Logical Analysis of Multiple Single-Nucleotide-Polymorphisms with Programmable DNA Molecular Computation for Clinical Diagnostics.

Analyzing complex single-nucleotide-polymorphism (SNP) combinations in the genome is important for research and clinical applications, given that different SNP combinations can generate different phenotypic consequences. Recent works have shown that DNA-based molecular computing is powerful for simultaneously sensing and analyzing complex molecular information. Here, we designed a switching circuit-based DNA computational scheme that can integrate the sensing of multiple SNPs and simultaneously perform logical analysis of the detected SNP information to directly report clinical outcomes. As a demonstration, we successfully achieved automatic and accurate identification of 21 different blood group genotypes from 83 clinical blood samples with 100 % accuracy compared to sequencing data in a more rapid manner (3 hours). Our method enables a new mode of automatic and logical sensing and analyzing subtle molecular information for clinical diagnosis, as well as guiding personalized medication.

An Intelligent DNA Nanorobot for Autonomous Anticoagulation.

Artificial nanorobots that can recognize molecular triggers and respond with programable operations provide an inspiring proof-of-principle for personalized theragnostic applications. We have constructed an intelligent DNA nanorobot for autonomous blood anticoagulation in human plasma. The DNA nanorobot comprises a barrel-shaped DNA nanostructure as the framework and molecular reaction cascades embedded as the computing core. This nanorobot can intelligently sense the concentration of thrombin in the local environment and trigger an autonomous anticoagulation when excess thrombin is present. The triggering concentration of thrombin at which the nanorobot responds can be tuned arbitrarily to avoid possible side effects induced by excess thrombin. This makes the nanorobot useful for autonomous anticoagulation in various medical scenarios and inspires a more efficient and safer strategy for future personalized medicine.

Phosphonic acid functionalized asymmetric phthalocyanines: synthesis, modification of indium tin oxide, and charge transfer.

Metalated and free-base A(3)B-type asymmetric phthalocyanines (Pcs) bearing, in the asymmetric quadrant, a flexible alkyl linker of varying chain lengths terminating in a phosphonic acid (PA) group have been synthesized. Two parallel series of asymmetric Pc derivatives bearing aryloxy and arylthio substituents are reported, and their synthesis and characterization through NMR, combustion analysis, and MALDI-MS are described. We also demonstrate the modification of indium tin oxide (ITO) substrates using the PA functionalized asymmetric Pc derivatives and monitoring their electrochemistry. The PA functionalized asymmetric Pcs were anchored to the ITO surface through chemisorption and their electrochemical properties characterized using cyclic voltammetry to investigate the effects of PA structure on the thermodynamics and kinetics of charge transfer. Ionization energies of the modified ITO surfaces were measured using ultraviolet photoemission spectroscopy.

Poly(N-isopropylacrylamide)-tethered silicate platelets for colloidal dispersion of conjugated polymers with thermoresponsive and photoluminescence properties.

Poly(N-isopropylacrylamide)-tethered nanosilicate platelets (NSP-PNiPAAm) have been synthesized by covalently bonding the polymer onto the surfaces of silicate platelets of nanometer dimension, and this class of nanohybrids has proved to be effective for dispersing water-insoluble conjugated polymers (CPs). Simple pulverization of poly[2-methoxy-5-(2'-ethylhexyloxy)-1,4-phenylenevinylene] (MEH-PPV) with NSP-PNiPAAm rendered the powder material dispersible in water, whereupon it displayed thermoresponsive properties at 37.5 degrees C and CP particle size variation between ca. 50 and 100 nm by SEM observation. The same dispersion had a maximum UV-vis absorption at 524 nm and PL emission at 605 nm. The PL emission was significantly higher at 4 degrees C than at 45 degrees C. Being coated as a film, it showed an orange emission under an ultraviolet lamp, consistent with the PL measurement. The water-borne process of dispersing the CP in aqueous media by the presence of NSP-PNiPAAm and followed by film formation to demonstrate a unique method of manipulating hydrophobic conjugated polymers in a facile manner.

Cancer diagnosis with DNA molecular computation.

Early and precise cancer diagnosis substantially improves patient survival. Recent work has revealed that the levels of multiple microRNAs in serum are informative as biomarkers for the diagnosis of cancers. Here, we designed a DNA molecular computation platform for the analysis of miRNA profiles in clinical serum samples. A computational classifier is first trained in silico using miRNA profiles from The Cancer Genome Atlas. This is followed by a computationally powerful but simple molecular implementation scheme using DNA, as well as an effective in situ amplification and transformation method for miRNA enrichment in serum without perturbing the original variety and quantity information. We successfully achieved rapid and accurate cancer diagnosis using clinical serum samples from 22 healthy people (8) and people with lung cancer (14) with an accuracy of 86.4%. We envision that this DNA computational platform will inspire more clinical applications towards inexpensive, non-invasive and rapid disease screening, classification and progress monitoring.

Thermo-responsive nanoarrays of silver nanoparticle, silicate nanoplatelet and PNiPAAm for the antimicrobial applications.

The ternary nanohybrids of silver nanoparticles (AgNPs) in combination with silicate nanoplatelets (NSP) and thermally sensitive poly(N-isopropylacrylamide) (PNiPAAm) were fabricated for antibacterial applications. PNiPAAm were chemically grafted on the NSP by atom-transfer radical polymerization (ATRP) via polymerizing N-isopropylacrylamide monomers with sol-gel linkers (BBTES). The nanoparticles of AgNPs then were adsorbed on NSP-PNiPAAm nanosheets through in situ reduction reaction of AgNO3 in aqueous dispersion. The particle sizes of AgNPs were estimated to be 7-12nm in diameter with different composition ratios of AgNPs to NSP-PNiPAAm, evaluated by transmission electron microscope (TEM). The nanohybrids of AgNP/NSP-PNiPAAm exhibited the unique property of lowest critical solution temperature (LCST) at 32°C. The thermo-responsive antibacterial efficacy of the ternary nanohybrids was demonstrated by Bacillus subtilis (B. subtilis) and Escherichia coli (E. coli) at lower than the LCST (28°C) and higher than the LCST (37°C). The result show that the great antibacterial ability was observed in the hydrophilic bacteria (B. subtilis) at 28°C. In contrast, the excellent antibacterial ability was found in the hydrophobic bacteria (E. coli) at 37°C, due to the surface energy modulation of AgNP/NSP-PNiPAAm. The tailoring of silver-containing ternary nanohybrids allow the new antibacterial nanomaterials to selectively affect the surface of bacteria by varying temperature.

Interaction of novel fluorescent nanoscale ionic silicate platelets with biomaterials for biosensors.

The nano silicate platelets (NSPs) of 100 × 100 × 1 nm(3) in dimension were previously derived from the exfoliation of naturally occurring sodium montmorillonite clay, and their affinity to the surface of bacteria was revealed. The unique characteristics of ionic charges (≡Si-O-Na(+)) and the presence of siloxanol functionalities (≡Si-OH) allowed the organic modification of NSP to form NSP-tethering poly(hydroxyethyl methacrylate) (PHEMA) pendants through a sol-gel and living polymerization. By attaching nathphalimide-type fluorescence onto NSP-PHEMA, a new class of fluorescent organic-inorganic hybrid (NSP-PHEMA-HA), was prepared and its photoluminescence (PL) and bacterial trapping properties were characterized. The investigation of PL emission revealed that the fluorescent NSP hybrids could be used to detect bacteria and possess the potential for the biosensor applications.

Effect of grafting architecture on the surfactant-like behavior of clay-poly(NiPAAm) nanohybrids.

A new class of clay-polymer nanohybrids was synthesized by grafting poly(N-isopropylacrylamide) (PNiPAAm) on the edge of nanoscale silicate platelets (NSPs) through covalently bonded linkers to form various architectures. The inherent ionic character of NSPs and the organic moieties of isopropyl amide in PNiPAAms impart surface active properties to the nanohybrids. Surface tension and particle size measurements were used to determine the critical micelle concentrations (CMCs) of the nanohybrids. It was found that PNiPAAm brushes grafted onto NSPs with the single-headed linkers are loosely packed and can expand easily in water causing inter-hybrid interactions. In contrast, PNiPAAm brushes grafted onto NSPs with the double-headed linkers may alternatively exhibit intra-hybrid interactions and the hybrids tend to exist in a dispersed state. Consequently, the latter has a higher CMC than the former. In addition, the CMC can be tailored by adjusting the grafting density of the linkers on the NSP surfaces. The densely grafted nanohybrids exhibit close inter-hybrid contact resulting in a lower CMC than that for the sparsely grafted nanohybrids. Molecular simulations were also performed to study the effects of the polymer-grafted architecture and the density of the linkers on the micellar behavior of NSP-PNiPAAm hybrids. The simulation results were found to be in good agreement with the experimental observations. Thus, it is possible to control the surface active properties and aggregation of the clay-PNiPAAm hybrids by manipulating the organic grafting architectures of the silicate platelets.

Electron-Transfer Processes in Zinc Phthalocyanine-Phosphonic Acid Monolayers on ITO: Characterization of Orientation and Charge-Transfer Kinetics by Waveguide Spectroelectrochemistry.

Using a monolayer of zinc phthalocyanine (ZnPcPA) tethered to indium tin oxide (ITO) as a model for the donor/transparent conducting oxide (TCO) interface in organic photovoltaics (OPVs), we demonstrate the relationship between molecular orientation and charge-transfer rates using spectroscopic, electrochemical, and spectroelectrochemical methods. Both monomeric and aggregated forms of the phthalocyanine (Pc) are observed in ZnPcPA monolayers. Potential-modulated attenuated total reflectance (PM-ATR) measurements show that the monomeric subpopulation undergoes oxidation/reduction with ks,app = 2 × 10(2) s(-1), independent of Pc orientation. For the aggregated ZnPcPA, faster orientation-dependent charge-transfer rates are observed. For in-plane-oriented Pc aggregates, ks,app = 2 × 10(3) s(-1), whereas for upright Pc aggregates, ks,app = 7 × 10(2) s(-1). The rates for the aggregates are comparable to those required for redox-active interlayer films at the hole-collection contact in organic solar cells.

Synthesis of acrylic copolymers consisting of multiple amine pendants for dispersing pigment.

A class of acrylic copolymers with narrow molecular weight distribution from butyl methacrylate and glycidyl methacrylate comonomers via atom transfer radical polymerization was synthesized. Various types of polarities including hydroxyl-amines, glycols, and carboxylic acids were then grafted onto the oxirane side groups. The resultant comb-like copolymers with different polar pendants were tested for homogenizing a representative Yellow pigment in 1,6-hexanediol diacrylate medium. Specifically, the polyacrylates with 1,3-diamine pendants (7-10 multiplicity on each polymer strain) enabled to homogeneously disperse the pigment than the analogous copolymers with hydroxyl or carboxylic acid groups. Ultimately, the pigment dispersion with an average size of ca. 20 nm in diameter, high transmittance and low viscosity was achieved. Furthermore, the pigment dispersion was allowed to UV-cure into a film, and for the first time, the primary structures of the pigment particles (ca. 50 nm in diameter) were observed by transmission electronic microscope.