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Self-supervised learning on millions of primary RNA sequences from 72 vertebrates improves sequence-based RNA splicing prediction
Abstract Language models pretrained by self-supervised learning (SSL) have been widely
utilized to study protein sequences, while few models were developed for genomic …
utilized to study protein sequences, while few models were developed for genomic …
Wildlife forensic genetics—Biological evidence, DNA markers, analytical approaches, and challenges
S Kanthaswamy - Animal Genetics, 2024 - Wiley Online Library
Wildlife‐related crimes are the second most prevalent lawbreaking offense globally. This
illicit trade encompasses hunting, breeding and trafficking. Besides diminishing many …
illicit trade encompasses hunting, breeding and trafficking. Besides diminishing many …
Comparative Genomics and Epigenomics of Transcriptional Regulation
Transcriptional regulation in response to diverse physiological cues involves complicated
biological processes. Recent initiatives that leverage whole genome sequencing and …
biological processes. Recent initiatives that leverage whole genome sequencing and …
Inferring the Demographic History of Aye-Ayes (Daubentonia madagascariensis) from High-Quality, Whole-Genome, Population-Level Data
The nocturnal aye-aye, Daubentonia madagascariensis, is one of the most elusive lemurs
on the island of Madagascar. The timing of its activity and arboreal lifestyle has generally …
on the island of Madagascar. The timing of its activity and arboreal lifestyle has generally …
Automated high-throughput biological sex identification from archeological human dental enamel using targeted proteomics
Biological sex is key information for archeological and forensic studies, which can be
determined by proteomics. However, the lack of a standardized approach for fast and …
determined by proteomics. However, the lack of a standardized approach for fast and …
junctionCounts: comprehensive alternative splicing analysis and prediction of isoform-level impacts to the coding sequence
AJ Ritter, A Wallace, N Ronaghi… - NAR Genomics and …, 2024 - academic.oup.com
Alternative splicing (AS) is emerging as an important regulatory process for complex
biological processes. Transcriptomic studies therefore commonly involve the identification …
biological processes. Transcriptomic studies therefore commonly involve the identification …
Improving the performance of supervised deep learning for regulatory genomics using phylogenetic augmentation
Motivation Supervised deep learning is used to model the complex relationship between
genomic sequence and regulatory function. Understanding how these models make …
genomic sequence and regulatory function. Understanding how these models make …
The utility of animal models to inform the next generation of human space exploration
Animals have played a vital role in every stage of space exploration, from early sub-orbital
flights to contemporary missions. New physiological and psychological challenges arise with …
flights to contemporary missions. New physiological and psychological challenges arise with …
Unprecedented female mutation bias in the aye-aye, a highly unusual lemur from Madagascar
Every mammal studied to date has been found to have a male mutation bias: male parents
transmit more de novo mutations to offspring than female parents, contributing increasingly …
transmit more de novo mutations to offspring than female parents, contributing increasingly …
Advancing evolutionary medicine with complete primate genomes and advanced biotechnologies
Evolutionary medicine, which integrates evolutionary biology and medicine, significantly
enhances our understanding of human traits and disease susceptibility. However, previous …
enhances our understanding of human traits and disease susceptibility. However, previous …