AIMC Topic: Oligonucleotides

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Domain-Scan: Combinatorial Sero-Diagnosis of Infectious Diseases Using Machine Learning.

Frontiers in immunology Feb 10, 2021
The presence of pathogen-specific antibodies in an individual's blood-sample is used as an indication of previous exposure and infection to that specific pathogen (e.g., virus or bacterium). Measurement of the diagnostic antibodies is routinely achie...
Polymerase Chain Reaction Hepatitis C Antibodies HIV Core Protein p24 High-Throughput Nucleotide Sequencing DNA Barcoding, Taxonomic Base Sequence Antigen-Antibody Reactions DNA, Recombinant HIV Envelope Protein gp160 Genetic Vectors HIV Antibodies AIDS Serodiagnosis Peptide Fragments Epitopes Amino Acid Sequence Oligonucleotides Hepatitis C Serologic Tests Communicable Diseases HIV Infections Peptide Library Humans Machine Learning Hepatitis C Antigens
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Haruspex: A Neural Network for the Automatic Identification of Oligonucleotides and Protein Secondary Structure in Cryo-Electron Microscopy Maps.

Angewandte Chemie (International ed. in English) May 11, 2020
In recent years, three-dimensional density maps reconstructed from single particle images obtained by electron cryo-microscopy (cryo-EM) have reached unprecedented resolution. However, map interpretation can be challenging, in particular if the const...
DNA Models, Molecular Oligonucleotides Humans Neural Networks, Computer RNA Cryoelectron Microscopy Protein Structure, Secondary
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Mb-level CpG and TFBS islands visualized by AI and their roles in the nuclear organization of the human genome.

Genes & genetic systems Mar 12, 2020
Unsupervised machine learning that can discover novel knowledge from big sequence data without prior knowledge or particular models is highly desirable for current genome study. We previously established a batch-learning self-organizing map (BLSOM) f...
Heterochromatin Binding Sites Artificial Intelligence Oligonucleotides Humans Centromere Protein Binding CpG Islands Chromosomes, Human Transcription Factors Genome, Human
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Athena: Automated Tuning of k-mer based Genomic Error Correction Algorithms using Language Models.

Scientific reports Nov 6, 2019
The performance of most error-correction (EC) algorithms that operate on genomics reads is dependent on the proper choice of its configuration parameters, such as the value of k in k-mer based techniques. In this work, we target the problem of findin...
Oligonucleotides High-Throughput Nucleotide Sequencing Datasets as Topic Automation Base Sequence Sequence Alignment Neural Networks, Computer Algorithms Genomics Natural Language Processing
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Exploration of the nanomedicine-design space with high-throughput screening and machine learning.

Nature biomedical engineering Feb 18, 2019
Only a tiny fraction of the nanomedicine-design space has been explored, owing to the structural complexity of nanomedicines and the lack of relevant high-throughput synthesis and analysis methods. Here, we report a methodology for determining struct...
Cell Line Structure-Activity Relationship Oligonucleotides Alkaline Phosphatase Liposomes Nanomedicine Machine Learning Animals Nanoparticles Humans High-Throughput Screening Assays Nucleic Acids
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Integrating DNA structure switch with branched hairpins for the detection of uracil-DNA glycosylase activity and inhibitor screening.

Talanta Nov 22, 2017
The detection of uracil-DNA glycosylase (UDG) activity is pivotal for its biochemical studies and the development of drugs for UDG-related diseases. Here, we explored an integrated DNA structure switch for high sensitive detection of UDG activity. Th...
G-Quadruplexes Base Pairing Fluorescent Dyes Inverted Repeat Sequences High-Throughput Screening Assays Oligonucleotides Humans DNA Benzothiazoles HeLa Cells MCF-7 Cells Thiazoles Uracil-DNA Glycosidase Enzyme Inhibitors Limit of Detection Spectrometry, Fluorescence
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repDNA: a Python package to generate various modes of feature vectors for DNA sequences by incorporating user-defined physicochemical properties and sequence-order effects.

Bioinformatics (Oxford, England) Dec 10, 2014
UNLABELLED: In order to develop powerful computational predictors for identifying the biological features or attributes of DNAs, one of the most challenging problems is to find a suitable approach to effectively represent the DNA sequences. To facili...
Oligonucleotides Support Vector Machine Humans Software Sequence Analysis, DNA Computational Biology DNA
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Hybrid Modeling of the Reversed-Phase Chromatographic Purification of an Oligonucleotide: Few-Shot Learning From Differentiable Physics Solver-in-the-Loop.

Biotechnology and bioengineering Aug 1, 2025
Hybrid models integrate mechanistic and data-driven components, effectively addressing the challenges of limited process understanding and data availability typical of biopharmaceutical processes. In this study, we applied a hybrid modeling framework...
Neural Networks, Computer Oligonucleotides Chromatography, Reverse-Phase
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