OOIR: Observatory of International Research

Papers

(The H4-Index of BMC Genomics is 39. 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 2020-11-01 to 2024-11-01.)

Article	Citations
Pathway size matters: the influence of pathway granularity on over-representation (enrichment analysis) statistics	181
A review of deep learning applications for genomic selection	147
HiFiAdapterFilt, a memory efficient read processing pipeline, prevents occurrence of adapter sequence in PacBio HiFi reads and their negative impacts on genome assembly	97
Assembly and comparative analysis of the complete mitochondrial genome of Suaeda glauca	91
MutationalPatterns: the one stop shop for the analysis of mutational processes	86
A rapid, cost-effective tailed amplicon method for sequencing SARS-CoV-2	80
Genomic architecture of phenotypic extremes in a wild cervid	73
A comprehensive evaluation of long read error correction methods	71
Pango lineage designation and assignment using SARS-CoV-2 spike gene nucleotide sequences	67
Cell-specific characterization of the placental methylome	67
spatialLIBD: an R/Bioconductor package to visualize spatially-resolved transcriptomics data	66
AMPlify: attentive deep learning model for discovery of novel antimicrobial peptides effective against WHO priority pathogens	65
GWAS revealed effect of genotype × environment interactions for grain yield of Nebraska winter wheat	59
Chloroplast genome variation and phylogenetic relationships of Atractylodes species	59
A positive correlation between GC content and growth temperature in prokaryotes	55
The transcriptomic responses of Atlantic salmon (Salmo salar) to high temperature stress alone, and in combination with moderate hypoxia	54
Deep learning assisted multi-omics integration for survival and drug-response prediction in breast cancer	54
GalaxyTrakr: a distributed analysis tool for public health whole genome sequence data accessible to non-bioinformaticians	53
Benchmark of 16S rRNA gene amplicon sequencing using Japanese gut microbiome data from the V1–V2 and V3–V4 primer sets	53
Assessing genomic diversity and signatures of selection in Jiaxian Red cattle using whole-genome sequencing data	52
Comparative chloroplast genomes: insights into the evolution of the chloroplast genome of Camellia sinensis and the phylogeny of Camellia	52
UniBind: maps of high-confidence direct TF-DNA interactions across nine species	51
RBPsuite: RNA-protein binding sites prediction suite based on deep learning	51
Genome-wide identification of R2R3-MYB family in wheat and functional characteristics of the abiotic stress responsive gene TaMYB344	48
Systematic comparison of high-throughput single-cell RNA-seq methods for immune cell profiling	44

Identification of ferroptosis genes in immune infiltration and prognosis in thyroid papillary carcinoma using network analysis	44
Whole genome comparisons reveal panmixia among fall armyworm (Spodoptera frugiperda) from diverse locations	43
Authoritative subspecies diagnosis tool for European honey bees based on ancestry informative SNPs	43
Long-read metagenomics retrieves complete single-contig bacterial genomes from canine feces	42
Differential regulation of intramuscular fat and abdominal fat deposition in chickens	41
Large scale genomic rearrangements in selected Arabidopsis thaliana T-DNA lines are caused by T-DNA insertion mutagenesis	41
Intellectual disability genomics: current state, pitfalls and future challenges	40
Genome-wide identification of the MADS-box transcription factor family in autotetraploid cultivated alfalfa (Medicago sativa L.) and expression analysis under abiotic stress	40
Multi-trait GWAS using imputed high-density genotypes from whole-genome sequencing identifies genes associated with body traits in Nile tilapia	40
Multi-omics analysis reveals the glycolipid metabolism response mechanism in the liver of genetically improved farmed Tilapia (GIFT, Oreochromis niloticus) under hypoxia stress	40
Genetic mapping for agronomic traits in a MAGIC population of common bean (Phaseolus vulgaris L.) under drought conditions	39
Antimicrobial activity screening of rhizosphere soil bacteria from tomato and genome-based analysis of their antimicrobial biosynthetic potential	39
Comparing low-pass sequencing and genotyping for trait mapping in pharmacogenetics	39
Systematic benchmark of state-of-the-art variant calling pipelines identifies major factors affecting accuracy of coding sequence variant discovery	39