29,097 results match your criteria dna material

Informatics Methods and Infrastructure Needed to Study Factors Associated with High Incidence of Pediatric Brain and Central Nervous System Tumors in Kentucky.

J Registry Manag 2020 ;47(3):127-134

Pediatric brain and central nervous system tumors (PBCNSTs) are the most common solid tumors and are the leading cause of disease-related death in US children. PBCNST incidence rates in Kentucky are significantly higher than in the United States as a whole, and are even higher among Kentucky's Appalachian children. To understand and eventually eliminate such disparities, population-based research is needed to gain a thorough understanding of the epidemiology and etiology of the disease. Read More

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DNA Extraction and Host Depletion Methods Significantly Impact and Potentially Bias Bacterial Detection in a Biological Fluid.

mSystems 2021 Jun 15:e0061921. Epub 2021 Jun 15.

Department of Food Science, Cornell University, Ithaca, New York, USA.

Untargeted sequencing of nucleic acids present in food can inform the detection of food safety and origin, as well as product tampering and mislabeling issues. The application of such technologies to food analysis may reveal valuable insights that are simply unobtainable by targeted testing, leading to the efforts of applying such technologies in the food industry. However, before these approaches can be applied, it is imperative to verify that the most appropriate methods are used at every step of the process: gathering of primary material, laboratory methods, data analysis, and interpretation. Read More

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Designer Nanomaterials through Programmable Assembly.

Angew Chem Int Ed Engl 2021 Jun 14. Epub 2021 Jun 14.

Brookhaven National Laboratory, CFN, UNITED STATES.

Nanoparticles have long been recognized for their unique properties arising from their nanoscale morphology. While these phenomena offer exciting potential applications across optics, electronics, magnetism, and catalysis, these specific functions often require a designed organization of particles. This organizational control includes the type of order as well as placement and orientation of particles of the same or different kinds relative to each other. Read More

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Rapid and simple detection of in strawberry using a coupled recombinase polymerase amplification-lateral flow strip assay.

Phytopathol Res 2021 10;3(1):12. Epub 2021 Jun 10.

College of Plant Protection, Nanjing Agricultural University, Nanjing, 210095 China.

is a devastating pathogen that infects a wide range of plants and causes Phytophthora rot disease, which has resulted in great economic losses in crop production. Therefore, the rapid and practicable detection of is important for disease monitoring and forecasting. In this study, we developed a lateral flow recombinase polymerase amplification (LF-RPA) assay for the sensitive visual detection of . Read More

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Homeobox gene amplification and methylation in oral squamous cell carcinoma.

Arch Oral Biol 2021 Jun 8;129:105195. Epub 2021 Jun 8.

Department of Oral Pathology, School of Dentistry, University of São Paulo, São Paulo, Brazil. Electronic address:

Objectives: Investigate the DNA copy number and the methylation profile of the homeobox genes HOXA5, HOXA7, HOXA9, HOXB5, HOXB13, HOXC12, HOXC13, HOXD10, HOXD11, IRX4 and ZHX1, and correlate them with clinicopathological parameters and overall survival.

Material And Methods: DNA from OSCC samples and surgical margins were submitted to DNA amplification by qPCR and to DNA methylation analysis using a DNA Methylation PCR Array System.

Results: HOXA5, HOXB5 and HOXD10 were amplified in surgical margins while HOXA9, HOXB13 and IRX4 were amplified in OSCC. Read More

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Design Verification as Foundation for Advancing DNA Nanotechnology Applications.

Leo Y T Chou

ACS Nano 2021 Jun 14. Epub 2021 Jun 14.

Institute of Biomedical Engineering, University of Toronto, Toronto, Ontario M5S 3G9, Canada.

Advances in the field of structural DNA nanotechnology have produced a growing number of nanostructures that are now being developed for diverse applications. Often, these nanostructures contain not only nucleic acids but also a myriad of other classes of molecules and materials such as proteins, lipids, sugars, and synthetic polymers. Increasing structural and compositional complexity promises new functional capabilities, but also demands new tools for design verification. Read More

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3D-Printed Drug Capture Materials Based on Genomic DNA Coatings.

ACS Appl Mater Interfaces 2021 Jun 14. Epub 2021 Jun 14.

Division of Engineering and Applied Science, California Institute of Technology, Pasadena, California 91125, United States.

The toxic side effects of chemotherapy have long limited its efficacy, prompting expensive and long-drawn efforts to develop more targeted cancer therapeutics. An alternative approach to mitigate off-target toxicity is to develop a device that can sequester chemotherapeutic agents from the veins that drain the target organ before they enter systemic circulation. This effectively localizes the chemotherapy to the target organ, minimizing any hazardous side effects. Read More

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DNA nanotechnology provides an avenue for the construction of programmable dynamic molecular systems.

Biophys Physicobiol 2021 27;18:116-126. Epub 2021 Apr 27.

Frontier Research Institute for Interdisciplinary Sciences, Tohoku University, Sendai, Miyagi 980-8578, Japan.

Self-assembled supramolecular structures in living cells and their dynamics underlie various cellular events, such as endocytosis, cell migration, intracellular transport, cell metabolism, and gene expression. Spatiotemporally regulated association/dissociation and generation/degradation of assembly components is one of the remarkable features of biological systems. The significant advancement in DNA nanotechnology over the last few decades has enabled the construction of various-shaped nanostructures via programmed self-assembly of sequence-designed oligonucleotides. Read More

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A simple and selective electrochemical magneto-assay for sea lice eDNA detection developed with a Quality by Design approach.

Sci Total Environ 2021 Jun 1;791:148111. Epub 2021 Jun 1.

Department of Chemistry "Ugo Schiff", University of Florence, Via della Lastruccia 3, 50019 Sesto Fiorentino, Fi, Italy; "Nanobiosens" Join Lab, University of Florence, Viale Pieraccini 6, 50139 Firenze, Italy. Electronic address:

Environmental DNA (eDNA) is a novel, non-invasive sampling procedure that allows the obtaining of genetic material directly from environmental samples without any evidence of biological sources. The eDNA methodology can greatly benefit from coupling it to reliable, portable and cost-effective tools able to perform decentralized measurements directly at the site of need and in resource-limited settings. Herein, we report a simple method for the selective analysis of eDNA using a magneto-assay with electrochemical detection. Read More

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Sequence-Specific Control of Mitochondrial Gene Transcription Using Programmable Synthetic Gene Switches Called MITO-PIPs.

Methods Mol Biol 2021 ;2275:217-225

Institute of Integrated Cell Material Sciences (WPI-iCeMS), Kyoto University Institute for Advanced Study, Kyoto, Japan.

Mitochondria possess multiple copies of mitochondrial DNA (mtDNA) that encode 37 genes and their transcription and replication get controlled by unique molecular codes different from that in the nuclear DNA. The mtDNA has been gaining increased attention as one of the critical therapeutic targets as mutations in them impair the function of mitochondria and cause mitochondrial diseases like MELAS. In this chapter, we describe artificial control of mitochondrial transcription based on mtDNA sequence information with a new type of compounds termed MITO-PIPs, which encompasses two domains: pyrrole-imidazole polyamide as DNA recognition domain and mitochondrial penetrating peptide as the mitochondria-targeting domain. Read More

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January 2021

Damaging effects of TiO nanoparticles on the ovarian cells of Bombyx mori.

Biol Trace Elem Res 2021 Jun 11. Epub 2021 Jun 11.

School of Basic Medicine and Biological Sciences, Soochow University, Suzhou, Jiangsu, 215123, People's Republic of China.

As a new type of biologically compatible material, TiO NPs are widely used in the industry as additives, drug carriers, and components of skin care products. Due to their wide use, residual TiO NPs in the environment are a safety concern that has attracted extensive attention. In this study, the ovarian cell line BmN of the model organism Bombyx mori was used to reveal the damaging effects of TiO NPs exposure. Read More

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Radiogenomic Analysis of Locally Advanced Lung Cancer Based on CT Imaging and Intratreatment Changes in Cell-Free DNA.

Radiol Imaging Cancer 2021 Apr;3(4):e200157

From the Departments of Radiation Oncology (K.J.L., M.N.C., C.D.J., J.W., Y.C., C.W., C.R.K., F.F.Y.), Radiology (K.J.L.), Biostatistics and Bioinformatics (J.G.), and Medicine (A.H.), Duke University School of Medicine, 2301 Erwin Rd, Durham, NC 27710; Department of Electrical and Computer Engineering, Duke University Pratt School of Engineering, Durham, NC (K.J.L.); Radiology Medical Group of Napa, Napa, Calif (M.N.C.); Department of Radiation Oncology, Columbia University School of Medicine, New York, NY (E.X.); and Inivata, Cambridge, England (G.J.).

The radiologic appearance of locally advanced lung cancer may be linked to molecular changes of the disease during treatment, but characteristics of this phenomenon are poorly understood. Radiomics, liquid biopsy of cell-free DNA (cfDNA), and next-generation sequencing of circulating tumor DNA (ctDNA) encode tumor-specific radiogenomic expression patterns that can be probed to study this problem. Preliminary findings are reported from a radiogenomic analysis of CT imaging, cfDNA, and ctDNA in 24 patients (median age, 64 years; range, 49-74 years) with stage III lung cancer undergoing chemoradiation on a prospective pilot study (NCT00921739) between September 2009 and September 2014. Read More

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Recent advances in DNA walker machines and their applications coupled with signal amplification strategies: A critical review.

Anal Chim Acta 2021 Aug 17;1171:338523. Epub 2021 Apr 17.

Key Laboratory of Analytical Science for Food Safety and Biology (MOE & Fujian Province), Department of Chemistry, Fuzhou University, Fuzhou 350108, People's Republic of China. Electronic address:

DNA walkers, a type of dynamic nanomachines, have become the subject of burgeoning research in the field of biology. These walkers are powered by driving forces based on strand displacement reactions, protein enzyme/DNAzyme reactions and conformational transitions. With the unique properties of high directionality, flexibility and efficiency, DNA walkers move progressively and autonomously along multiple dimensional tracks, offering abundant and promising applications in biosensing, material assembly and synthesis, and early cancer diagnosis. Read More

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Culture-independent genotyping revealed three strain clusters in a potential Neisseria gonorrhoeae outbreak in young heterosexuals (<25), the Netherlands, October 2017 to March 2019.

Sex Transm Dis 2021 Jan 12. Epub 2021 Jan 12.

1 Department of Medical Microbiology, Care and Public Health Research Institute (CAPHRI), Maastricht University Medical Centre (MUMC+), PO Box 5800, 6202 AZ Maastricht, the Netherlands 2 Department of Sexual Health, Infectious Diseases and Environmental Health, South Limburg Public Health Service, PO Box 33, 6400 AA Heerlen, the Netherlands 3 Department of Health Promotion, Care and Public Health Research Institute (CAPHRI), Maastricht University Medical Centre (MUMC+), PO Box 5800, 6202 AZ Maastricht, the Netherlands.

Background: Investigation was undertaken to determine the genetic relatedness of Neisseria gonorrhoeae (NG) isolates of young (<25) heterosexuals of a potential outbreak from October 2017 to March 2019 in South-Limburg, the Netherlands.

Methods: Data and residual sample material of routine diagnostics were retrieved for outbreak cases (78/81), young heterosexuals at baseline (January 2016 to September 2017, n=30), and men who have sex with men (MSM) (2018, n=47). Total DNA was isolated, and NG was genotyped using culture-free NG multi-antigen sequence typing. Read More

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January 2021

Validation of a Triplex Quantitative Polymerase Chain Reaction Assay for Detection and Quantification of Traditional Protein Sources, L. and (L.) Merr., in Protein Powder Mixtures.

Front Plant Sci 2021 24;12:661770. Epub 2021 May 24.

Natural Health Product Research Alliance, College of Biological Sciences, University of Guelph, Guelph, ON, Canada.

Several botanicals have been traditionally used as protein sources, including the leguminous L. and (L.) Merr. Read More

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Selective DNA and Protein Isolation From Marine Macrophyte Surfaces.

Front Microbiol 2021 24;12:665999. Epub 2021 May 24.

Center for Marine Research, Ruđer Bošković Institute, Rovinj, Croatia.

Studies of unculturable microbes often combine methods, such as 16S rRNA sequencing, metagenomics, and metaproteomics. To apply these techniques to the microbial community inhabiting the surfaces of marine macrophytes, it is advisable to perform a selective DNA and protein isolation prior to the analysis to avoid biases due to the host material being present in high quantities. Two protocols for DNA and protein isolation were adapted for selective extractions of DNA and proteins from epiphytic communities inhabiting the surfaces of two marine macrophytes, the seagrass and the macroalga . Read More

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Profiling and Regulating Proteins That Adsorb to DNA Materials in Human Serum.

Anal Chem 2021 Jun 9. Epub 2021 Jun 9.

Institute of Molecular Medicine, Department of Urology, Shanghai Key Laboratory for Nucleic Acid Chemistry and Nanomedicine, State Key Laboratory of Oncogenes and Related Genes, Renji Hospital, School of Medicine, Shanghai Jiao Tong University, Shanghai 200127, China.

DNA aptamers and framework DNA nanostructures are emerging DNA materials with many appealing biological applications including biosensing, bioimaging, drug delivery, and so forth. When placed in physiological fluids, they inevitably encounter biomolecules (majorly proteins) and form complexes that largely affect their biological fate. Nevertheless, little is known regarding the quantitative profile of proteins that adsorb to DNA aptamers and DNA nanostructures in biological environments, and there are no potent strategies to regulate protein profiles. Read More

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Preparation and Standardization of Nosodes Sourced from Klebsiella Pneumoniae, Salmonella Typhi, Neisseria Gonorrhoeae and Candida Albicans Strains.

Homeopathy 2021 Jun 9. Epub 2021 Jun 9.

Research Department, Life Force Foundation Trust, Mumbai, Maharashtra, India.

Background:  Homeopathic nosodes prepared from organisms and pathological tissues have shown biological effects, encouraging more research. There is a need to develop some new nosodes systematically and to re-make others that were developed over a century ago. In our program of work on nosodes, the bacterial strains (BAA 2146), and (ATCC 43069), and the single-celled fungus (24433, 26790, and 60193) have been identified for preparation. Read More

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A Novel L1 Linker Mutation in DES Resulted in Total Absence of Protein.

J Mol Neurosci 2021 Jun 9. Epub 2021 Jun 9.

Department of Neuropathology, National Institute of Mental Health and Neuro Sciences, Bengaluru, Karnataka, 560 029, India.

Desminopathies (MIM*601419) are clinically heterogeneous, manifesting with myopathy and/or cardiomyopathy and with intra-sarcoplasmic desmin-positive deposits. They have either an autosomal dominant (AD) or recessive (AR) pattern of inheritance. Desmin is a crucial intermediate filament protein regulating various cellular functions in muscle cells. Read More

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Metagenome-assembled genomes contributes to unravel the microbiome of cocoa fermentation.

Appl Environ Microbiol 2021 Jun 9:AEM0058421. Epub 2021 Jun 9.

Faculdade de Ciências Farmacêuticas de Ribeirão Preto - Universidade de São Paulo.

Metagenomic studies about cocoa fermentation have mainly reported on the analysis of short reads for determination of Operational Taxonomic Units. However, it is also important to determine MAGs, which are genomes deriving from the assembly of metagenomics. For this research, all the cocoa metagenomes from public databases were downloaded, resulting in five datasets: one from Ghana and four from Brazil. Read More

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The influence of preincubation time of prepared sperm before IVF on fertilization, embryo developmental competence and the reproductive outcomes.

Ginekol Pol 2021 Jun 9. Epub 2021 Jun 9.

Department of Obstetrics and Gynecology, The First Medical Center of PLA General Hospital, Medical School of Chinese PLA, Beijing, China.

Objectives: It has been provided that if incubation time of prepared sperm can affect sperm motility and DNA fragment, but little is known about the influence of sperm preincubation time (SI) on the sperm's fertilizing ability, subsequent embryonic development and pregnancy outcomes in in vitro fertilization (IVF). The aim of this study was to explore the association of SI with fertilization rate, embryo development and clinical outcomes in IVF, further, to find an optimal preincubation time for prepared sperm before insemination in IVF.

Material And Methods: This retrospective cohort study included a total of 1453 infertile couples undergoing IVF in our center performed from January 2016 to January 2019. Read More

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The complete chloroplast genome sequence of .

Mitochondrial DNA B Resour 2021 May 21;6(6):1687-1688. Epub 2021 May 21.

Rice Research Institute & Guangdong Key Laboratory of New Technology in Rice Breeding, Guangdong Academy of Agricultural Sciences, Guangzhou, China.

is a new species in the family of Lauraceae with high content of D-borneol, which is an important raw material of premium spices and medicine widely used in China. The genome and the molecular phylogenetic relation of this novel species had not been analyzed before. In this study, we present the complete sequence of chloroplast genome of as well as its genome annotation. Read More

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Characterization of the complete chloroplast genome of Turcz.

Mitochondrial DNA B Resour 2021 May 17;6(5):1652-1653. Epub 2021 May 17.

The Fourth Hospital of Changsha, Changsha, PR China.

Turcz. is an important Chinese herbal medicine and the raw material of the medicine ingrediente (Chinese yam polysaccharide). It belongs to , which has 60 species and distribute in middle and southeast of China. Read More

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Detection of cytomegalovirus in plasma of patient’s HIV by duplex real time PCR

Rev Med Inst Mex Seguro Soc 2020 04 13;58(2):154-160. Epub 2020 Apr 13.

Instituto Mexicano del Seguro Social, Centro Médico Nacional Siglo XXI, Hospital de Oncología, Unidad de Investigación Médica en Enfermedades Oncológicas. Ciudad de México, México.

Background: Cytomegalovirus (CMV) is able to cause serious and even deadly diseases in immunocompromised patients. It is important to have a sensitive, specific and molecular viral tests for its detection, using as targets, key genes for viral replication. The following genes have been used in the molecular detection of CMV: UL122 (replication) and UL83 (most abundant protein of the tegument). Read More

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Co-assembly and multicomponent hydrogel formation upon mixing nucleobase-containing peptides.

Nanoscale 2021 Jun;13(23):10566-10578

Université de Lorraine, CNRS, LCPM, F-54000 Nancy, France.

Peptide-based hydrogels are physical gels formed through specific supramolecular self-assembling processes, leading to ordered nanostructures which constitute the water entrapping scaffold of the soft material. Thanks to the inherent properties of peptides, these hydrogels are highly considered in the biomedical domain and open new horizons in terms of application in advanced therapies and biotechnologies. The use of one, and only one, native peptide to formulate a gel is by far the most reported approach to design such materials, but suffers from several limitations, including in terms of mechanical properties. Read More

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Intrinsic and extrinsic factors that may influence DNA preservation in skeletal remains: A review.

Forensic Sci Int 2021 Jun 4;325:110859. Epub 2021 Jun 4.

BIOMICs Research Group, Lascaray Research Center, University of the Basque Country UPV/EHU, Vitoria-Gasteiz, Spain. Electronic address:

The identification of skeletal human remains, severely compromised by putrefaction, or highly deteriorated, is important for legal and humanitarian reasons. There are different tools that can help in the identification process such as anthropological and genetic studies. The success observed during the last decade in genetic analysis of skeletal remains has been possible especially due to the refinements of DNA extraction and posterior analysis techniques. Read More

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DNA damage checkpoint activation affects peptidoglycan synthesis and late divisome components in Bacillus subtilis.

Mol Microbiol 2021 Jun 7. Epub 2021 Jun 7.

Department of Molecular, Cellular, and Developmental Biology, University of Michigan, Ann Arbor, MI, 48109, United States.

During normal DNA replication, all cells encounter damage to their genetic material. As a result, organisms have developed response pathways that provide time for the cell to complete DNA repair before cell division occurs. In Bacillus subtilis, it is well established that the SOS-induced cell division inhibitor YneA blocks cell division after genotoxic stress; however, it remains unclear how YneA enforces the checkpoint. Read More

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Comparison of two targeted ultra-deep sequencing technologies for analysis of plasma circulating tumour DNA in endocrine-therapy-resistant breast cancer patients.

Breast Cancer Res Treat 2021 Jun 7. Epub 2021 Jun 7.

Department of Genetics and Genome Biology and Leicester Cancer Research Centre, College of Life Sciences, University of Leicester, University Road, Leicester, LE1 7RH, UK.

Purpose: There is growing interest in the application of circulating tumour DNA (ctDNA) as a sensitive tool for monitoring tumour evolution and guiding targeted therapy in patients with cancer. However, robust comparisons of different platform technologies are still required. Here we compared the InVisionSeq™ ctDNA Assay with the Oncomine™ Breast cfDNA Assay to assess their concordance and feasibility for the detection of mutations in plasma at low (< 0. Read More

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Cadophora sabaouae sp. nov. and Phaeoacremonium species associated with Petri disease on grapevine propagation material and young grapevines in Algeria.

Plant Dis 2021 Jun 7. Epub 2021 Jun 7.

Mendelova univerzita v Brne, 48269, MENDELEUM - Institute of Genetics, Mendel University in Brno, Faculty of Horticulture, Mendeleum - Institute of Genetics, Valticka 334, 69144, Lednice, Czech Republic, Brno, Czech Republic, 69144;

A field survey conducted on asymptomatic grapevine propagation material from nurseries and symptomatic young grapevines throughout different regions of Algeria yielded a collection of 70 Phaeoacremonium-like isolates and three Cadophora-like isolates. Based on morphology and DNA sequence data of β-tubulin (tub2) and actin (act), five Phaeoacremonium species were identified including Phaeoacremonium minimum (22 isolates), P. venezuelense (19 isolates), P. Read More

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DNA Origami Penetration in Cell Spheroid Tissue Models is Enhanced by Wireframe Design.

Adv Mater 2021 Jun 6:e2008457. Epub 2021 Jun 6.

Department of Medical Biochemistry and Biophysics, Karolinska Institutet, Stockholm, SE-17177, Sweden.

As DNA origami applications in biomedicine are expanding, more knowledge is needed to assess these structures' interaction with biological systems. Here, uptake and penetration in cell and cell spheroid tissue models (CSTMs) are studied to elucidate whether differences in internal structure can be a factor in the efficacy of DNA-origami-based delivery. Two structures bearing largely similar features in terms of both geometry and molecular weight, but with different internal designs-being either compact, lattice-based origami or following an open, wireframe design-are designed. Read More

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