OOIR: Observatory of International Research

Papers

(The H4-Index of BMC Bioinformatics is 41. 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
Nonnegative matrix factorization analysis and multiple machine learning methods identified IL17C and ACOXL as novel diagnostic biomarkers for atherosclerosis	1276
A novel nonparametric computational strategy for identifying differential methylation regions	890
Examination of blood samples using deep learning and mobile microscopy	258
Hitac: a hierarchical taxonomic classifier for fungal ITS sequences compatible with QIIME2	203
REDalign: accurate RNA structural alignment using residual encoder-decoder network	164
Linear programming based gene expression model (LPM-GEM) predicts the carbon source for Bacillus subtilis	135
Employing phylogenetic tree shape statistics to resolve the underlying host population structure	123
A binary biclustering algorithm based on the adjacency difference matrix for gene expression data analysis	97
Predictive modeling of gene expression regulation	90
CMIC: predicting DNA methylation inheritance of CpG islands with embedding vectors of variable-length k-mers	88
Grace-AKO: a novel and stable knockoff filter for variable selection incorporating gene network structures	76
Enabling personalised disease diagnosis by combining a patient’s time-specific gene expression profile with a biomedical knowledge base	74
SALON ontology for the formal description of sequence alignments	69
Locality-sensitive hashing enables efficient and scalable signal classification in high-throughput mass spectrometry raw data	67
Abstraction-based segmental simulation of reaction networks using adaptive memoization	63
Multivariate estimation of factor structures of complex traits using SNP-based genomic relationships	60
airpg: automatically accessing the inverted repeats of archived plastid genomes	60
From a genome assembly to full regulatory network prediction: the case study of Rhodotorula toruloides putative Haa1-regulon	59
rKOMICS: an R package for processing mitochondrial minicircle assemblies in population-scale genome projects	58
Correction to: Avian Immunome DB: an example of a user‑friendly interface for extracting genetic information	57
Mabs, a suite of tools for gene-informed genome assembly	54
A gene based combination test using GWAS summary data	54
SumStatsRehab: an efficient algorithm for GWAS summary statistics assessment and restoration	53
A drug repositioning algorithm based on a deep autoencoder and adaptive fusion	53
Prediction of HIV-1 protease cleavage site from octapeptide sequence information using selected classifiers and hybrid descriptors	53

Graph regularized non-negative matrix factorization with prior knowledge consistency constraint for drug–target interactions prediction	52
Mathematical modelling of SigE regulatory network reveals new insights into bistability of mycobacterial stress response	49
Topology preserving stratification of tissue neoplasticity using Deep Neural Maps and microRNA signatures	49
Correction: DeepSuccinylSite: a deep learning based approach for protein succinylation site prediction	48
Combining denoising of RNA-seq data and flux balance analysis for cluster analysis of single cells	48
Not seeing the trees for the forest. The impact of neighbours on graph-based configurations in histopathology	48
Prediction of hot spots in protein–DNA binding interfaces based on discrete wavelet transform and wavelet packet transform	47
PEPMatch: a tool to identify short peptide sequence matches in large sets of proteins	47
CoQUAD: a COVID-19 question answering dataset system, facilitating research, benchmarking, and practice	47
Integrated analysis of the voltage-gated potassium channel-associated gene KCNH2 across cancers	46
PIGNON: a protein–protein interaction-guided functional enrichment analysis for quantitative proteomics	45
Deep learning and multi-omics approach to predict drug responses in cancer	44
LDAGM: prediction lncRNA-disease asociations by graph convolutional auto-encoder and multilayer perceptron based on multi-view heterogeneous networks	44
Exploring cell-specific miRNA regulation with single-cell miRNA-mRNA co-sequencing data	44
Application of convolutional neural networks towards nuclei segmentation in localization-based super-resolution fluorescence microscopy images	43
SVDNVLDA: predicting lncRNA-disease associations by Singular Value Decomposition and node2vec	43
Empowering the discovery of novel target-disease associations via machine learning approaches in the open targets platform	41
Multilayer network alignment based on topological assessment via embeddings	41
CircWalk: a novel approach to predict CircRNA-disease association based on heterogeneous network representation learning	41