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http://dx.doi.org/10.1007/s00438-025-02285-z | DOI Listing |
PLoS Comput Biol
September 2025
OmnibusXLab, OmnibusX Company Limited, Ho Chi Minh City, Vietnam.
OmnibusX is an integrated, privacy-centric platform that enables code-free multi-omics data analysis by bridging computational methodologies with user-friendly interfaces. Designed to overcome challenges posed by fragmented analytical tools and high computational barriers, OmnibusX consolidates workflows for diverse technologies - including bulk RNA-seq, single-cell RNA-seq, single-cell ATAC-seq, and spatial transcriptomics - into a single, cohesive application. The application integrates established open-source tools such as Scanpy, DESeq2, SciPy, and scikit-learn into transparent, reproducible pipelines, offering users control over analytical parameters.
View Article and Find Full Text PDFJ Genet
September 2025
College of Life Sciences, Nanjing Forestry University, Nanjing 210037, People's Republic of China.
The family Syngnathidae includes seahorses, sea dragons, and pipefishes. We sequenced the complete mitochondrial DNA (mtDNA) genome of the belly pipefish, Bleeker, 1849. The genome is 16,646-bp long, and includes the standard complement for bony fishes of 13 protein-coding genes, 22 tRNA genes, two rRNA genes, and a control region, in the same order and strand distribution as other syngnathids.
View Article and Find Full Text PDFJ Genet
September 2025
The Co-Innovation Center for Sustainable Forestry in Southern China, College of Life Sciences, Nanjing Forestry University, Nanjing 210037, People's Republic of China.
The complete mitogenome of the common Chinese whip scorpion, (Butler, 1872) was sequenced and compared with another Uropygid mitogenome of (Lucas, 1835). Structural divergences include the absence of one tRNA-Leu and strand inversions in four protein coding genes (PCGs). All PCGs showed K/K ratios-1, which indicates purifying selection, with COI (0.
View Article and Find Full Text PDFFront Med (Lausanne)
August 2025
College of Information Science and Technology, Hainan Normal University, Guilinyang Campus, Haikou, Hainan, China.
Introduction: Accurately predicting tumor cell line responses to therapeutic drugs is essential for personalized cancer treatment. Current methods using bulk cell data fail to fully capture tumor heterogeneity and the complex mechanisms underlying treatment responses.
Methods: This study introduces a novel method, ATSDP-NET (Attention-based Transfer Learning for Enhanced Single-cell Drug Response Prediction), which combines bulk and single-cell data.
Int J Biol Macromol
September 2025
School of Chemistry and Chemical Engineering, Jiangsu University, Zhenjiang, 212013, PR China. Electronic address:
Aptamers are single-stranded DNA or RNA oligonucleotides that can bind to specific target molecules with high affinity and specificity. Fluorescence DNA aptamer-based biosensors (aptasensors) have emerged as powerful analytical tools for detecting diverse targets, ranging from food contaminants to disease biomarkers, owing to their exceptional specificity, high sensitivity, and cost-effectiveness. This review systematically summarizes recent advances in the design strategies of fluorescence aptasensors, focusing on three key approaches: (1) fluorescence resonance energy transfer-based signal amplification, (2) nanomaterial-enhanced probes, and (3) multi-channel platforms for simultaneous detection.
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