iSuc-ChiDT: a computational method for identifying succinylation sites using statistical difference table encoding and the chi-square decision table classifier
Lysine succinylation is a type of protein post-translational modification which is widely involved in cell differentiation, cell metabolism and other important physiological activities. To study the molecular ... (Source: BioData Mining)
Source: BioData Mining - February 10, 2022 Category: Bioinformatics Authors: Ying Zeng, Yuan Chen and Zheming Yuan Tags: Research Source Type: research
Polymorphisms in the mTOR-PI3K-Akt pathway, energy balance-related exposures and colorectal cancer risk in the Netherlands Cohort Study
The mTOR-PI3K-Akt pathway influences cell metabolism and (malignant) cell growth. We generated sex-specific polygenic risk scores capturing natural variation in 7 out of 10 top-ranked genes in this pathway. We... (Source: BioData Mining)
Source: BioData Mining - January 10, 2022 Category: Bioinformatics Authors: Colinda C.J.M. Simons, Leo J. Schouten, Roger W.L. Godschalk, Frederik-Jan van Schooten, Monika Stoll, Kristel Van Steen, Piet A. van den Brandt and Matty P. Weijenberg Tags: Research Source Type: research
Integrating pathway knowledge with deep neural networks to reduce the dimensionality in single-cell RNA-seq data
Single-cell RNA sequencing (scRNA-seq) data provide valuable insights into cellular heterogeneity which is significantly improving the current knowledge on biology and human disease. One of the main applicatio... (Source: BioData Mining)
Source: BioData Mining - January 3, 2022 Category: Bioinformatics Authors: Pelin Gundogdu, Carlos Loucera, Inmaculada Alamo-Alvarez, Joaquin Dopazo and Isabel Nepomuceno Tags: Methodology Source Type: research
Machine learning approaches for the genomic prediction of rheumatoid arthritis and systemic lupus erythematosus
This study ’s purpose was to construct mac... (Source: BioData Mining)
Source: BioData Mining - December 11, 2021 Category: Bioinformatics Authors: Chih-Wei Chung, Tzu-Hung Hsiao, Chih-Jen Huang, Yen-Ju Chen, Hsin-Hua Chen, Ching-Heng Lin, Seng-Cho Chou, Tzer-Shyong Chen, Yu-Fang Chung, Hwai-I Yang and Yi-Ming Chen Tags: Research Source Type: research
Identification of natural selection in genomic data with deep convolutional neural network
With the increase in the size of genomic datasets describing variability in populations, extracting relevant information becomes increasingly useful as well as complex. Recently, computational methodologies su... (Source: BioData Mining)
Source: BioData Mining - December 4, 2021 Category: Bioinformatics Authors: Arnaud Nguembang Fadja, Fabrizio Riguzzi, Giorgio Bertorelle and Emiliano Trucchi Tags: Research Source Type: research
LPI-EnEDT: an ensemble framework with extra tree and decision tree classifiers for imbalanced lncRNA-protein interaction data classification
Long noncoding RNAs (lncRNAs) have dense linkages with various biological processes. Identifying interacting lncRNA-protein pairs contributes to understand the functions and mechanisms of lncRNAs. Wet experime... (Source: BioData Mining)
Source: BioData Mining - December 3, 2021 Category: Bioinformatics Authors: Lihong Peng, Ruya Yuan, Ling Shen, Pengfei Gao and Liqian Zhou Tags: Research Source Type: research
Gaussian noise up-sampling is better suited than SMOTE and ADASYN for clinical decision making
Clinical data sets have very special properties and suffer from many caveats in machine learning. They typically show a high-class imbalance, have a small number of samples and a large number of parameters, an... (Source: BioData Mining)
Source: BioData Mining - November 29, 2021 Category: Bioinformatics Authors: Jacqueline Beinecke and Dominik Heider Tags: Short report Source Type: research
Development of glaucoma predictive model and risk factors assessment based on supervised models
To develop and to propose a machine learning model for predicting glaucoma and identifying its risk factors. (Source: BioData Mining)
Source: BioData Mining - November 24, 2021 Category: Bioinformatics Authors: Mahyar Sharifi, Toktam Khatibi, Mohammad Hassan Emamian, Somayeh Sadat, Hassan Hashemi and Akbar Fotouhi Tags: Research Source Type: research
Correction to: iGlioSub: an integrative transcriptomic and epigenomic classifier for glioblastoma molecular subtypes
(Source: BioData Mining)
Source: BioData Mining - November 17, 2021 Category: Bioinformatics Authors: Miquel Ensenyat-Mendez, Sandra Íñiguez-Muñoz, Borja Sesé and Diego M. Marzese Tags: Correction Source Type: research
Prediction of synergistic drug combinations using PCA-initialized deep learning
Cancer is one of the main causes of death worldwide. Combination drug therapy has been a mainstay of cancer treatment for decades and has been shown to reduce host toxicity and prevent the development of acqui... (Source: BioData Mining)
Source: BioData Mining - October 20, 2021 Category: Bioinformatics Authors: Jun Ma and Alison Motsinger-Reif Tags: Research Source Type: research
Humans and machines in biomedical knowledge curation: hypertrophic cardiomyopathy molecular mechanisms ’ representation
Biomedical knowledge is dispersed in scientific literature and is growing constantly. Curation is the extraction of knowledge from unstructured data into a computable form and could be done manually or automat... (Source: BioData Mining)
Source: BioData Mining - October 2, 2021 Category: Bioinformatics Authors: Mila Glava ški and Lazar Velicki Tags: Research Source Type: research
Evaluation of different approaches for missing data imputation on features associated to genomic data
Missing data is a common issue in different fields, such as electronics, image processing, medical records and genomics. They can limit or even bias the posterior analysis. The data collection process can lead... (Source: BioData Mining)
Source: BioData Mining - September 3, 2021 Category: Bioinformatics Authors: Ben Omega Petrazzini, Hugo Naya, Fernando Lopez-Bello, Gustavo Vazquez and Luc ía Spangenberg Tags: Research Source Type: research
Taxonomy-based data representation for data mining: an example of the magnitude of risk associated with H. pylori infection
The amount of available and potentially significant data describing study subjects is ever growing with the introduction and integration of different registries and data banks. The single specific attribute of... (Source: BioData Mining)
Source: BioData Mining - August 28, 2021 Category: Bioinformatics Authors: Inese Polaka, Danute Razuka-Ebela, Jin Young Park and Marcis Leja Tags: Research Source Type: research
iGlioSub: an integrative transcriptomic and epigenomic classifier for glioblastoma molecular subtypes
Glioblastoma (GBM) is the most aggressive and prevalent primary brain tumor, with a median survival of 15 months. Advancements in multi-omics profiling combined with computational algorithms have unraveled the... (Source: BioData Mining)
Source: BioData Mining - August 23, 2021 Category: Bioinformatics Authors: Miquel Ensenyat-Mendez, Sandra Íñiguez-Muñoz, Borja Sesé and Diego M. Marzese Tags: Research Source Type: research
Comparison of 16S and whole genome dog microbiomes using machine learning
Recent advances in sequencing technologies have driven studies identifying the microbiome as a key regulator of overall health and disease in the host. Both 16S amplicon and whole genome shotgun sequencing tec... (Source: BioData Mining)
Source: BioData Mining - August 21, 2021 Category: Bioinformatics Authors: Scott Lewis, Andrea Nash, Qinghong Li and Tae-Hyuk Ahn Tags: Research Source Type: research
