A new gene finding tool GeneMark-ETP significantly improves the accuracy of automatic annotation of large eukaryotic genomes.

ABSTRACT: Large-scale genomic initiatives, such as the Earth BioGenome Project, require efficient methods for eukaryotic genome annotation. Here we present an automatic gene finder, GeneMark-ETP, integrating genomic-, transcriptomic- and protein-derived evidence that has been developed with a focus on large plant and animal genomes. GeneMark-ETP first identifies genomic loci where extrinsic data is sufficient for making gene predictions with 'high confidence'. The genes situated in the genomic space between the high confidence genes are predicted in the next stage. The set of high confidence genes serves as an initial training set for the statistical model. Further on, the model parameters are iteratively updated in the rounds of gene prediction and parameter re-estimation. Upon reaching convergence

SUBMITTER: Bruna T 

PROVIDER: S-EPMC9882169 | biostudies-literature | 2024 Apr

REPOSITORIES: biostudies-literature