6 hasil
Menampilkan 1–6 · 0,22 detik · RSS
NAR Genomics and Bioinformatics
Scopus
ISSN 2631-9268 · Oxford University Press · 6 artikel di indeks
-
Artikel Jurnal Teks lengkap
Bilingual language model for protein sequence and structure
Abstract Adapting language models to protein sequences spawned the development of powerful protein language models (pLMs). Concurrently, AlphaFold2 broke through in protein structure prediction. Now we can systematically and comprehensively explore the dual nature of proteins that act and exist as…
-
Artikel Jurnal Teks lengkap
Sequencing error profiles of Illumina sequencing instruments
Sequencing technology has achieved great advances in the past decade. Studies have previously shown the quality of specific instruments in controlled conditions. Here, we developed a method able to retroactively determine the error rate of most public sequencing datasets. To do this, we utilized…
-
Artikel Jurnal Teks lengkap
PHROG: families of prokaryotic virus proteins clustered using remote homology
Viruses are abundant, diverse and ancestral biological entities. Their diversity is high, both in terms of the number of different protein families encountered and in the sequence heterogeneity of each protein family. The recent increase in sequenced viral genomes constitutes a great opportunity to…
-
Artikel Jurnal Teks lengkap
BRAKER2: automatic eukaryotic genome annotation with GeneMark-EP+ and AUGUSTUS supported by a protein database
The task of eukaryotic genome annotation remains challenging. Only a few genomes could serve as standards of annotation achieved through a tremendous investment of human curation efforts. Still, the correctness of all alternative isoforms, even in the best-annotated genomes, could be a good subject…
-
Artikel Jurnal Teks lengkap
ComBat-seq: batch effect adjustment for RNA-seq count data
The benefit of integrating batches of genomic data to increase statistical power is often hindered by batch effects, or unwanted variation in data caused by differences in technical factors across batches. It is therefore critical to effectively address batch effects in genomic data to overcome…
-
Artikel Jurnal Teks lengkap
GeneMark-EP+: eukaryotic gene prediction with self-training in the space of genes and proteins
Abstract We have made several steps toward creating a fast and accurate algorithm for gene prediction in eukaryotic genomes. First, we introduced an automated method for efficient ab initio gene finding, GeneMark-ES, with parameters trained in iterative unsupervised mode. Next, in GeneMark-ET we…