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Research Progress on the Integrated Detection Technology for Forensic Deoxyribonucleic acid Genetic Markers and ribonucleic acid Molecular Markers

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Journal of Forensic Science and Medicine 2023年第1期9卷 64-69页

作者： Lei Miao Jia-Hui Yuan Ke-Lai Kang Jie Zhao Chi Zhang Le Wang Key Laboratory of Forensic Genetics of Ministry of Public Security Institute of Forensic ScienceMinistry of Public SecurityBeijingChina Department of Forensic Medicine School of Forensic MedicineKunming Medical UniversityKunmingYunnanChina

Deoxyribonucleic acid(DNA)genetic markers and ribonucleic acid(RNA)molecular markers have been widely used in forensic practices including individual identification,parentage testing,body fluid identification,determination of the age of stains,and molecular pathological diagnosis.Variant information of biological evidence and their interrelation could be revealed by the integrated detection of DNA/RNA markers.The integrated detection workflow aims to simplify working procedures,reduce time consuming and save valuable samples collected from crime scenes.Next-generation sequencing(NGS)may be an effective method for integrated DNA/RNA detection.In this review,DNA/RNA co-extraction strategies,simultaneous detection methods based on capillary electrophoresis were summarized.Research on NGS-based integrated detection methods of DNA and RNA markers was reviewed to provide a reference for forensic medicine researches and applications.

关键词： Forensic genetics deoxyribonucleic acid ribonucleic acid integrated detection methods next-generation sequencing

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Sequential extraction of RNA,DNA and protein from cultured cells of the same group

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World Journal of Methodology 2023年第5期13卷 484-491页

作者： Ying-Yu Cui Department of Cell Biology Institute of Medical GeneticsKey Laboratory of Arrhythmias of the Ministry of Education of ChinaTongji University School of MedicineShanghai 200331China

BACKGROUND Efficient extraction of nucleic acids and proteins(ENAP)from cells is a prerequisite for precise annotation of gene function,and has become laboratory routine for revealing the mysteries of life.However,cell samples are often from different culture dishes,resulting in inevitable experimental errors and sometimes poor repeatability.AIM To explore a method to improve the efficiency of ENAP,minimizing errors in ENAP processes,enhancing the reliability and repeatability of subsequent experimental results.METHODS A protocol for the sequential isolation of RNA,DNA,and proteins from the same cultured HepG2 cells using RNAzol reagent is presented here.The first step involves culturing HepG2 cells to the exponential phase,followed by the sequential isolation of RNA,DNA,and proteins from the same cultured cells in the second step.The yield of nucleic acids and proteins is detected in the third step,and their purity and integrity are verified in the last step.RESULTS The procedure takes as few as 3-4 d from the start to quality verification and is highly efficient.In contrast to the existing kits and reagents,which are primarily based on independent isolation,this RNAzol reagent-based method is characterized by the sequential isolation of RNA,DNA,and proteins from the same cells,and therefore saves time,and has low cost and high efficiency.CONCLUSION The RNA,DNA,and proteins isolated using this method can be used for reverse transcription-polymerase chain reaction,polymerase chain reaction,and western blotting,respectively.

关键词： Sequential extraction ribonucleic acid Deoxyribonucleic acid Protein Cultured cells

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A study of different annealing schedules in SARNA-predict A permutation based SA algorithm for RNA folding

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International Journal of Intelligent Computing and Cybernetics 2015年第2期8卷 152-171页

作者： Herbert H.Tsang Kay C.Wiese Applied Research Lab Trinity Western UniversityLangleyCanada School of Computing Science Simon Fraser UniversitySurreyCanada

Purpose–The purpose of this paper is to present a study of the effect of different types of annealing schedules for a ribonucleic acid(RNA)secondary structure prediction algorithm based on simulated annealing(SA).Design/methodology/approach–An RNA folding algorithm was implemented that assembles the final structure from potential substructures(helixes).Structures are encoded as a permutation of helixes.An SA searches this space of permutations.Parameters and annealing schedules were studied and fine-tuned to optimize algorithm performance.Findings–In comparing with mfold,the SA algorithm shows comparable results(in terms of F-measure)even with a less sophisticated thermodynamic model.In terms of average specificity,the SA algorithm has provided surpassing results.Research limitations/implications–Most of the underlying thermodynamic models are too simplistic and incomplete to accurately model the free energy for larger structures.This is the largest limitation of free energy-based RNA folding algorithms in general.Practical implications–The algorithm offers a different approach that can be used in practice to fold RNA sequences quickly.Originality/value–The algorithm is one of only two SA-based RNA folding algorithms.The authors use a very different encoding,based on permutation of candidate helixes.The in depth study of annealing schedules and other parameters makes the algorithm a strong contender.Another benefit is that new thermodynamic models can be incorporated with relative ease(which is not the case for algorithms based on dynamic programming).

关键词： Annealing schedule Simulated annealing RNA secondary structure prediction ribonucleic acid RNA folding Permutation

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