BioMed Research International

Text Mining for Translational Bioinformatics


Publishing date
15 May 2015
Status
Published
Submission deadline
26 Dec 2014

1Taipei Medical University, Taipei, Taiwan

2National Cheng Kung University, Tainan, Taiwan

3Tzu Chi University, Hualien City, Taiwan

4National Institutes of Health, Bethesda, USA

5National Central University, Jhongli City, Taiwan


Text Mining for Translational Bioinformatics

Description

Translational Bioinformatics aims to develop novel computational techniques to facilitate traditional translational research through the convergence of molecular bioinformatics, biostatistics, statistical genetics, and clinical informatics. The computational techniques work by integrating multidimensional data consisting of medications, diseases, and genomes with clinical and pathological features. They are applied in various aspects with the hope of uncovering therapeutic targets and biomarkers of patient response. The accumulation of rich data from past studies, advancement of new experimental techniques, and ease of access to publications nowadays result in enormous repositories of scientific literature and biomedical data. In light of the emerging big data, this Text Mining for Translational Bioinformatics special issue will emphasize the application of text mining on biomedical/clinical publications and knowledge bases to facilitate the discovery and management of knowledge. For example, text mining techniques can be employed to explore knowledge about genotypic associations and provide genomic literature evidences to support the phenotype associations. Through this special issue, we hope to propel translational research in a less time- and effort- consuming manner by reducing the cost of manpower and experimental materials, thus benefiting translation-oriented studies and improving the life quality of mankind.

Potential topics include, but are not limited to:

  • Ontologies for translational bioinformatics
  • Natural language processing approaches on medical/healthcare text
  • Named-entity recognition, normalization, and coreference resolution for biomedical concepts
  • Text-based approach to automated protein function prediction and relation extraction
  • Text mining approaches that use translational genomics, epigenomics, and transcriptomics data
  • Novel visualization of biocuration assistance in biomedical literature
  • Reviews of existing text mining techniques/applications in translational bioinformatics
  • Applications of high performance computing or MapReduce-based natural language processing for translational bioinformatics
  • Big data analytics on biomedical text for translational bioinformatics
  • Text mining and understanding of cancer signaling pathways

Articles

  • Special Issue
  • - Volume 2015
  • - Article ID 873012
  • - Research Article

Recognition and Evaluation of Clinical Section Headings in Clinical Documents Using Token-Based Formulation with Conditional Random Fields

Hong-Jie Dai | Shabbir Syed-Abdul | ... | Chieh-Chen Wu
  • Special Issue
  • - Volume 2015
  • - Article ID 368264
  • - Editorial

Text Mining for Translational Bioinformatics

Hong-Jie Dai | Chih-Hsuan Wei | ... | Zhiyong Lu
  • Special Issue
  • - Volume 2015
  • - Article ID 428195
  • - Research Article

Disease Related Knowledge Summarization Based on Deep Graph Search

Xiaofang Wu | Zhihao Yang | ... | Jian Wang
  • Special Issue
  • - Volume 2015
  • - Article ID 636371
  • - Research Article

Identification and Progression of Heart Disease Risk Factors in Diabetic Patients from Longitudinal Electronic Health Records

Jitendra Jonnagaddala | Siaw-Teng Liaw | ... | Chien-Yeh Hsu
  • Special Issue
  • - Volume 2015
  • - Article ID 318064
  • - Research Article

MetaRNA-Seq: An Interactive Tool to Browse and Annotate Metadata from RNA-Seq Studies

Pankaj Kumar | Anna Halama | ... | Karsten Suhre
  • Special Issue
  • - Volume 2015
  • - Article ID 698527
  • - Research Article

Supervised Learning Based Hypothesis Generation from Biomedical Literature

Shengtian Sang | Zhihao Yang | ... | Hongfei Lin
  • Special Issue
  • - Volume 2015
  • - Article ID 918710
  • - Research Article

GNormPlus: An Integrative Approach for Tagging Genes, Gene Families, and Protein Domains

Chih-Hsuan Wei | Hung-Yu Kao | Zhiyong Lu
BioMed Research International
 Journal metrics
Acceptance rate31%
Submission to final decision67 days
Acceptance to publication30 days
CiteScore3.600
Impact Factor2.276
 Submit