So Nakagawa

This paper identifies mSUPYNL1 as a retrovirus-derived protein that suppresses membrane fusion through direct recognition of envelope glycoproteins, distinct from receptor interference mechanisms.

This study identifies the non-spike R204P mutation in the SARS-CoV-2 Omicron XEC variant as a driver of increased inflammation and pathogenicity through NF-κB activation.

This paper introduces CoVFit, a protein language model that predicts SARS-CoV-2 variant fitness using spike protein sequences, identifying fitness-enhancing mutations and predicting emerging variants.

The paper identifies a novel mechanism by which LINE-1 retrotransposons contribute to the birth of lineage-specific proteins through alternative splicing, resulting in chimeric proteins like Lyosin.

The paper identifies rare variants in CRHR2 and GRM8 as candidate susceptibility factors for eating disorders in Japanese patients through whole exome sequencing of affected sib-pairs.

The paper identifies and characterizes env-ORFs in monotreme genomes, showing that fusogenic retroviral genes exist in egg-laying mammals, not just placental ones.

This study demonstrates the SEND process in vivo using genetically engineered mouse models, showing potential for using SEND-VLPs as a gene therapy tool for delivering mRNAs to tissues.

This study shows that Uhrf1 is essential for the proliferation and differentiation of muscle satellite cells by maintaining DNA methylation patterns.

The paper identifies three monotreme-specific reverse transcriptase-like genes derived from ERVs in platypus and echidna genomes, showing their conservation and testis-specific expression.

The paper identifies a conserved retroviral RNA element, SPRE, present in multiple ERV-derived genes across mammals and shows its role in enhancing protein expression.

The paper uses nanopore direct RNA sequencing to analyze DUX4-induced gene expression and repetitive elements in human muscle cells, identifying new fusion transcripts and splicing events.

The paper analyzes expression of 12 retroviral-like genes in AML patients and finds ERV3-1 is highly expressed in myeloid lineage cells, potentially linked to chromosome 8 trisomy.

The paper analyzes 176,401 ERV-ORFs across 19 mammalian genomes to determine their transcriptional potential and evolutionary dynamics.

The paper benchmarks 44 sequence compressors on FASTA-formatted data, identifying optimal tools based on performance metrics like compression ratio and speed.

This study shows that microgrooved PLA nanosheets enhance neuronal differentiation and gene expression related to synaptic structures compared to flat nanosheets.

The paper introduces NAF, a lossless reference-free compression format for DNA sequences that offers faster decompression than existing tools while maintaining comparable compression ratios.

The paper identifies a susceptibility variant in CCHCR1 associated with alopecia areata and shows its effect in mice with patched hair loss.

The paper uses nanopore sequencing to accurately sequence the D4Z4 repeat array associated with FSHD, demonstrating high accuracy and potential for molecular diagnosis.

The paper develops a portable system using nanopore sequencer and laptop computers for rapid on-site bacterial composition analysis, showing comparable or better results than conventional methods.