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 2020-03-01 to 2024-03-01.)

Article	Citations
Pathway size matters: the influence of pathway granularity on over-representation (enrichment analysis) statistics	150
Seamless integration of image and molecular analysis for spatial transcriptomics workflows	138
A review of deep learning applications for genomic selection	116
Precursor peptide-targeted mining of more than one hundred thousand genomes expands the lanthipeptide natural product family	98
Illuminating the dark side of the human transcriptome with long read transcript sequencing	90
An empirical comparison of population genetic analyses using microsatellite and SNP data for a species of conservation concern	81
A rapid, cost-effective tailed amplicon method for sequencing SARS-CoV-2	71
HiFiAdapterFilt, a memory efficient read processing pipeline, prevents occurrence of adapter sequence in PacBio HiFi reads and their negative impacts on genome assembly	68
Refining the transcriptome of the human malaria parasite Plasmodium falciparum using amplification-free RNA-seq	67
DolphinNext: a distributed data processing platform for high throughput genomics	66
Genome-wide identification and expression analysis of the NAC transcription factor family in tomato (Solanum lycopersicum) during aluminum stress	66
Assembly and comparative analysis of the complete mitochondrial genome of Suaeda glauca	63
Phylogenomics of expanding uncultured environmental Tenericutes provides insights into their pathogenicity and evolutionary relationship with Bacilli	61
Tracy: basecalling, alignment, assembly and deconvolution of sanger chromatogram trace files	60
MutationalPatterns: the one stop shop for the analysis of mutational processes	60
Cell-specific characterization of the placental methylome	58
A comprehensive evaluation of long read error correction methods	57
Pango lineage designation and assignment using SARS-CoV-2 spike gene nucleotide sequences	56
Genome-wide identification and expression analysis of WRKY transcription factors in pearl millet (Pennisetum glaucum) under dehydration and salinity stress	56
Genomic architecture of phenotypic extremes in a wild cervid	56
Fulvic acid ameliorates drought stress-induced damage in tea plants by regulating the ascorbate metabolism and flavonoids biosynthesis	55
Brown marmorated stink bug, Halyomorpha halys (Stål), genome: putative underpinnings of polyphagy, insecticide resistance potential and biology of a top worldwide pest	55
The alcohol dehydrogenase gene family in sugarcane and its involvement in cold stress regulation	55
Daring to be differential: metabarcoding analysis of soil and plant-related microbial communities using amplicon sequence variants and operational taxonomical units	54
Comparative genomic analysis of Flavobacteriaceae: insights into carbohydrate metabolism, gliding motility and secondary metabolite biosynthesis	53

Analysis of six chloroplast genomes provides insight into the evolution of Chrysosplenium (Saxifragaceae)	51
Siberian larch (Larix sibirica Ledeb.) mitochondrial genome assembled using both short and long nucleotide sequence reads is currently the largest known mitogenome	51
On the utility of RNA sample pooling to optimize cost and statistical power in RNA sequencing experiments	49
GWAS revealed effect of genotype × environment interactions for grain yield of Nebraska winter wheat	49
Unlocking the efficiency of genomics laboratories with robotic liquid-handling	49
GenomeQC: a quality assessment tool for genome assemblies and gene structure annotations	48
Chloroplast genome variation and phylogenetic relationships of Atractylodes species	48
A benchmark study of ab initio gene prediction methods in diverse eukaryotic organisms	47
spatialLIBD: an R/Bioconductor package to visualize spatially-resolved transcriptomics data	44
Genome-wide identification of R2R3-MYB family in wheat and functional characteristics of the abiotic stress responsive gene TaMYB344	44
Comparative chloroplast genome analysis of Artemisia (Asteraceae) in East Asia: insights into evolutionary divergence and phylogenomic implications	44
Genome-wide association analyses identify known and novel loci for teat number in Duroc pigs using single-locus and multi-locus models	43
Benchmark of 16S rRNA gene amplicon sequencing using Japanese gut microbiome data from the V1–V2 and V3–V4 primer sets	43
Genome wide screening and comparative genome analysis for Meta-QTLs, ortho-MQTLs and candidate genes controlling yield and yield-related traits in rice	43
Protein changes as robust signatures of fish chronic stress: a proteomics approach to fish welfare research	43
Genome-wide identification and expression analysis of AP2/ERF transcription factors in sugarcane (Saccharum spontaneum L.)	43
The effect of antibiotics on the gut microbiome: a metagenomics analysis of microbial shift and gut antibiotic resistance in antibiotic treated mice	42
Metabolome and transcriptome analyses of the molecular mechanisms of flower color mutation in tobacco	42
Genome-wide identification of ATP binding cassette (ABC) transporter and heavy metal associated (HMA) gene families in flax (Linum usitatissimum L.)	42
Molecular genetic analysis of spring wheat core collection using genetic diversity, population structure, and linkage disequilibrium	42