BioData Mining – Page 2 – Recent Articles

Reference-free phylogeny from sequencing data

March 27, 2023March 27, 2023 Petr Ryšavý and Filip Železný Edit

Clustering of genetic sequences is one of the key parts of bioinformatics analyses. Resulting phylogenetic trees are beneficial for solving many research questions, including tracing the history of species, st...

Unsupervised encoding selection through ensemble pruning for biomedical classification

March 16, 2023March 16, 2023 Sebastian Spänig, Alexander Michel and Dominik Heider Edit

Owing to the rising levels of multi-resistant pathogens, antimicrobial peptides, an alternative strategy to classic antibiotics, got more attention. A crucial part is thereby the costly identification and vali...

Genetics and precision health: the ecological fallacy and artificial intelligence solutions

March 13, 2023March 13, 2023 Scott M. Williams and Jason H. Moore Edit

Signature literature review reveals AHCY, DPYSL3, and NME1 as the most recurrent prognostic genes for neuroblastoma

March 4, 2023March 4, 2023 Davide Chicco, Tiziana Sanavia and Giuseppe Jurman Edit

Neuroblastoma is a childhood neurological tumor which affects hundreds of thousands of children worldwide, and information about its prognosis can be pivotal for patients, their families, and clinicians. One o...

Ten simple rules for providing bioinformatics support within a hospital

February 23, 2023February 23, 2023 Davide Chicco and Giuseppe Jurman Edit

Bioinformatics has become a key aspect of the biomedical research programmes of many hospitals’ scientific centres, and the establishment of bioinformatics facilities within hospitals has become a common pract...

The Matthews correlation coefficient (MCC) should replace the ROC AUC as the standard metric for assessing binary classification

February 17, 2023February 17, 2023 Davide Chicco and Giuseppe Jurman Edit

Binary classification is a common task for which machine learning and computational statistics are used, and the area under the receiver operating characteristic curve (ROC AUC) has become the common standard ...

Robust and rigorous identification of tissue-specific genes by statistically extending tau score

December 9, 2022December 9, 2022 Hatice Büşra Lüleci and Alper Yılmaz Edit

In this study, we aimed to identify tissue-specific genes for various human tissues/organs more robustly and rigorously by extending the tau score algorithm.

Classification of breast cancer recurrence based on imputed data: a simulation study

December 7, 2022December 7, 2022 Rahibu A. Abassi and Amina S. Msengwa Edit

Several studies have been conducted to classify various real life events but few are in medical fields; particularly about breast recurrence under statistical techniques. To our knowledge, there is no reported...

Detecting diseases in medical prescriptions using data mining methods

November 24, 2022November 24, 2022 Sana Nazari Nezhad, Mohammad H. Zahedi and Elham Farahani Edit

Every year, the health of millions of people around the world is compromised by misdiagnosis, which sometimes could even lead to death. In addition, it entails huge financial costs for patients, insurance comp...

Towards a potential pan-cancer prognostic signature for gene expression based on probesets and ensemble machine learning

November 3, 2022November 3, 2022 Davide Chicco, Abbas Alameer, Sara Rahmati and Giuseppe Jurman Edit

Cancer is one of the leading causes of death worldwide and can be caused by environmental aspects (for example, exposure to asbestos), by human behavior (such as smoking), or by genetic factors. To understand ...