OOIR: Observatory of International Research

Papers

(The TQCC of Journal of Bioinformatics and Computational Biology is 2. The table below lists those papers that are above that threshold based on CrossRef citation counts [max. 250 papers]. The publications cover those that have been published in the past four years, i.e., from 2021-05-01 to 2025-05-01.)

Article	Citations
Identification of genes associated with cancer prognosis in glioma: In silico data analyses of Chinese Glioma Genome Atlas (CGGA) and The Cancer Genome Atlas (TCGA)	29
Prediction model for synergistic anti-tumor multi-compound combinations from traditional Chinese medicine based on extreme gradient boosting, targets and gene expression data	17
PANDA: Predicting the change in proteins binding affinity upon mutations by finding a signal in primary structures	11
CBDT-Oglyc: Prediction of O-glycosylation sites using ChiMIC-based balanced decision table and feature selection	10
Involving repetitive regions in scaffolding improvement	9
A novel method for predicting DNA N⁴-methylcytosine sites based on deep forest algorithm	8
DBP-GAPred: An intelligent method for prediction of DNA-binding proteins types by enhanced evolutionary profile features with ensemble learning	6
Computation and analysis of stationary and periodic solutions of the COVID-19 infection dynamics model	5
ASAP-DTA: Predicting drug-target binding affinity with adaptive structure aware networks	5
Colorful orthology clustering in bounded-degree similarity graphs	5
TemporalGSSA: A numerically robust R-wrapper to facilitate computation of a metabolite-specific and simulation time-dependent trajectory from stochastic simulation algorithm (SSA)-generated datasets	5
Learning long- and short-term dependencies for improving drug-target binding affinity prediction using transformer and edge contraction pooling	4
Flux balance network expansion predicts stage-specific human peri_implantation embryo metabolism	4
Analysis of clonal evolution in cancer: A computational perspective	4
EnAMP: A novel deep learning ensemble antibacterial peptide recognition algorithm based on multi-features	4
Accounting for treatment during the development or validation of prediction models	4
Methods for cell-type annotation on scRNA-seq data: A recent overview	4
MoRF_ESM: Prediction of MoRFs in disordered proteins based on a deep transformer protein language model	4
How much can ChatGPT really help computational biologists in programming?	4
Identifying duplications and lateral gene transfers simultaneously and rapidly	3
Population-specific adaptation in malaria-endemic regions of asia	3
The monoploid chromosome complement of reconstructed ancestral genomes in a phylogeny	3
NDMNN: A novel deep residual network based MNN method to remove batch effects from scRNA-seq data	3
Polypharmacy side effect prediction based on semi-implicit graph variational auto-encoder	3
Improving drug–target interaction prediction through dual-modality fusion with InteractNet	3

Feedback-AVPGAN: Feedback-guided generative adversarial network for generating antiviral peptides	3
Author Index Volume 20 (2022)	3
Behavioral dynamics of bacteriophage gene regulatory networks	3
Introduction to Selected Papers from InCoB 2021	3
NuKit: A deep learning platform for fast nucleus segmentation of histopathological images	3
The mechanism accounting for DNA damage strength modulation of p53 dynamical properties	3
The use of 4D data-independent acquisition-based proteomic analysis and machine learning to reveal potential biomarkers for stress levels	2
A pharmacokinetic model based on the SSA-1DCNN-Attention method	2
Analyzing the performance of short-read classification tools on metagenomic samples toward proper diagnosis of diseases	2
Introduction to the Special Issue of the 18th Annual International RECOMB Satellite Workshop on Comparative Genomics	2
Facilitating the drug repurposing with iC/E strategy: A practice on novel nNOS inhibitor discovery	2
O-glycosylation site prediction for Homo sapiens by combining properties and sequence features with support vector machine	2
Exploring relationship between hypercholesterolemia and instability of atherosclerotic plaque — An approach based on a matrix population model	2
Body plan evolvability: The role of variability in gene regulatory networks	2
Integrating temporal and spatial variabilities for identifying ion binding proteins in phage	2
An alignment-independent three-dimensional quantitative structure–activity relationship study on ron receptor tyrosine kinase inhibitors	2
Local RNA folding revisited	2
Transforming OMIC features for classification using siamese convolutional networks	2
iAMY-RECMFF: Identifying amyloidgenic peptides by using residue pairwise energy content matrix and features fusion algorithm	2
Evaluating network-based missing protein prediction using p-values, Bayes Factors, and probabilities	2
A novel method addressing NGS-based mappability bias for sensitive detection of DNA alterations	2
Mining sponge phenomena in RNA expression data	2
Prediction of nucleosome dynamic interval based on long–short-term memory network (LSTM)	2