gyuhwa Chung , Kyoung Tai No

Missing values of varying patterns and rates in real-world tabular data pose a significant challenge in developing reliable data-driven models. The most commonly used statistical and machine learning methods for missing value imputation may…

Machine Learning · Computer Science 2025-03-26 Ibna Kowsar , Shourav B. Rabbani , Yina Hou , Manar D. Samad