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List of works by Dietrich Rebholz-Schuhmann

A case study: semantic integration of gene-disease associations for type 2 diabetes mellitus from literature and biomedical data resources

scientific article

A common layer of interoperability for biomedical ontologies based on OWL EL.

scientific article

A multilingual gold-standard corpus for biomedical concept recognition: the Mantra GSC.

scientific article published on 06 May 2015

Annotation of protein residues based on a literature analysis: cross-validation against UniProtKb

scientific article

Assessment of NER solutions against the first and second CALBC Silver Standard Corpus

scientific article published on 6 October 2011

Assessment of disease named entity recognition on a corpus of annotated sentences

scientific article

Automatic extraction of mutations from Medline and cross-validation with OMIM.

scientific article published on 2 January 2004

Automatic recognition of conceptualization zones in scientific articles and two life science applications

scientific article published on 8 February 2012

Automatically transforming pre- to post-composed phenotypes: EQ-lising HPO and MP.

scientific article published on 16 October 2013

Between proteins and phenotypes: annotation and interpretation of mutations

scientific article

BioFed: federated query processing over life sciences linked open data

scientific article

Biological network extraction from scientific literature: state of the art and challenges

scientific article published on 22 February 2013

Biomedical semantics: the hub for biomedical research 2.0.

scientific article

Biotea-2-Bioschemas, facilitating structured markup for semantically annotated scholarly publications

scientific article published on 19 June 2019

Brain: biomedical knowledge manipulation

scientific article

CALBC silver standard corpus

scientific article published on February 2010

Categorization of services for seeking information in biomedical literature: a typology for improvement of practice

scientific article

Combining evidence, specificity, and proximity towards the normalization of Gene Ontology terms in text

scientific article published on January 2008

Computer-Assisted Generation of a Protein-Interaction Database for Nuclear Receptors ⬇️

scientific article published on May 8, 2003

Convolutional Embedded Networks for Population Scale Clustering and Bio-ancestry Inferencing

scientific article published on 18 May 2020

Dealing with repetitions in sequencing by hybridization

scientific article published on 30 August 2006

Deep learning-based clustering approaches for bioinformatics

scientific article published on 02 February 2020

DeepKneeExplainer: Explainable Knee Osteoarthritis Diagnosis From Radiographs and Magnetic Resonance Imaging

scientific article published in 2021

Disease mentions in airport and hospital geolocations expose dominance of news events for disease concerns.

scientific article published on 12 June 2018

Distributed modules for text annotation and IE applied to the biomedical domain

scientific article published on 08 August 2005

EBIMed--text crunching to gather facts for proteins from Medline

scientific article

Enriching a biomedical event corpus with meta-knowledge annotation

scientific article

Entity Recognition in Parallel Multi-lingual Biomedical Corpora: The CLEF-ER Laboratory Overview

Evaluating gold standard corpora against gene/protein tagging solutions and lexical resources

scientific article

Evaluation and cross-comparison of lexical entities of biological interest (LexEBI)

scientific article (publication date: 2013)

Exploitation of Cross-References between Terminological Resources within the CALBC Context

Exploitation of ontological resources for scientific literature analysis: searching genes and related diseases

scientific article published on January 2009

Extending the evaluation of Genia Event task toward knowledge base construction and comparison to Gene Regulation Ontology task

scientific article published on 13 July 2015

Extracting key sentences with latent argumentative structuring.

scientific article published in January 2005

Facilitating the development of controlled vocabularies for metabolomics technologies with text mining

scientific article

Facts from text--is text mining ready to deliver?

scientific article

Functional variation of alternative splice forms in their protein interaction networks: a literature mining approach.

scientific article published on 6 October 2010

GOAnnotator: linking protein GO annotations to evidence text

scientific article published on 20 December 2006

Gene Regulation Ontology (GRO): design principles and use cases

scientific article

GenomicsKG: A Knowledge Graph to Visualize Poly-Omics Data

scientific article published on 18 October 2019

Harmonization of gene/protein annotations: towards a gold standard MEDLINE.

scientific article published on 13 March 2012

Identification of Chemical Entities in Patent Documents

article by Tiago Grego et al published 2009 in Lecture Notes in Computer Science

Improving data workflow systems with cloud services and use of open data for bioinformatics research.

scientific article

Improving disease gene prioritization by comparing the semantic similarity of phenotypes in mice with those of human diseases

scientific article

Improving the extraction of complex regulatory events from scientific text by using ontology-based inference ⬇️

scientific article published on 06 October 2011

Integrating protein-protein interactions and text mining for protein function prediction

scientific article

Interoperability between biomedical ontologies through relation expansion, upper-level ontologies and automatic reasoning

scientific article

Interoperability between phenotype and anatomy ontologies

scientific article

Learning to recognize phenotype candidates in the auto-immune literature using SVM re-ranking

scientific article (publication date: 2013)

Linked Functional Annotation For Differentially Expressed Gene (DEG) Demonstrated using Illumina Body Map 2.0 ⬇️

article

Linking PharmGKB to phenotype studies and animal models of disease for drug repurposing.

scientific article published in January 2012

Literature mining solutions for life science research

scientific article published on 8 January 2013

MeSH Up: effective MeSH text classification for improved document retrieval

scientific article published on 17 April 2009

Measuring outcomes and impact from the BioHackathon Europe

Measuring prediction capacity of individual verbs for the identification of protein interactions

scientific article published on 8 October 2009

MedEvi: retrieving textual evidence of relations between biomedical concepts from Medline

scientific article

Medical informatics and bioinformatics: a bibliometric study.

scientific article

Monitoring named entity recognition: the League Table

scientific article

NFDI4Microbiota – national research data infrastructure for microbiota research

Ontology design patterns to disambiguate relations between genes and gene products in GENIA

scientific article published on 6 October 2011

Ontology-based identification and prioritization of candidate drugs for epilepsy from literature

scientific article published on 24 January 2022

PCorral--interactive mining of protein interactions from MEDLINE

scientific article published on 2 May 2013

PaperMaker: validation of biomedical scientific publications

scientific article (publication date: April 2010)

Pathway enrichment based on text mining and its validation on carotenoid and vitamin A metabolism

scientific article

PhenoMiner: from text to a database of phenotypes associated with OMIM diseases

scientific article

Poseidon: An information retrieval and extraction system for metagenomic marine science

scientific article published in 2012

Predicting knee osteoarthritis severity: comparative modeling based on patient’s data and plain X-ray images

scientific article published on 08 April 2019

Predicting links between tumor samples and genes using 2-Layered graph based diffusion approach

scientific article published on 09 September 2019

Protein annotation by EBIMed

scientific article published in August 2006

Quantitative comparison of mapping methods between Human and Mammalian Phenotype Ontology

scientific article published on 21 September 2012

Relations as patterns: bridging the gap between OBO and OWL

scientific article

Resolving abbreviations to their senses in Medline

scientific article published on 21 July 2005

Reuse of terminological resources for efficient ontological engineering in Life Sciences

scientific article (publication date: October 2009)

SAFE: SPARQL Federation over RDF Data Cubes with Access Control

scientific article

Systems Biology and Bioinformatics in Aging Research: A Workshop Report

Text mining for biology - the way forward: opinions from leading scientists

scientific article (publication date: 2008)

Text processing through Web services: calling Whatizit

scientific article

Text-mining solutions for biomedical research: enabling integrative biology

scientific article

The Application of Internet-Based Sources for Public Health Surveillance (Infoveillance): Systematic Review

scientific article published on 13 March 2020

The BioLexicon: a large-scale terminological resource for biomedical text mining

article published in 2011

The Validity of Google Trends Search Volumes for Behavioral Forecasting of National Suicide Rates in Ireland

scientific article published on 02 September 2019

The digital revolution in phenotyping

scientific article published on 29 September 2015

The functional therapeutic chemical classification system

scientific article (publication date: 15 March 2014)

The semantic web in translational medicine: current applications and future directions

scientific article

Thematic series on biomedical ontologies in JBMS: challenges and new directions

scientific article

Three hybrid classifiers for the detection of emotions in suicide notes

scientific article published on 30 January 2012

Towards mature use of semantic resources for biomedical analyses

scientific article published on 6 October 2011

Towards precision medicine: discovering novel gynecological cancer biomarkers and pathways using linked data

scientific article published on 19 September 2017

Towards virtual knowledge broker services for semantic integration of life science literature and data sources

scientific article

UKPMC: a full text article resource for the life sciences

scientific article

Use of Shared Lexical Resources for Efficient Ontological Engineering ⬇️

Use of multiple ontologies to characterize the bioactivity of small molecules ⬇️

scholarly article

Using argumentation to extract key sentences from biomedical abstracts

scientific article published on 11 July 2006

Where to search top-K biomedical ontologies?

scientific article published on 01 July 2019

Wrestling with biomedical research results: language resources and literature analysis. Introduction

scientific article published in February 2010

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