Search Results for author: Michael Krauthammer

Found 18 papers, 8 papers with code

Towards AI-Based Precision Oncology: A Machine Learning Framework for Personalized Counterfactual Treatment Suggestions based on Multi-Omics Data

no code implementations19 Feb 2024 Manuel Schürch, Laura Boos, Viola Heinzelmann-Schwarz, Gabriele Gut, Michael Krauthammer, Andreas Wicki, Tumor Profiler Consortium

AI-driven precision oncology has the transformative potential to reshape cancer treatment by leveraging the power of AI models to analyze the interaction between complex patient characteristics and their corresponding treatment outcomes.

counterfactual Decision Making

Radiology-Aware Model-Based Evaluation Metric for Report Generation

no code implementations28 Nov 2023 Amos Calamida, Farhad Nooralahzadeh, Morteza Rohanian, Koji Fujimoto, Mizuho Nishio, Michael Krauthammer

Furthermore, we demonstrate that one of our checkpoints exhibits a high correlation with human judgment, as assessed using the publicly available annotations of six board-certified radiologists, using a set of 200 reports.

Attention-based Multi-task Learning for Base Editor Outcome Prediction

no code implementations13 Nov 2023 Amina Mollaysa, Ahmed Allam, Michael Krauthammer

To speed up this process, we present an attention-based two-stage machine learning model that learns to predict the likelihood of all possible editing outcomes for a given genomic target sequence.

Multi-Task Learning

Attention-based Multi-task Learning for Base Editor Outcome Prediction

no code implementations4 Oct 2023 Amina Mollaysa, Ahmed Allam, Michael Krauthammer

To speed up this process, we present an attention-based two-stage machine learning model that learns to predict the likelihood of all possible editing outcomes for a given genomic target sequence.

Multi-Task Learning

Generating Personalized Insulin Treatments Strategies with Deep Conditional Generative Time Series Models

no code implementations28 Sep 2023 Manuel Schürch, Xiang Li, Ahmed Allam, Giulia Rathmes, Amina Mollaysa, Claudia Cavelti-Weder, Michael Krauthammer

We propose a novel framework that combines deep generative time series models with decision theory for generating personalized treatment strategies.

Time Series

Boosting Radiology Report Generation by Infusing Comparison Prior

no code implementations8 May 2023 Sanghwan Kim, Farhad Nooralahzadeh, Morteza Rohanian, Koji Fujimoto, Mizuho Nishio, Ryo Sakamoto, Fabio Rinaldi, Michael Krauthammer

To tackle this issue, we propose a novel approach that leverages a rule-based labeler to extract comparison prior information from radiology reports.

Medical Report Generation Text Generation

SimTS: Rethinking Contrastive Representation Learning for Time Series Forecasting

1 code implementation31 Mar 2023 Xiaochen Zheng, Xingyu Chen, Manuel Schürch, Amina Mollaysa, Ahmed Allam, Michael Krauthammer

Contrastive learning methods have shown an impressive ability to learn meaningful representations for image or time series classification.

Contrastive Learning Representation Learning +3

Exploratory Analysis of Federated Learning Methods with Differential Privacy on MIMIC-III

no code implementations8 Feb 2023 Aron N. Horvath, Matteo Berchier, Farhad Nooralahzadeh, Ahmed Allam, Michael Krauthammer

Methods: We present an extensive evaluation of the impact of different federation and differential privacy techniques when training models on the open-source MIMIC-III dataset.

Federated Learning

DDoS: A Graph Neural Network based Drug Synergy Prediction Algorithm

1 code implementation3 Oct 2022 Kyriakos Schwarz, Alicia Pliego-Mendieta, Lara Planas-Paz, Chantal Pauli, Ahmed Allam, Michael Krauthammer

We use information from the largest drug combination database available (DrugComb), combining drug synergy scores in order to construct high confidence benchmark datasets.

Progressive Transformer-Based Generation of Radiology Reports

1 code implementation Findings (EMNLP) 2021 Farhad Nooralahzadeh, Nicolas Perez Gonzalez, Thomas Frauenfelder, Koji Fujimoto, Michael Krauthammer

Inspired by Curriculum Learning, we propose a consecutive (i. e., image-to-text-to-text) generation framework where we divide the problem of radiology report generation into two steps.

Text Generation

AttentionDDI: Siamese Attention-based Deep Learning method for drug-drug interaction predictions

1 code implementation24 Dec 2020 Kyriakos Schwarz, Ahmed Allam, Nicolas Andres Perez Gonzalez, Michael Krauthammer

Background: Drug-drug interactions (DDIs) refer to processes triggered by the administration of two or more drugs leading to side effects beyond those observed when drugs are administered by themselves.

Patient Similarity Analysis with Longitudinal Health Data

no code implementations14 May 2020 Ahmed Allam, Matthias Dittberner, Anna Sintsova, Dominique Brodbeck, Michael Krauthammer

Healthcare professionals have long envisioned using the enormous processing powers of computers to discover new facts and medical knowledge locked inside electronic health records.

Decision Making

AutoDiscern: Rating the Quality of Online Health Information with Hierarchical Encoder Attention-based Neural Networks

1 code implementation30 Dec 2019 Laura Kinkead, Ahmed Allam, Michael Krauthammer

Patients increasingly turn to search engines and online content before, or in place of, talking with a health professional.

Misinformation

Neural networks versus Logistic regression for 30 days all-cause readmission prediction

1 code implementation22 Dec 2018 Ahmed Allam, Mate Nagy, George Thoma, Michael Krauthammer

Among the deep learning approaches, a recurrent neural network (RNN) combined with conditional random fields (CRF) model (RNNCRF) achieved the best performance in readmission prediction with 0. 642 AUC (95% CI, 0. 640-0. 645).

Management Readmission Prediction +1

Publishing without Publishers: a Decentralized Approach to Dissemination, Retrieval, and Archiving of Data

1 code implementation11 Nov 2014 Tobias Kuhn, Christine Chichester, Michael Krauthammer, Michel Dumontier

Making available and archiving scientific results is for the most part still considered the task of classical publishing companies, despite the fact that classical forms of publishing centered around printed narrative articles no longer seem well-suited in the digital age.

Digital Libraries

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