OOIR: Observatory of International Research

Papers

(The H4-Index of BMC Genomics is 42. 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 2020-05-01 to 2024-05-01.)

Article	Citations
Pathway size matters: the influence of pathway granularity on over-representation (enrichment analysis) statistics	157
Seamless integration of image and molecular analysis for spatial transcriptomics workflows	147
A review of deep learning applications for genomic selection	126
Precursor peptide-targeted mining of more than one hundred thousand genomes expands the lanthipeptide natural product family	101
Illuminating the dark side of the human transcriptome with long read transcript sequencing	94
An empirical comparison of population genetic analyses using microsatellite and SNP data for a species of conservation concern	86
A rapid, cost-effective tailed amplicon method for sequencing SARS-CoV-2	75
Refining the transcriptome of the human malaria parasite Plasmodium falciparum using amplification-free RNA-seq	74
HiFiAdapterFilt, a memory efficient read processing pipeline, prevents occurrence of adapter sequence in PacBio HiFi reads and their negative impacts on genome assembly	71
Assembly and comparative analysis of the complete mitochondrial genome of Suaeda glauca	70
MutationalPatterns: the one stop shop for the analysis of mutational processes	68
Phylogenomics of expanding uncultured environmental Tenericutes provides insights into their pathogenicity and evolutionary relationship with Bacilli	64
Genomic architecture of phenotypic extremes in a wild cervid	61
Pango lineage designation and assignment using SARS-CoV-2 spike gene nucleotide sequences	60
Cell-specific characterization of the placental methylome	59
Fulvic acid ameliorates drought stress-induced damage in tea plants by regulating the ascorbate metabolism and flavonoids biosynthesis	58
The alcohol dehydrogenase gene family in sugarcane and its involvement in cold stress regulation	58
Daring to be differential: metabarcoding analysis of soil and plant-related microbial communities using amplicon sequence variants and operational taxonomical units	58
A comprehensive evaluation of long read error correction methods	58
Siberian larch (Larix sibirica Ledeb.) mitochondrial genome assembled using both short and long nucleotide sequence reads is currently the largest known mitogenome	56
Comparative genomic analysis of Flavobacteriaceae: insights into carbohydrate metabolism, gliding motility and secondary metabolite biosynthesis	54
GWAS revealed effect of genotype × environment interactions for grain yield of Nebraska winter wheat	53
Analysis of six chloroplast genomes provides insight into the evolution of Chrysosplenium (Saxifragaceae)	53
Unlocking the efficiency of genomics laboratories with robotic liquid-handling	52
Chloroplast genome variation and phylogenetic relationships of Atractylodes species	51

spatialLIBD: an R/Bioconductor package to visualize spatially-resolved transcriptomics data	50
Progress in quickly finding orthologs as reciprocal best hits: comparing blast, last, diamond and MMseqs2	47
AMPlify: attentive deep learning model for discovery of novel antimicrobial peptides effective against WHO priority pathogens	46
Genome-wide identification and expression analysis of AP2/ERF transcription factors in sugarcane (Saccharum spontaneum L.)	46
Genome-wide identification and characterization of ABA receptor PYL gene family in rice	45
Genome-wide identification of R2R3-MYB family in wheat and functional characteristics of the abiotic stress responsive gene TaMYB344	45
Benchmark of 16S rRNA gene amplicon sequencing using Japanese gut microbiome data from the V1–V2 and V3–V4 primer sets	44
Genome-wide identification of ATP binding cassette (ABC) transporter and heavy metal associated (HMA) gene families in flax (Linum usitatissimum L.)	44
Comparative chloroplast genome analysis of Artemisia (Asteraceae) in East Asia: insights into evolutionary divergence and phylogenomic implications	44
Metabolome and transcriptome analyses of the molecular mechanisms of flower color mutation in tobacco	43
A positive correlation between GC content and growth temperature in prokaryotes	43
Molecular genetic analysis of spring wheat core collection using genetic diversity, population structure, and linkage disequilibrium	43
GalaxyTrakr: a distributed analysis tool for public health whole genome sequence data accessible to non-bioinformaticians	43
Comparative chloroplast genomes: insights into the evolution of the chloroplast genome of Camellia sinensis and the phylogeny of Camellia	43
Genome-wide association analyses identify known and novel loci for teat number in Duroc pigs using single-locus and multi-locus models	43
Complete chloroplast genome sequence of Barleria prionitis, comparative chloroplast genomics and phylogenetic relationships among Acanthoideae	42
A comparative analysis of chromatin accessibility in cattle, pig, and mouse tissues	42
The transcriptomic responses of Atlantic salmon (Salmo salar) to high temperature stress alone, and in combination with moderate hypoxia	42