Jörg Hakenberg

36 papers A* 1B 1C 1Misc 4Journal 17Unranked 8

Year	Rank	Type	Title / Venue / Authors
2016	J	`jnl`	Comparative analyses of population-scale phenomic data in electronic medical records reveal race-specific disease networks. Bioinform. Benjamin S. Glicksberg, Li Li, Marcus A. Badgeley, Khader Shameer, Roman Kosoy, Noam D. Beckmann, Nam Pho, Jörg Hakenberg, Meng Ma, Kristin L. Ayers, Gabriel E. Hoffman, Shuyu Dan Li, Eric E. Schadt, Chirag J. Patel, Rong Chen, Joel T. Dudley
2016	J	`jnl`	DIVAS: a centralized genetic variant repository representing 150 000 individuals from multiple disease cohorts. Bioinform. Wei-Yi Cheng, Jörg Hakenberg, Shuyu Dan Li, Rong Chen
2016	J	`jnl`	Integrating 400 million variants from 80, 000 human samples with extensive annotations: towards a knowledge base to analyze disease cohorts. BMC Bioinform. Jörg Hakenberg, Wei-Yi Cheng, Philippe Thomas, Ying-Chih Wang, Andrew V. Uzilov, Rong Chen
2016	J	`jnl`	SETH detects and normalizes genetic variants in text. Bioinform. Philippe Thomas, Tim Rocktäschel, Jörg Hakenberg, Yvonne Lichtblau, Ulf Leser
2015	Misc	`conf`	An Integrative Pipeline for Multi-Modal Discovery of Disease Relationships. Pacific Symposium on Biocomputing Benjamin S. Glicksberg, Li Li, Wei-Yi Cheng, Khader Shameer, Jörg Hakenberg, Rafael Castellanos, Meng Ma, Lisong Shi, Hardik Shah, Joel T. Dudley, Rong Chen
2013	J	`jnl`	Literature Mining Solutions for Life Science Research. Adv. Bioinformatics Jörg Hakenberg, Goran Nenadic, Dietrich Rebholz-Schuhmann, Jin-Dong Kim
2012	J	`jnl`	A SNPshot of PubMed to associate genetic variants with drugs, diseases, and adverse reactions. J. Biomed. Informatics Jörg Hakenberg, Dmitry Voronov, Nguyen Ha Vo, Shanshan Liang, Saadat Anwar, Barry Lumpkin, Robert Leaman, Luis Tari, Chitta Baral
2012	—	`conf`	A high-throughput analysis pipeline for large next generation DNA sequencing studies. BIBM Zayed Albertyn, Jörg Hakenberg, Hongjin Bian, Huifeng Niu, James Cai
2012	J	`jnl`	Incremental Information Extraction Using Relational Databases. IEEE Trans. Knowl. Data Eng. Luis Tari, Phan Huy Tu, Jörg Hakenberg, Yi Chen, Tran Cao Son, Graciela Gonzalez, Chitta Baral
2011	J	`jnl`	Molecular Event Extraction from Link Grammar Parse Trees in the BioNLP'09 Shared Task. Comput. Intell. Jörg Hakenberg, Illés Solt, Domonkos Tikk, Nguyen Ha Vo, Luis Tari, Quang Long Nguyen, Chitta Baral, Ulf Leser
2011	J	`jnl`	The GNAT library for local and remote gene mention normalization. Bioinform. Jörg Hakenberg, Martin Gerner, Maximilian Haeussler, Illés Solt, Conrad Plake, Michael Schroeder, Graciela Gonzalez, Goran Nenadic, Casey M. Bergman
2010	J	`jnl`	A Comprehensive Benchmark of Kernel Methods to Extract Protein-Protein Interactions from Literature. PLoS Comput. Biol. Domonkos Tikk, Philippe Thomas, Peter Palaga, Jörg Hakenberg, Ulf Leser
2010	J	`jnl`	Efficient Extraction of Protein-Protein Interactions from Full-Text Articles. IEEE ACM Trans. Comput. Biol. Bioinform. Jörg Hakenberg, Robert Leaman, Nguyen Ha Vo, Siddhartha Jonnalagadda, Ryan Sullivan, Christopher Miller, Luis Tari, Chitta Baral, Graciela Gonzalez
2010	A*	`conf`	GenerIE: Information extraction using database queries. ICDE Luis Tari, Phan Huy Tu, Jörg Hakenberg, Yi Chen, Tran Cao Son, Graciela Gonzalez, Chitta Baral
2010	—	`conf`	Semantic classification and dependency parsing enabled automated bio-molecular event extraction from text. BCB Syed Toufeeq Ahmed, Radhika Nair, Chintan Patel, Sheela P. Kanwar, Jörg Hakenberg, Hasan Davulcu
2010	Misc	`conf`	Synthesis of Pharmacokinetic Pathways through Knowledge Acquisition and Automated Reasoning. Pacific Symposium on Biocomputing Luis Tari, Saadat Anwar, Shanshan Liang, Jörg Hakenberg, Chitta Baral
2010	J	`jnl`	Towards Effective Sentence Simplification for Automatic Processing of Biomedical Text CoRR Siddhartha Jonnalagadda, Luis Tari, Jörg Hakenberg, Chitta Baral, Graciela Gonzalez
2009	J	`jnl`	Biomedical word sense disambiguation with ontologies and metadata: automation meets accuracy. BMC Bioinform. Dimitra Alexopoulou, Bill Andreopoulos, Heiko Dietze, Andreas Doms, Fabien Gandon, Jörg Hakenberg, Khaled Khelif, Michael Schroeder, Thomas Wächter
2009	J	`jnl`	GoGene: gene annotation in the fast lane. Nucleic Acids Res. Conrad Plake, Loïc Royer, Rainer Winnenburg, Jörg Hakenberg, Michael Schroeder
2009	B	`conf`	High-performance information extraction with AliBaba. EDBT Peter Palaga, Long Nguyen, Ulf Leser, Jörg Hakenberg
2009	—	`—`	Mining relations from the biomedical literature. Jörg Hakenberg
2009	—	`conf`	Molecular event extraction from Link Grammar parse trees. BioNLP@HLT-NAACL (Shared Task) Jörg Hakenberg, Illés Solt, Domonkos Tikk, Luis Tari, Astrid Rheinländer, Quang Long Nguyen, Graciela Gonzalez, Ulf Leser
2009	Misc	`conf`	Querying Parse Tree Database of Medline Text to Synthesize User-Specific Biomolecular Networks. Pacific Symposium on Biocomputing Luis Tari, Jörg Hakenberg, Graciela Gonzalez, Chitta Baral
2009	—	`conf`	Towards Effective Sentence Simplification for Automatic Processing of Biomedical Text. HLT-NAACL (Short Papers) Siddhartha Jonnalagadda, Luis Tari, Jörg Hakenberg, Chitta Baral, Graciela Gonzalez
2009	—	`ch.`	Word Sense Disambiguation in Biomedical Applications. Information Retrieval in Biomedicine Torsten Schiemann, Ulf Leser, Jörg Hakenberg
2008	—	`conf`	GoPubMed: Exploring Pubmed with Ontological Background Knowledge. Ontologies and Text Mining for Life Sciences Heiko Dietze, Dimitra Alexopoulou, Michael R. Alvers, Bill Barrio-Alvers, Andreas Doms, Jörg Hakenberg, Jan Mönnich, Conrad Plake, Andreas Reischuck, Loïc Royer, Thomas Wächter, Matthias Zschunke, Michael Schroeder
2008	C	`conf`	Inter-species normalization of gene mentions with GNAT. ECCB Jörg Hakenberg, Conrad Plake, Robert Leaman, Michael Schroeder, Graciela Gonzalez
2008	—	`ch.`	Searching Biomedical Literature with Anatomy Ontologies. Anatomy Ontologies for Bioinformatics Thomas Wächter, Dimitra Alexopoulou, Heiko Dietze, Jörg Hakenberg, Michael Schroeder
2008	—	`conf`	Services for annotation of biomedical text. Ontologies and Text Mining for Life Sciences Jörg Hakenberg
2007	—	`conf`	What's in a gene name? Automated refinement of gene name dictionaries. BioNLP@ACL Jörg Hakenberg
2006	J	`jnl`	ALIBABA: PubMed as a graph. Bioinform. Conrad Plake, Torsten Schiemann, Marcus Pankalla, Jörg Hakenberg, Ulf Leser
2006	—	`conf`	Collecting a Large Corpus from all of Medline. SMBM Jörg Hakenberg, Ulf Leser, Harald Kirsch, Dietrich Rebholz-Schuhmann
2006	—	`ed.`	Knowledge Discovery in Life Science Literature, PAKDD 2006 International Workshop, KDLL 2006, Singapore, April 9, 2006, Proceedings KDLL Eric G. Bremer, Jörg Hakenberg, Eui-Hong Han, Daniel P. Berrar, Werner Dubitzky
2005	Misc	`conf`	Optimizing syntax patterns for discovering protein-protein interactions. SAC Conrad Plake, Jörg Hakenberg, Ulf Leser
2005	J	`jnl`	Systematic feature evaluation for gene name recognition. BMC Bioinform. Jörg Hakenberg, Steffen Bickel, Conrad Plake, Ulf Brefeld, Hagen Zahn, Lukas Faulstich, Ulf Leser, Tobias Scheffer
2005	J	`jnl`	What makes a gene name? Named entity recognition in the biomedical literature. Briefings Bioinform. Ulf Leser, Jörg Hakenberg