Academic Articles & Research Papers

On the correspondence between the transcriptomic response of a compound and its effects on its targets

Abstract Better understanding the transcriptomic response produced by a compound perturbing its targets can shed light on the underlying biological processes regulated by the compound. However, establishing the relationship between the indu...

American Medical Informatics Association (AMIA)

The American Medical Informatics Association (AMIA) incorporated 20 years ago through the merger of three existing informatics groups: the Symposium on Computer Applications in Medical Care (SCAMC), the American Association for Medical Syst...

Correction: Five-year dementia prediction and decision support system based on real-world data

Corrigendum: Berberine and Oligomeric Proanthocyanidins Exhibit Synergistic Efficacy Through Regulation of PI3K-Akt Signaling Pathway in Colorectal Cancer

Medical Informatics and Bioinformatics

In the last 50 years, computational applications have been developed to aid clinicians and researchers alike in the broad field of Biomedicine. Adopted early in the evolution of the field, the term medical informatics has been applied to th...

Medical informatics in context

Abstract Medical informatics may be defined as “the application of information science and information technology to the theoretical and practical problems of biomedical research, clinical practice, and medical education.” As such, it has b...

Bioinformatics and Medical Informatics: Collaborations on the Road to Genomic Medicine?

In this report, the authors compare and contrast medical informatics (MI) and bioinformatics (BI) and provide a viewpoint on their complementarities and potential for collaboration in various subfields. The authors compare MI and BI along s...

Development and production of an oligonucleotide MuscleChip: use for validation of ambiguous ESTs

Abstract Background We describe the development, validation, and use of a highly redundant 120,000 oligonucleotide microarray (MuscleChip) containing 4,601 probe sets representing 1,150 known genes expressed in muscle and 2,075 EST clusters...

Medical Informatics

Information technology has been revolutionizing the everyday life of the common man, while medical science has been making rapid strides in understanding disease mechanisms, developing diagnostic techniques and effecting successful treatmen...

Non-parametric synergy modeling of chemical compounds with Gaussian processes

Abstract Background Understanding the synergetic and antagonistic effects of combinations of drugs and toxins is vital for many applications, including treatment of multifactorial diseases and ecotoxicological monitoring. Synergy is usually...

Growing functional modules from a seed protein via integration of protein interaction and gene expression data

Abstract Background Nowadays modern biology aims at unravelling the strands of complex biological structures such as the protein-protein interaction (PPI) networks. A key concept in the organization of PPI networks is the existence of dense...

From BIG Data Center to China National Center for Bioinformation

LocateP: Genome-scale subcellular-location predictor for bacterial proteins

Abstract Background In the past decades, various protein subcellular-location (SCL) predictors have been developed. Most of these predictors, like TMHMM 2.0, SignalP 3.0, PrediSi and Phobius, aim at the identification of one or a few SCLs, ...

Medical Informatics and Bioinformatics: A Bibliometric Study

This paper reports on an analysis of the bioinformatics and medical informatics literature with the objective to identify upcoming trends that are shared among both research fields to derive benefits from potential collaborative initiatives...

Identifying elemental genomic track types and representing them uniformly

Abstract Background With the recent advances and availability of various high-throughput sequencing technologies, data on many molecular aspects, such as gene regulation, chromatin dynamics, and the three-dimensional organization of DNA, ar...

Metagenomic data of free cyanide and thiocyanate degrading bacterial communities

The data presented in this article contains the bacterial community structure of the free cyanide (CN-) and thiocyanate (SCN-) degrading organisms that were isolated from electroplating wastewater and synthetic SCN- containing wastewater. P...

Medical Imaging Informatics and Medical Informatics: Opportunities and Constraints

OBJECTIVES: The Yearbook of Medical Informatics is published annually by the International Medical Informatics Association (IMIA) and contains a selection of recent excellent papers on medical informatics research (http://www.yearbook.uni-h...

Ggtree: A serialized data object for visualization of a phylogenetic tree and annotation data

Abstract While phylogenetic trees and associated data have been getting easier to generate, it has been difficult to reuse, combine, and synthesize the information they provided, because published trees are often only available as image fil...

ANAT 2.0: reconstructing functional protein subnetworks

Abstract Background ANAT is a graphical, Cytoscape-based tool for the inference of protein networks that underlie a process of interest. The ANAT tool allows the user to perform network reconstruction under several scenarios in a number of ...

Probabilistic Modeling in Bioinformatics and Medical Informatics