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2025
UMI-nea: a fast, robust tool for reference-free UMI deduplication and accurate quantification
Bioinformatics
2025
Origin and development of uniparental and polyploid blastomeres
iScience
2025
Alignment-free unique molecular identifier clustering suppresses sequencing errors for accurate detection of low-frequency DNA variants
Briefings in Bioinformatics
2025
Co-expression of bovine leukemia virus and bovine foamy virus-derived miRNAs in naturally infected cattle
Microbiology Spectrum
2025
Evaluation of novel computational methods to identify RNA-binding protein footprints from structural data
RNA
2025
The microRNAome of Strongylus vulgaris larvae and their excretory/secretory products with identification of parasite-derived microRNAs in horse arterial tissue
International Journal for Parasitology
2025
Transcription elongation factor ELOF1 is required for efficient somatic hypermutation and class switch recombination
Molecular Cell
2025
Machine learning-optimized targeted detection of alternative splicing
Nucleic Acids Research
2025
PAL-AI reveals genetic determinants that control poly(A)-tail length during oocyte maturation, with relevance to human fertility
Nature Communications
2025
How error correction affects polymerase chain reaction deduplication: A survey based on unique molecular identifier datasets of short reads
Quantitative Biology
2025
Rapid folding of nascent RNA regulates eukaryotic RNA biogenesis
Molecular Cell
2025
Pre-existing stem cell heterogeneity dictates clonal responses to the acquisition of leukemic driver mutations
Cell Stem Cell
2024
Protocol to process crosslinking and immunoprecipitation data into annotated binding sites
STAR Protocols
2024
Meiotic recombination dynamics in plants with repeat-based holocentromeres shed light on the primary drivers of crossover patterning
Nature Plants
2024
Deep generative AI models analyzing circulating orphan non-coding RNAs enable detection of early-stage lung cancer
Nature Communications
2024
Construction of edit-distance graphs for large sets of short reads through minimizer-bucketing
Bioinformatics Advances
2024
TrieDedup: a fast trie-based deduplication algorithm to handle ambiguous bases in high-throughput sequencing
BMC Bioinformatics
2024
IMPI: An Interface for Low-Frequency Point Mutation Identification Exemplified on Resistance Mutations in Chronic Myeloid Leukemia
BioMedInformatics
2023
Skipper analysis of eCLIP datasets enables sensitive detection of constrained translation factor binding sites
Cell Genomics
2023
Seryl-tRNA synthetase promotes translational readthrough by mRNA binding and involvement of the selenocysteine incorporation machinery
Nucleic Acids Research
2023
Proteomic discovery of chemical probes that perturb protein complexes in human cells
Molecular Cell
2022
Combinatorial optimization of mRNA structure, stability, and translation for RNA-based therapeutics
Nature Communications
2022
Side-by-Side Comparison of Post-Entry Quarantine and High Throughput Sequencing Methods for Virus and Viroid Diagnosis
Biology
2021
UMIc: A Preprocessing Method for UMI Deduplication and Reads Correction
Frontiers in Genetics
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