MethylBERT enables read-level DNA methylation pattern identification and tumour deconvolution using a Transformer-based model.

DNA methylation (DNAm) is a key epigenetic mark that shows profound alterations in cancer. Read-level methylomes enable more in-depth analyses, due to their broad genomic coverage and preservation of rare cell-type signals, compared to summarized data such as 450K/EPIC microarrays. Here, we propose MethylBERT, a Transformer-based model for read-level methylation pattern classification.

Optimal extent of lymph node dissection in clinical early-stage right colon cancer: a retrospective analysis.

Purpose: Determining the extent of radical lymphadenectomy at clinical early stage is challenging. We aimed to investigate the appropriate extent of lymphadenectomy in clinical early-stage right colon cancer.

Methods: Patients with clinical stage 0 or I right colon cancer who underwent curative surgery from January 2007 to December 2021 were included in this retrospective study.

Comprehensive analysis of clinical, pathological, and molecular features in chronic myelomonocytic leukemia: frequent and mutations and higher mutation burden in myeloproliferative CMML compared to myelodysplastic CMML.

Various aspects of myeloproliferative chronic myelomonocytic leukemia (MP-CMML) and myelodysplastic CMML (MD-CMML) have been reported but inconsistencies remain. This study conducted a comprehensive retrospective analysis of clinical, pathological, and molecular data from a cohort of CMML. The results revealed a higher frequency of and mutations and a greater mutation burden in MP-CMML, characterized by more tier 1 or 2 variants and dominant mutations.

Light-induced electron spin qubit coherences in the purple bacteria reaction center protein.

Photosynthetic reaction center proteins (RCs) provide ideal model systems for studying quantum entanglement between multiple spins, a quantum mechanical phenomenon wherein the properties of the entangled particles become inherently correlated. Following light-generated sequential electron transfer, RCs generate spin-correlated radical pairs (SCRPs), also referred to as entangled spin qubit (radical) pairs (SQPs). Understanding and controlling coherence mechanisms in SCRP/SQPs is important for realizing practical uses of electron spin qubits in quantum sensing applications.

Multi-microjoule broadband terahertz generation in the organic crystal BNA pumped by ytterbium laser pulses compressed via a gas-filled hollow-core fiber.

We investigate the enhanced terahertz generation in the organic crystal BNA when pumped by compressed high-energy ytterbium laser pulses. By compressing the pump pulses from 170 fs down to 43 fs using an argon-filled hollow-core fiber and chirped mirrors, the terahertz conversion efficiency is increased by 2.4 times, leading to the generation of multi-microjoule terahertz pulses with a frequency spectrum almost twice as wide, extending up to 19 THz.