Academic Articles & Research Papers

A Few Words about Medical Informatics

Medical informatics is a scientific discipline that deals with the theory and practice of information processes in medical work, where information processes mean the coverage, transmission, storage and conversion of data. In other words, me...

Section IV: Medical Informatics

This new 4th edition of the Medical Informatics section will offer an expanded view of the topic. In addition to the traditional subject matters covered, which have been in several cases updated, new application areas have emerged both at t...

Bioinformatics, Medical Informatics and the Law

Bioinformatics, Medical Informatics and the Law. Jorge L. Contreras, A. J. Cuticchia, and Gregory J. Kirsch eds., Cheltenham, UK; Northampton, MA, Edward Elgar Publishing, 2022. ISBN 978-1-8390-594-4. US$230.00. - Volume 50 Issue 3...

Synergy between medical informatics and bioinformatics: facilitating genomic medicine for future health care

DeltaProt: a software toolbox for comparative genomics

Abstract Background Statistical bioinformatics is the study of biological data sets obtained by new micro-technologies by means of proper statistical methods. For a better understanding of environmental adaptations of proteins, orthologous ...

A pairwise residue contact area-based mean force potential for discrimination of native protein structure

Abstract Background Considering energy function to detect a correct protein fold from incorrect ones is very important for protein structure prediction and protein folding. Knowledge-based mean force potentials are certainly the most popula...

SequelTools: a suite of tools for working with PacBio Sequel raw sequence data

Abstract Background PacBio sequencing is an incredibly valuable third-generation DNA sequencing method due to very long read lengths, ability to detect methylated bases, and its real-time sequencing methodology. Yet, hitherto no tool was av...

EPEPT: A web service for enhanced P-value estimation in permutation tests

Abstract Background In computational biology, permutation tests have become a widely used tool to assess the statistical significance of an event under investigation. However, the common way of computing the P-value, which expresses the sta...

G-Aligner: a graph-based feature alignment method for untargeted LC–MS-based metabolomics

Abstract Background Liquid chromatography–mass spectrometry is widely used in untargeted metabolomics for composition profiling. In multi-run analysis scenarios, features of each run are aligned into consensus features by feature alignment ...

Medical Informatics and Bioinformatics: European Efforts to Facilitate Synergy

Modelling the effect of subcellular mutations on the migration of cells in the colorectal crypt

Abstract Background Many cancers arise from mutations in cells within epithelial tissues. Mutations manifesting at the subcellular level influence the structure and function of the tissue resulting in cancer. Previous work has proposed how ...

A method for automatically extracting infectious disease-related primers and probes from the literature

Abstract Background Primer and probe sequences are the main components of nucleic acid-based detection systems. Biologists use primers and probes for different tasks, some related to the diagnosis and prescription of infectious diseases. Th...

The deep learning applications in IoT-based bio- and medical informatics: a systematic literature review

Abstract Nowadays, machine learning (ML) has attained a high level of achievement in many contexts. Considering the significance of ML in medical and bioinformatics owing to its accuracy, many investigators discussed multiple solutions for ...

Accelerated maximum likelihood parameter estimation for stochastic biochemical systems

Abstract Background A prerequisite for the mechanistic simulation of a biochemical system is detailed knowledge of its kinetic parameters. Despite recent experimental advances, the estimation of unknown parameter values from observed data i...

BirdsEyeView (BEV): graphical overviews of experimental data

Abstract Background Analyzing global experimental data can be tedious and time-consuming. Thus, helping biologists see results as quickly and easily as possible can facilitate biological research, and is the purpose of the software we descr...

[Medical informatics--today and tomorrow].

The status of medical informatics, a comparatively new biomedical discipline beginning to develop in the second half of the 20th century, is described at the transition into the 21st century. The appearance of new information and communicat...

A novel and accelerated method for integrated alignment and variant calling from short and long reads

BackgroundIntegrating short- and long-read sequencing technologies has become a promising approach for achieving accurate and comprehensive genomic analysis. Although short-read sequencing (Illumina, etc.) offers high base accuracy and cost...

Structural relationships within medical informatics

Medical informatics is the application of information science and information technology to the theoretical and practical problems of biomedical research, clinical practice, and medical education. Although it is broadly interdisciplinary, i...

plsMD: a plasmid reconstruction tool from short-read assemblies

Abstract Background While whole genome sequencing has become a cornerstone of antimicrobial resistance surveillance, the reconstruction of plasmid sequences from short-read data remains a challenge due to repetitive sequences and assembly f...

Fixed-parameter tractable sampling for RNA design with multiple target structures

Abstract Background The design of multi-stable RNA molecules has important applications in biology, medicine, and biotechnology. Synthetic design approaches profit strongly from effective in-silico methods, which substantially reduce the ne...