Michael Krauthammer

Publication Activity (10 Years)

Years Active: 2000-2024
Publications (10 Years): 39

Top Topics

Semantic Enrichment

Outcome Prediction

Health Information

Top Venues

Publications

Cécile Trottet, Manuel Schürch, Ahmed Allam, Imon Barua, Liubov Petelytska, Oliver Distler, Anna-Maria Hoffmann-Vold, Michael Krauthammer, EUSTAR collaborators
Semi-Supervised Generative Models for Disease Trajectories: A Case Study on Systemic Sclerosis. CoRR (2024)
Xiaochen Zheng, Manuel Schürch, Xingyu Chen, Maria Angeliki Komninou, Reto Schüpbach, Ahmed Allam, Jan Bartussek, Michael Krauthammer
Clustering of Disease Trajectories with Explainable Machine Learning: A Case Study on Postoperative Delirium Phenotypes. CoRR (2024)
Zsolt Balázs, Todor Gitchev, Ivna Ivankovic, Michael Krauthammer
Fragmentstein - facilitating data reuse for cell-free DNA fragment analysis. Bioinform. 40 (1) (2024)
Xiaochen Zheng, Xingyu Chen, Manuel Schürch, Amina Mollaysa, Ahmed Allam, Michael Krauthammer
Simple Contrastive Representation Learning for Time Series Forecasting. ICASSP (2024)
Manuel Schürch, Laura Boos, Viola Heinzelmann-Schwarz, Gabriele Gut, Michael Krauthammer, Andreas Wicki, Tumor Profiler Consortium
Towards AI-Based Precision Oncology: A Machine Learning Framework for Personalized Counterfactual Treatment Suggestions based on Multi-Omics Data. CoRR (2024)
Cécile Trottet, Manuel Schürch, Ahmed Allam, Imon Barua, Liubov Petelytska, Oliver Distler, Anna-Maria Hoffmann-Vold, Michael Krauthammer, the EUSTAR collaborators
Modeling Complex Disease Trajectories using Deep Generative Models with Semi-Supervised Latent Processes. CoRR (2023)
Xingyu Chen, Xiaochen Zheng, Amina Mollaysa, Manuel Schürch, Ahmed Allam, Michael Krauthammer
Dynamic Local Attention with Hierarchical Patching for Irregular Clinical Time Series. CoRR (2023)
Amina Mollaysa, Ahmed Allam, Michael Krauthammer
Attention-based Multi-task Learning for Base Editor Outcome Prediction. CoRR (2023)
Amina Mollaysa, Ahmed Allam, Michael Krauthammer
Attention-based Multi-task Learning for Base Editor Outcome Prediction. CoRR (2023)
Manuel Schürch, Xiang Li, Ahmed Allam, Giulia Rathmes, Amina Mollaysa, Claudia Cavelti-Weder, Michael Krauthammer
Generating Personalized Insulin Treatments Strategies with Deep Conditional Generative Time Series Models. CoRR (2023)
Sanghwan Kim, Farhad Nooralahzadeh, Morteza Rohanian, Koji Fujimoto, Mizuho Nishio, Ryo Sakamoto, Fabio Rinaldi, Michael Krauthammer
Boosting Radiology Report Generation by Infusing Comparison Prior. CoRR (2023)
Aron N. Horvath, Matteo Berchier, Farhad Nooralahzadeh, Ahmed Allam, Michael Krauthammer
Exploratory Analysis of Federated Learning Methods with Differential Privacy on MIMIC-III. CoRR (2023)
Morteza Rohanian, Farhad Nooralahzadeh, Omid Rohanian, David A. Clifton, Michael Krauthammer
Disfluent Cues for Enhanced Speech Understanding in Large Language Models. EMNLP (Findings) (2023)
Sanghwan Kim, Farhad Nooralahzadeh, Morteza Rohanian, Koji Fujimoto, Mizuho Nishio, Ryo Sakamoto, Fabio Rinaldi, Michael Krauthammer
Boosting Radiology Report Generation by Infusing Comparison Prior. BioNLP@ACL (2023)
Amos Calamida, Farhad Nooralahzadeh, Morteza Rohanian, Koji Fujimoto, Mizuho Nishio, Michael Krauthammer
Radiology-Aware Model-Based Evaluation Metric for Report Generation. CoRR (2023)
Xiaochen Zheng, Xingyu Chen, Manuel Schürch, Amina Mollaysa, Ahmed Allam, Michael Krauthammer
SimTS: Rethinking Contrastive Representation Learning for Time Series Forecasting. CoRR (2023)
Kyriakos Schwarz, Alicia Pliego-Mendieta, Lara Planas-Paz, Chantal Pauli, Ahmed Allam, Michael Krauthammer
DDoS: A Graph Neural Network based Drug Synergy Prediction Algorithm. CoRR (2022)
Farhad Nooralahzadeh, Nicolas Perez Gonzalez, Thomas Frauenfelder, Koji Fujimoto, Michael Krauthammer
Progressive Transformer-Based Generation of Radiology Reports. EMNLP (Findings) (2021)
Farhad Nooralahzadeh, Nicolas Perez Gonzalez, Thomas Frauenfelder, Koji Fujimoto, Michael Krauthammer
Progressive Transformer-Based Generation of Radiology Reports. CoRR (2021)
Kyriakos Schwarz, Ahmed Allam, Nicolas Andres Perez Gonzalez, Michael Krauthammer
AttentionDDI: Siamese attention-based deep learning method for drug-drug interaction predictions. BMC Bioinform. 22 (1) (2021)
Michael H. Böhlen, Oksana Dolmatova, Michael Krauthammer, Alphonse Mariyagnanaseelan, Jonathan Stahl, Timo Surbeck
Iterations for Propensity Score Matching in MonetDB. ADBIS (2020)
Laura Kinkead, Ahmed Allam, Michael Krauthammer
AutoDiscern: rating the quality of online health information with hierarchical encoder attention-based neural networks. BMC Medical Informatics Decis. Mak. 20 (1) (2020)
Kyriakos Schwarz, Ahmed Allam, Nicolas Andres Perez Gonzalez, Michael Krauthammer
AttentionDDI: Siamese Attention-based Deep Learning method for drug-drug interaction predictions. CoRR (2020)
Ahmed Allam, Matthias Dittberner, Anna Sintsova, Dominique Brodbeck, Michael Krauthammer
Patient Similarity Analysis with Longitudinal Health Data. CoRR (2020)
Kevin Lopez, Samah J. Fodeh, Ahmed Allam, Cynthia Brandt, Michael Krauthammer
Reducing Annotation Burden Through Multimodal Learning. Frontiers Big Data 3 (2020)
Laura Kinkead, Ahmed Allam, Michael Krauthammer
AutoDiscern: Rating the Quality of Online Health Information with Hierarchical Encoder Attention-based Neural Networks. CoRR (2019)
Ahmed Allam, Mate Levente Nagy, George R. Thoma, Michael Krauthammer
Neural networks versus Logistic regression for 30 days all-cause readmission prediction. CoRR (2018)
Connor Sweetnam, Simone Mocellin, Michael Krauthammer, Nathaniel Knopf, Robert Baertsch, Jeff Shrager
Prototyping a precision oncology 3.0 rapid learning platform. BMC Bioinform. 19 (1) (2018)
Ahmed Allam, Michael Krauthammer
PySeqLab: an open source Python package for sequence labeling and segmentation. Bioinform. 33 (21) (2017)
Ahmed Allam, Peter Johannes Schulz, Michael Krauthammer
Toward automated assessment of health Web page quality using the DISCERN instrument. J. Am. Medical Informatics Assoc. 24 (3) (2017)
Roxanne Wadia, Mark A. Shifman, Forrest W. Levin, Luis N. Marenco, Cynthia Brandt, Kei-Hoi Cheung, Tamar H. Taddei, Michael Krauthammer
A Clinical Decision Support System for Monitoring Post-Colonoscopy Patient Follow-Up and Scheduling. CRI (2017)
Tobias Kuhn, Christine Chichester, Michael Krauthammer, Núria Queralt-Rosinach, Ruben Verborgh, George Giannakopoulos, Axel-Cyrille Ngonga Ngomo, Raffaele Viglianti, Michel Dumontier
Decentralized provenance-aware publishing with nanopublications. PeerJ Prepr. 4 (2016)
Xuefeng Wang, Mengjie Chen, Xiaoqing Yu, Natapol Pornputtapong, Hao Chen, Nancy R. Zhang, R. Scott Powers, Michael Krauthammer
Global copy number profiling of cancer genomes. Bioinform. 32 (6) (2016)
Tobias Kuhn, Christine Chichester, Michael Krauthammer, Núria Queralt-Rosinach, Ruben Verborgh, George Giannakopoulos, Axel-Cyrille Ngonga Ngomo, Raffaele Viglianti, Michel Dumontier
Decentralized provenance-aware publishing with nanopublications. PeerJ Comput. Sci. 2 (2016)
Mark V. Mai, Michael Krauthammer
Controlling testing volume for respiratory viruses using machine learning and text mining. AMIA (2016)
Matthew E. Holford, Michael Krauthammer
Mutadelic: mutation analysis using description logic inferencing capabilities. Bioinform. 31 (23) (2015)
Syed Ahmad Chan Bukhari, Mate Levente Nagy, Paolo Ciccarese, Michael Krauthammer, Christopher J. O. Baker
iCyrus: A Semantic Framework for Biomedical Image Discovery. SWAT4LS (2015)
Tobias Kuhn, Christine Chichester, Michael Krauthammer, Michel Dumontier
Publishing Without Publishers: A Decentralized Approach to Dissemination, Retrieval, and Archiving of Data. ISWC (1) (2015)
Ahmad C. Bukhari, Mate Levente Nagy, Michael Krauthammer, Paolo Ciccarese, Christopher J. O. Baker
BIM: an open ontology for the annotation of biomedical images. ICBO (2015)
Tobias Kuhn, Christine Chichester, Michel Dumontier, Michael Krauthammer
Publishing without Publishers: a Decentralized Approach to Dissemination, Retrieval, and Archiving of Data. CoRR (2014)
Tobias Kuhn, Mate Levente Nagy, Thaibinh Luong, Michael Krauthammer
Mining images in biomedical publications: Detection and analysis of gel diagrams. J. Biomed. Semant. 5 (2014)
Syed Ahmad Chan Bukhari, Michael Krauthammer, Christopher J. O. Baker
SEBI: An Architecture for Biomedical Image Discovery, Interoperability and Reusability Based on Semantic Enrichment. SWAT4LS (2014)
Tobias Kuhn, Mate Levente Nagy, Thaibinh Luong, Michael Krauthammer
Mining Images in Biomedical Publications: Detection and Analysis of Gel Diagrams. CoRR (2014)
Tobias Kuhn, Paolo Emilio Barbano, Mate Levente Nagy, Michael Krauthammer
Broadening the Scope of Nanopublications CoRR (2013)
Mark V. Mai, Tobias Kuhn, José Costa, Michael Krauthammer
Nanorecords: A Novel Approach to Communicating High-Level Medical Information. AMIA (2013)
Tobias Kuhn, Paolo Emilio Barbano, Mate Levente Nagy, Michael Krauthammer
Broadening the Scope of Nanopublications. ESWC (2013)
Samah Jamal Fodeh, Cynthia Brandt, Thaibinh Luong, Ali Haddad, Martin H. Schultz, Terrence Murphy, Michael Krauthammer
Complementary ensemble clustering of biomedical data. J. Biomed. Informatics 46 (3) (2013)
Jamie P. McCusker, Timothy Lebo, Michael Krauthammer, Deborah L. McGuinness
Next Generation Cancer Data Discovery, Access, and Integration Using Prizms and Nanopublications. DILS (2013)
Matthew Holford, Jamie P. McCusker, Kei-Hoi Cheung, Michael Krauthammer
A semantic web framework to integrate cancer omics data with biological knowledge. BMC Bioinform. 13 (S-1) (2012)
Tobias Kuhn, Thaibinh Luong, Michael Krauthammer
Finding and Accessing Diagrams in Biomedical Publications. AMIA (2012)
Samah Jamal Fodeh, Ali Haddad, Cynthia Brandt, Martin H. Schultz, Michael Krauthammer
Enhancing Clustering by Exploiting Complementary Data Modalities in the Medical Domain. AIAI (1) (2012)
Tobias Kuhn, Michael Krauthammer
Image Mining from Gel Diagrams in Biomedical Publications CoRR (2012)
Tobias Kuhn, Michael Krauthammer
Underspecified Scientific Claims in Nanopublications CoRR (2012)
Tobias Kuhn, Michael Krauthammer
Underspecified Scientific Claims in Nanopublications. WoLE@ISWC (2012)
Perry Evans, Michael Krauthammer
Estimating a gene's mutation burden by the number of observed synonymous base substitutions. BIBM (2012)
Vijay Garla, Yong Kong, Sebastian Szpakowski, Michael Krauthammer
MU2A - reconciling the genome and transcriptome to determine the effects of base substitutions. Bioinform. 27 (3) (2011)
Matthew Holford, Jamie P. McCusker, Kei-Hoi Cheung, Michael Krauthammer
Analysis Of Cancer Omics Data In A Semantic Web Framework CoRR (2010)
Songhua Xu, Michael Krauthammer
A new pivoting and iterative text detection algorithm for biomedical images. J. Biomed. Informatics 43 (6) (2010)
Matthew Holford, Jamie P. McCusker, Kei-Hoi Cheung, Michael Krauthammer
Analysis of Cancer Omics Data In A Semantic Web Framework. SWAT4LS (2010)
Richard N. Shiffman, George Michel, Michael Krauthammer, Norbert E. Fuchs, Kaarel Kaljurand, Tobias Kuhn
Writing Clinical Practice Guidelines in Controlled Natural Language. CNL (2009)
Jamie P. McCusker, Joshua A. Phillips, Alejandra N. González-Beltrán, Anthony Finkelstein, Michael Krauthammer
Semantic web data warehousing for caGrid. BMC Bioinform. 10 (S-10) (2009)
Richard N. Shiffman, George Michel, Michael Krauthammer, Norbert E. Fuchs, Kaarel Kaljurand, Tobias Kuhn
Controlled Natural Language for Clinical Practice Guidelines. CNL (Pre-Proceedings) (2009)
Pavithra Shivakumar, Michael Krauthammer
Structural similarity assessment for drug sensitivity prediction in cancer. BMC Bioinform. 10 (S-9) (2009)
Nam Tran, George Michel, Michael Krauthammer, Richard N. Shiffman
Embedding the Guideline Elements Model in Web Ontology Language. AMIA (2009)
Nam Tran, Pedro Alves, Shuangge Ma, Michael Krauthammer
Enriching PubMed Related Article Search with Sentence Level Co-citations. AMIA (2009)
Songhua Xu, Jamie P. McCusker, Michael Krauthammer
Yale Image Finder (YIF): a new search engine for retrieving biomedical images. Bioinform. 24 (17) (2008)
Michael Krauthammer, Thaibinh Luong
Term Mapping Using Matrix Operations. Ontologies and Text Mining for Life Sciences (2008)
Andrew K. Smith, Kei-Hoi Cheung, Michael Krauthammer, Martin H. Schultz, Mark Gerstein
Leveraging the structure of the Semantic Web to enhance information retrieval for proteomics. Bioinform. 23 (22) (2007)
Hyung M. Paek, Yacov Kogan, Prem Thomas, Seymour Codish, Michael Krauthammer
Shallow Semantic Parsing of Randomized Controlled Trial Reports. AMIA (2006)
Kei-Hoi Cheung, Peishen Qi, David Tuck, Michael Krauthammer
A semantic web approach to biological pathway data reasoning and integration. J. Web Semant. 4 (3) (2006)
Yacov Kogan, Nigel Collier, Serguei V. S. Pakhomov, Michael Krauthammer
Towards Semantic Role Labeling & IE in the Medical Literature. AMIA (2005)
Andrey Rzhetsky, Ivan Iossifov, Tomohiro Koike, Michael Krauthammer, Pauline Kra, Mitzi Morris, Hong Yu, Pablo Ariel Duboué, Wubin Weng, W. John Wilbur
GeneWays: a system for extracting, analyzing, visualizing, and integrating molecular pathway data. J. Biomed. Informatics 37 (1) (2004)
Ivan Iossifov, Michael Krauthammer, Carol Friedman, Vasileios Hatzivassiloglou, Joel S. Bader, Kevin P. White, Andrey Rzhetsky
Probabilistic inference of molecular networks from noisy data sources. Bioinform. 20 (8) (2004)
Michael Krauthammer, Goran Nenadic
Term identification in the biomedical literature. J. Biomed. Informatics 37 (6) (2004)
Stephen B. Johnson, David A. Campbell, Michael Krauthammer, P. Karina Tulipano, Eneida A. Mendonça, Carol Friedman, George Hripcsak
A Native XML Database Design for Clinical Document Research. AMIA (2003)
Michael Krauthammer, Pauline Kra, Ivan Iossifov, Shawn M. Gomez, George Hripcsak, Vasileios Hatzivassiloglou, Carol Friedman, Andrey Rzhetsky
Of truth and pathways: chasing bits of information through myriads of articles. ISMB (2002)
Michael Krauthammer, Stephen B. Johnson, George Hripcsak, David A. Campbell, Carol Friedman
Representing nested semantic information in a linear string of text using XML. AMIA (2002)
Carol Friedman, Pauline Kra, Hong Yu, Michael Krauthammer, Andrey Rzhetsky
GENIES: a natural-language processing system for the extraction of molecular pathways from journal articles. ISMB (Supplement of Bioinformatics) (2001)
Andrey Rzhetsky, Michael Krauthammer, Tomohiro Koike, Pauline Kra, Shawn M. Gomez, Hong Yu, Pablo Ariel Duboué, Wubin Weng, Stephen B. Johnson, Vasileios Hatzivassiloglou, Carol Friedman
GeneWays: A System for Mining Text and for Integrating Data on Molecular Pathways. German Conference on Bioinformatics (2001)
Michael Krauthammer, Pauline Kra, Carol Friedman
Linking Protein Interaction Data to the MESH Hierarchy. AMIA (2001)
Michael Krauthammer, George Hripcsak
A knowledge model for the interpretation and visualization of NLP-parsed discharged summaries. AMIA (2001)
Andrey Rzhetsky, Tomohiro Koike, Sergey Kalachikov, Shawn M. Gomez, Michael Krauthammer, Sabina H. Kaplan, Pauline Kra, James J. Russo, Carol Friedman
A knowledge model for analysis and simulation of regulatory networks. Bioinform. 16 (12) (2000)
Nina Wacholder, Judith M. Venuti, Michael Krauthammer, Pat Molholt
Designing a Navigational Ontology for Browsing and Accessing 3D Anatomical Images. AMIA (2000)
Michael Krauthammer, Nina Wacholder, Stephen B. Johnson, Gai Elhanan, Pat Molholt
Knowledge Sharing in the Construction of an Anatomical Navigational Ontology. AMIA (2000)
Michael Krauthammer, Andrey Rzhetsky, Pavel Morozov, Carol Friedman
Using BLAST, A DNA and Protein Sequence Comparison Tool, for Finding Gene and Protein Names in Journal Articles. AMIA (2000)