<?xml version="1.0" encoding="utf-8" standalone="yes"?><rss version="2.0" xmlns:atom="http://www.w3.org/2005/Atom"><channel><title>Article-Journal | MLO Lab</title><link>https://mlo-lab.github.io/publication-type/article-journal/</link><atom:link href="https://mlo-lab.github.io/publication-type/article-journal/index.xml" rel="self" type="application/rss+xml"/><description>Article-Journal</description><generator>Hugo Blox Builder (https://hugoblox.com)</generator><language>en-us</language><copyright>© 2026 MLO Lab</copyright><lastBuildDate>Thu, 01 Jan 2026 00:00:00 +0000</lastBuildDate><image><url>https://mlo-lab.github.io/media/logo_hu_9ab0b13d2686246a.png</url><title>Article-Journal</title><link>https://mlo-lab.github.io/publication-type/article-journal/</link></image><item><title>Improving perturbation-based explanations by understanding the role of uncertainty calibration</title><link>https://mlo-lab.github.io/publication/decker-2026-improving/</link><pubDate>Thu, 01 Jan 2026 00:00:00 +0000</pubDate><guid>https://mlo-lab.github.io/publication/decker-2026-improving/</guid><description/></item><item><title>Toward trustworthy healthcare AI: designing academic research for translation readiness</title><link>https://mlo-lab.github.io/publication/hekler-2026-toward/</link><pubDate>Thu, 01 Jan 2026 00:00:00 +0000</pubDate><guid>https://mlo-lab.github.io/publication/hekler-2026-toward/</guid><description/></item><item><title>Tumor-associated epilepsy and high expression of xCT shape the proteome of IDH-wildtype glioblastoma</title><link>https://mlo-lab.github.io/publication/dive-2026-tumor/</link><pubDate>Thu, 01 Jan 2026 00:00:00 +0000</pubDate><guid>https://mlo-lab.github.io/publication/dive-2026-tumor/</guid><description/></item><item><title>Learning interpretable representations of single-cell multi-omics data with multi-output Gaussian processes</title><link>https://mlo-lab.github.io/publication/10-1093-nargkaf-630/</link><pubDate>Tue, 01 Jul 2025 00:00:00 +0000</pubDate><guid>https://mlo-lab.github.io/publication/10-1093-nargkaf-630/</guid><description/></item><item><title>Application-driven validation of posteriors in inverse problems</title><link>https://mlo-lab.github.io/publication/adler-2025-application/</link><pubDate>Wed, 01 Jan 2025 00:00:00 +0000</pubDate><guid>https://mlo-lab.github.io/publication/adler-2025-application/</guid><description/></item><item><title>Decoding heart failure subtypes with neural networks via differential explanation analysis</title><link>https://mlo-lab.github.io/publication/ruz-2025-decoding/</link><pubDate>Wed, 01 Jan 2025 00:00:00 +0000</pubDate><guid>https://mlo-lab.github.io/publication/ruz-2025-decoding/</guid><description/></item><item><title>How to Leverage Predictive Uncertainty Estimates for Reducing Catastrophic Forgetting in Online Continual Learning</title><link>https://mlo-lab.github.io/publication/serra-2025-how/</link><pubDate>Wed, 01 Jan 2025 00:00:00 +0000</pubDate><guid>https://mlo-lab.github.io/publication/serra-2025-how/</guid><description/></item><item><title>Disentangling Mean Embeddings for Better Diagnostics of Image Generators</title><link>https://mlo-lab.github.io/publication/gruber-2024-disentangling/</link><pubDate>Mon, 01 Jan 2024 00:00:00 +0000</pubDate><guid>https://mlo-lab.github.io/publication/gruber-2024-disentangling/</guid><description/></item><item><title>Exploratory analysis of metabolic changes using mass spectrometry data and graph embeddings</title><link>https://mlo-lab.github.io/publication/alvarez-2024-exploratory/</link><pubDate>Mon, 01 Jan 2024 00:00:00 +0000</pubDate><guid>https://mlo-lab.github.io/publication/alvarez-2024-exploratory/</guid><description/></item><item><title>Metrics reloaded: recommendations for image analysis validation</title><link>https://mlo-lab.github.io/publication/maier-2024-metrics/</link><pubDate>Mon, 01 Jan 2024 00:00:00 +0000</pubDate><guid>https://mlo-lab.github.io/publication/maier-2024-metrics/</guid><description/></item><item><title>Understanding metric-related pitfalls in image analysis validation</title><link>https://mlo-lab.github.io/publication/reinke-2024-understanding/</link><pubDate>Mon, 01 Jan 2024 00:00:00 +0000</pubDate><guid>https://mlo-lab.github.io/publication/reinke-2024-understanding/</guid><description/></item><item><title>Multimodal analysis methods in predictive biomedicine</title><link>https://mlo-lab.github.io/publication/qoku-2023-multimodal/</link><pubDate>Sun, 01 Jan 2023 00:00:00 +0000</pubDate><guid>https://mlo-lab.github.io/publication/qoku-2023-multimodal/</guid><description/></item><item><title>Better uncertainty calibration via proper scores for classification and beyond</title><link>https://mlo-lab.github.io/publication/gruber-2022-better/</link><pubDate>Sat, 01 Jan 2022 00:00:00 +0000</pubDate><guid>https://mlo-lab.github.io/publication/gruber-2022-better/</guid><description/></item><item><title>Inflammatory fibroblasts mediate resistance to neoadjuvant therapy in rectal cancer</title><link>https://mlo-lab.github.io/publication/nicolas-2022-inflammatory/</link><pubDate>Sat, 01 Jan 2022 00:00:00 +0000</pubDate><guid>https://mlo-lab.github.io/publication/nicolas-2022-inflammatory/</guid><description/></item><item><title>Single cell analyses identify a highly regenerative and homogenous human CD34+ hematopoietic stem cell population</title><link>https://mlo-lab.github.io/publication/anjos-2022-single/</link><pubDate>Sat, 01 Jan 2022 00:00:00 +0000</pubDate><guid>https://mlo-lab.github.io/publication/anjos-2022-single/</guid><description/></item><item><title>The proteogenomic subtypes of acute myeloid leukemia</title><link>https://mlo-lab.github.io/publication/jayavelu-2022-proteogenomic/</link><pubDate>Sat, 01 Jan 2022 00:00:00 +0000</pubDate><guid>https://mlo-lab.github.io/publication/jayavelu-2022-proteogenomic/</guid><description/></item><item><title>Hierarchical Domain Invariant Variational Auto-Encoding with weak domain supervision</title><link>https://mlo-lab.github.io/publication/sun-2021-hierarchical/</link><pubDate>Fri, 01 Jan 2021 00:00:00 +0000</pubDate><guid>https://mlo-lab.github.io/publication/sun-2021-hierarchical/</guid><description/></item><item><title>Parameterized Temperature Scaling for Boosting the Expressive Power in Post-Hoc Uncertainty Calibration</title><link>https://mlo-lab.github.io/publication/tomani-2021-parameterized/</link><pubDate>Fri, 01 Jan 2021 00:00:00 +0000</pubDate><guid>https://mlo-lab.github.io/publication/tomani-2021-parameterized/</guid><description/></item><item><title>Post-hoc Uncertainty Calibration for Domain Drift Scenarios</title><link>https://mlo-lab.github.io/publication/tomani-post-hoc-2020/</link><pubDate>Wed, 01 Jan 2020 00:00:00 +0000</pubDate><guid>https://mlo-lab.github.io/publication/tomani-post-hoc-2020/</guid><description/></item><item><title>Single-cell RNA-sequencing of differentiating iPS cells reveals dynamic genetic effects on gene expression</title><link>https://mlo-lab.github.io/publication/cuomo-single-cell-2020/</link><pubDate>Wed, 01 Jan 2020 00:00:00 +0000</pubDate><guid>https://mlo-lab.github.io/publication/cuomo-single-cell-2020/</guid><description/></item><item><title>TIMELY: Improving Labeling Consistency in Medical Imaging for Cell Type Classification</title><link>https://mlo-lab.github.io/publication/liu-timely-2020/</link><pubDate>Wed, 01 Jan 2020 00:00:00 +0000</pubDate><guid>https://mlo-lab.github.io/publication/liu-timely-2020/</guid><description/></item><item><title>Ano-rectal wall dose-surface maps localize the dosimetric benefit of hydrogel rectum spacers in prostate cancer radiotherapy</title><link>https://mlo-lab.github.io/publication/vanneste-ano-rectal-2019/</link><pubDate>Tue, 01 Jan 2019 00:00:00 +0000</pubDate><guid>https://mlo-lab.github.io/publication/vanneste-ano-rectal-2019/</guid><description/></item><item><title>Metabolic regulation of pluripotency and germ cell fate through α-ketoglutarate</title><link>https://mlo-lab.github.io/publication/tischler-metabolic-2019/</link><pubDate>Tue, 01 Jan 2019 00:00:00 +0000</pubDate><guid>https://mlo-lab.github.io/publication/tischler-metabolic-2019/</guid><description/></item><item><title>Single cell multi-omics profiling reveals a hierarchical epigenetic landscape during mammalian germ layer specification</title><link>https://mlo-lab.github.io/publication/argelaguet-single-2019/</link><pubDate>Tue, 01 Jan 2019 00:00:00 +0000</pubDate><guid>https://mlo-lab.github.io/publication/argelaguet-single-2019/</guid><description/></item><item><title>Design and selection of machine learning methods using radiomics and dosiomics for normal tissue complication probability modeling of xerostomia</title><link>https://mlo-lab.github.io/publication/gabrys-design-2018/</link><pubDate>Mon, 01 Jan 2018 00:00:00 +0000</pubDate><guid>https://mlo-lab.github.io/publication/gabrys-design-2018/</guid><description/></item><item><title>Document informed neural autoregressive topic models</title><link>https://mlo-lab.github.io/publication/gupta-document-2018/</link><pubDate>Mon, 01 Jan 2018 00:00:00 +0000</pubDate><guid>https://mlo-lab.github.io/publication/gupta-document-2018/</guid><description/></item><item><title>Multi-Omics Factor Analysis—a framework for unsupervised integration of multi-omics data sets</title><link>https://mlo-lab.github.io/publication/argelaguet-multi-omics-2018/</link><pubDate>Mon, 01 Jan 2018 00:00:00 +0000</pubDate><guid>https://mlo-lab.github.io/publication/argelaguet-multi-omics-2018/</guid><description/></item><item><title>texttovec: Deep contextualized neural autoregressive models of language with distributed compositional prior</title><link>https://mlo-lab.github.io/publication/gupta-texttovec-2018-1/</link><pubDate>Mon, 01 Jan 2018 00:00:00 +0000</pubDate><guid>https://mlo-lab.github.io/publication/gupta-texttovec-2018-1/</guid><description/></item><item><title>Texttovec: Deep contextualized neural autoregressive topic models of language with distributed compositional prior</title><link>https://mlo-lab.github.io/publication/gupta-texttovec-2018/</link><pubDate>Mon, 01 Jan 2018 00:00:00 +0000</pubDate><guid>https://mlo-lab.github.io/publication/gupta-texttovec-2018/</guid><description/></item><item><title>A divergent population of autoantigen-responsive CD4+ T cells in infants prior to β cell autoimmunity</title><link>https://mlo-lab.github.io/publication/heninger-divergent-2017/</link><pubDate>Sun, 01 Jan 2017 00:00:00 +0000</pubDate><guid>https://mlo-lab.github.io/publication/heninger-divergent-2017/</guid><description/></item><item><title>cgcorrect: a method to correct for confounding cell–cell variation due to cell growth in single-cell transcriptomics</title><link>https://mlo-lab.github.io/publication/blasi-cgcorrect-2017/</link><pubDate>Sun, 01 Jan 2017 00:00:00 +0000</pubDate><guid>https://mlo-lab.github.io/publication/blasi-cgcorrect-2017/</guid><description/></item><item><title>f-scLVM: scalable and versatile factor analysis for single-cell RNA-seq</title><link>https://mlo-lab.github.io/publication/buettner-f-sclvm-2017/</link><pubDate>Sun, 01 Jan 2017 00:00:00 +0000</pubDate><guid>https://mlo-lab.github.io/publication/buettner-f-sclvm-2017/</guid><description/></item><item><title>Non-targeted metabolomic approach reveals two distinct types of metabolic responses to telomerase dysfunction in S. cerevisiae</title><link>https://mlo-lab.github.io/publication/buettner-non-targeted-2017/</link><pubDate>Sun, 01 Jan 2017 00:00:00 +0000</pubDate><guid>https://mlo-lab.github.io/publication/buettner-non-targeted-2017/</guid><description/></item><item><title>Parotid gland mean dose as a xerostomia predictor in low-dose domains</title><link>https://mlo-lab.github.io/publication/gabrys-parotid-2017/</link><pubDate>Sun, 01 Jan 2017 00:00:00 +0000</pubDate><guid>https://mlo-lab.github.io/publication/gabrys-parotid-2017/</guid><description/></item><item><title>Prospective identification of hematopoietic lineage choice by deep learning</title><link>https://mlo-lab.github.io/publication/buggenthin-prospective-2017/</link><pubDate>Sun, 01 Jan 2017 00:00:00 +0000</pubDate><guid>https://mlo-lab.github.io/publication/buggenthin-prospective-2017/</guid><description/></item><item><title>Vitamin A-retinoic acid signaling regulates hematopoietic stem cell dormancy</title><link>https://mlo-lab.github.io/publication/cabezas-wallscheid-vitamin-2017/</link><pubDate>Sun, 01 Jan 2017 00:00:00 +0000</pubDate><guid>https://mlo-lab.github.io/publication/cabezas-wallscheid-vitamin-2017/</guid><description/></item><item><title>destiny: diffusion maps for large-scale single-cell data in R</title><link>https://mlo-lab.github.io/publication/angerer-destiny-2016/</link><pubDate>Fri, 01 Jan 2016 00:00:00 +0000</pubDate><guid>https://mlo-lab.github.io/publication/angerer-destiny-2016/</guid><description/></item><item><title>Unbiased prediction and feature selection in high-dimensional survival regression</title><link>https://mlo-lab.github.io/publication/laimighofer-unbiased-2016/</link><pubDate>Fri, 01 Jan 2016 00:00:00 +0000</pubDate><guid>https://mlo-lab.github.io/publication/laimighofer-unbiased-2016/</guid><description/></item><item><title>Combined single-cell functional and gene expression analysis resolves heterogeneity within stem cell populations</title><link>https://mlo-lab.github.io/publication/wilson-combined-2015/</link><pubDate>Thu, 01 Jan 2015 00:00:00 +0000</pubDate><guid>https://mlo-lab.github.io/publication/wilson-combined-2015/</guid><description/></item><item><title>Computational analysis of cell-to-cell heterogeneity in single-cell RNA-sequencing data reveals hidden subpopulations of cells</title><link>https://mlo-lab.github.io/publication/buettner-computational-2015/</link><pubDate>Thu, 01 Jan 2015 00:00:00 +0000</pubDate><guid>https://mlo-lab.github.io/publication/buettner-computational-2015/</guid><description/></item><item><title>Computational assignment of cell-cycle stage from single-cell transcriptome data</title><link>https://mlo-lab.github.io/publication/scialdone-computational-2015/</link><pubDate>Thu, 01 Jan 2015 00:00:00 +0000</pubDate><guid>https://mlo-lab.github.io/publication/scialdone-computational-2015/</guid><description/></item><item><title>Decoding the regulatory network of early blood development from single-cell gene expression measurements</title><link>https://mlo-lab.github.io/publication/moignard-decoding-2015/</link><pubDate>Thu, 01 Jan 2015 00:00:00 +0000</pubDate><guid>https://mlo-lab.github.io/publication/moignard-decoding-2015/</guid><description/></item><item><title>Diffusion maps for high-dimensional single-cell analysis of differentiation data</title><link>https://mlo-lab.github.io/publication/haghverdi-diffusion-2015/</link><pubDate>Thu, 01 Jan 2015 00:00:00 +0000</pubDate><guid>https://mlo-lab.github.io/publication/haghverdi-diffusion-2015/</guid><description/></item><item><title>Effects of high-dose oral insulin on immune responses in children at high risk for type 1 diabetes: the Pre-POINT randomized clinical trial</title><link>https://mlo-lab.github.io/publication/bonifacio-effects-2015/</link><pubDate>Thu, 01 Jan 2015 00:00:00 +0000</pubDate><guid>https://mlo-lab.github.io/publication/bonifacio-effects-2015/</guid><description/></item><item><title>RAMONA: a Web application for gene set analysis on multilevel omics data</title><link>https://mlo-lab.github.io/publication/sass-ramona-2015/</link><pubDate>Thu, 01 Jan 2015 00:00:00 +0000</pubDate><guid>https://mlo-lab.github.io/publication/sass-ramona-2015/</guid><description/></item><item><title>Single-cell transcriptomic reconstruction reveals cell cycle and multi-lineage differentiation defects in Bcl11a-deficient hematopoietic stem cells</title><link>https://mlo-lab.github.io/publication/tsang-single-cell-2015/</link><pubDate>Thu, 01 Jan 2015 00:00:00 +0000</pubDate><guid>https://mlo-lab.github.io/publication/tsang-single-cell-2015/</guid><description/></item><item><title>Feature ranking of type 1 diabetes susceptibility genes improves prediction of type 1 diabetes</title><link>https://mlo-lab.github.io/publication/winkler-feature-2014/</link><pubDate>Wed, 01 Jan 2014 00:00:00 +0000</pubDate><guid>https://mlo-lab.github.io/publication/winkler-feature-2014/</guid><description/></item><item><title>Molecular phenotypic profiling of a Saccharomyces cerevisiae strain at the single-cell level</title><link>https://mlo-lab.github.io/publication/schmidt-molecular-2014/</link><pubDate>Wed, 01 Jan 2014 00:00:00 +0000</pubDate><guid>https://mlo-lab.github.io/publication/schmidt-molecular-2014/</guid><description/></item><item><title>Probabilistic PCA of censored data: accounting for uncertainties in the visualization of high-throughput single-cell qPCR data</title><link>https://mlo-lab.github.io/publication/buettner-probabilistic-2014/</link><pubDate>Wed, 01 Jan 2014 00:00:00 +0000</pubDate><guid>https://mlo-lab.github.io/publication/buettner-probabilistic-2014/</guid><description/></item><item><title>Two non-parametric methods for derivation of constraints from radiotherapy dose–histogram data</title><link>https://mlo-lab.github.io/publication/ebert-two-2014/</link><pubDate>Wed, 01 Jan 2014 00:00:00 +0000</pubDate><guid>https://mlo-lab.github.io/publication/ebert-two-2014/</guid><description/></item><item><title>A modular framework for gene set analysis integrating multilevel omics data</title><link>https://mlo-lab.github.io/publication/sass-modular-2013/</link><pubDate>Tue, 01 Jan 2013 00:00:00 +0000</pubDate><guid>https://mlo-lab.github.io/publication/sass-modular-2013/</guid><description/></item><item><title>Characterization of transcriptional networks in blood stem and progenitor cells using high-throughput single-cell gene expression analysis</title><link>https://mlo-lab.github.io/publication/moignard-characterization-2013/</link><pubDate>Tue, 01 Jan 2013 00:00:00 +0000</pubDate><guid>https://mlo-lab.github.io/publication/moignard-characterization-2013/</guid><description/></item><item><title>A novel approach for resolving differences in single-cell gene expression patterns from zygote to blastocyst</title><link>https://mlo-lab.github.io/publication/buettner-novel-2012/</link><pubDate>Sun, 01 Jan 2012 00:00:00 +0000</pubDate><guid>https://mlo-lab.github.io/publication/buettner-novel-2012/</guid><description/></item><item><title>Novel approaches to improve the therapeutic index of head and neck radiotherapy: an analysis of data from the PARSPORT randomised phase III trial</title><link>https://mlo-lab.github.io/publication/buettner-novel-2012-1/</link><pubDate>Sun, 01 Jan 2012 00:00:00 +0000</pubDate><guid>https://mlo-lab.github.io/publication/buettner-novel-2012-1/</guid><description/></item><item><title>The dose–response of the anal sphincter region–an analysis of data from the MRC RT01 trial</title><link>https://mlo-lab.github.io/publication/buettner-doseresponse-2012/</link><pubDate>Sun, 01 Jan 2012 00:00:00 +0000</pubDate><guid>https://mlo-lab.github.io/publication/buettner-doseresponse-2012/</guid><description/></item><item><title>Modeling late rectal toxicities based on a parameterized representation of the 3D dose distribution</title><link>https://mlo-lab.github.io/publication/buettner-modeling-2011/</link><pubDate>Sat, 01 Jan 2011 00:00:00 +0000</pubDate><guid>https://mlo-lab.github.io/publication/buettner-modeling-2011/</guid><description/></item><item><title>Using Bayesian logistic regression to evaluate a new type of dosimetric constraint for prostate radiotherapy treatment planning</title><link>https://mlo-lab.github.io/publication/buettner-using-2010/</link><pubDate>Fri, 01 Jan 2010 00:00:00 +0000</pubDate><guid>https://mlo-lab.github.io/publication/buettner-using-2010/</guid><description/></item><item><title>Assessing correlations between the spatial distribution of the dose to the rectal wall and late rectal toxicity after prostate radiotherapy: an analysis of data from the MRC RT01 trial (ISRCTN 47772397)</title><link>https://mlo-lab.github.io/publication/buettner-assessing-2009/</link><pubDate>Thu, 01 Jan 2009 00:00:00 +0000</pubDate><guid>https://mlo-lab.github.io/publication/buettner-assessing-2009/</guid><description/></item><item><title>Using dose-surface maps to predict radiation-induced rectal bleeding: a neural network approach</title><link>https://mlo-lab.github.io/publication/buettner-using-2009/</link><pubDate>Thu, 01 Jan 2009 00:00:00 +0000</pubDate><guid>https://mlo-lab.github.io/publication/buettner-using-2009/</guid><description/></item><item><title>Dosimetric impact of motion in free-breathing and gated lung radiotherapy: A 4D Monte Carlo study of intrafraction and interfraction effects</title><link>https://mlo-lab.github.io/publication/seco-dosimetric-2008/</link><pubDate>Tue, 01 Jan 2008 00:00:00 +0000</pubDate><guid>https://mlo-lab.github.io/publication/seco-dosimetric-2008/</guid><description/></item></channel></rss>