Counterintuitive finding: Stricter EVM filtering DECREASED BUSCO (81.2% to 79.5%). Why? Aggressive filtering removes real genes with weak evidence in non-model species. Solution: Keep lenient EVM output, rescue with ortholog validation. #Bioinformatics #GenomeAnnotation

BUSCO progression in our pipeline: EVM raw: 81.2% +filtering: 79.5% +miniprot: 92.5% +merged: 93.2% Genome: 98.1% EVM alone misses ~12% of conserved genes. Protein alignment rescue is essential. #Bioinformatics #GenomeAnnotation

4 annotation strategies on a 1.33Gb plant genome: Ab initio: 97K genes (overprediction) EVM: 40K, BUSCO 80.8% Miniprot: 28K, BUSCO 92.5% Miniprot+RNA-seq: 32K, BUSCO 93.2% More evidence ≠ better. Quality > quantity. #Bioinformatics #GenomeAnnotation

#TropicalPlants Sweetpotatoon genome v1.0.a2 reannotated using long/short reads; 97.4% BUSCO, 8K+ AS events. @MaximumAcademic #Sweetpotato #GenomeAnnotation @MPlantPCom Details: maxapress.com/article/doi/10…

🧬 Metagenome Analysis — Day 5 is live! Gene prediction → functional annotation → metabolic pathways 🔗 Blojojyjohn28.github.io/blog/metagenom…nX Repogithub.com/jojyjohn28/met…tLn #Metagenomics #GenomeAnnotation #Bioinformatics #MAc9o

Day 4 of whole genome sequencing analysis in live at:jojyjohn28.github.io/blog/wgs-day4-… and github.com/jojyjohn28/who… #WholeGenomeSequencing #Bioinformatics #GenomeAnnotation #FunctionalGenomics #MicrobialEcology #Metagenomics #ReproducibleResearch #HPC #iTOL

AI facilitates rapid annotation of newly sequenced genomes. #GenomeAnnotation #AIinScience

Genome annotations matter: characterizing Ensembl hg38 annotations from 2014 to 2023. #mRNA #GenomeAnnotation #EnsemblGenes #Isoforms #BMCgenomics link.springer.com/article/10.118…

🚀New paper from the IBCH team in #Genomics! A modular pipeline for evidence-integrated genome annotation across species: A case study on Schmidtea mediterranea Authors: A. Zaremba, A. Dutta, A. Samelak-Czajka, P. Jackowiak �� #Planarian #GenomeAnnotatiosciencedirect.com/science/articl…Bc

MoGAAAP: A modular Snakemake workflow for automated genome assembly and annotation with quality assessment. #GenomeAssembly #GenomeAnnotation #GenomeQuality #Genomics #Bioinformatics @biorxiv_bioinfo biorxiv.org/content/10.110…

GFFx: A Rust-based suite of utilities for ultra-fast genomic feature extraction. #Genomics #Rust #GenomeAnnotation #GFF #GenomicFeatures @biorxiv_bioinfo biorxiv.org/content/10.110…