3,134 publications from this institution
Abstract Single-nucleotide variants (SNVs) are the most common variations in the human genome. Recently developed methods for SNV detection from single-cell DNA sequencing (scDNAseq) data, such as SCIΦ and scVILP, leverage the evolutionary history of the cells to overcome the technical errors associated with single-cell sequencing protocols. Despite being accurate, these methods are not scalable to the extensive genomic breadth of single-cell whole-genome (scWGS) and whole-exome sequencing (scWES) data. Here we report on a new scalable method, Phylovar, which extends the phylogeny-guided variant calling approach to sequencing datasets containing millions of loci. Through benchmarking on simulated datasets under different settings, we show that, Phylovar outperforms SCIΦ in terms of running time while being more accurate than Monovar (which is not phylogeny-aware) in terms of SNV detection. Furthermore, we applied Phylovar to two real biological datasets: an scWES triple-negative breast cancer data consisting of 32 cells and 3375 loci as well as an scWGS data of neuron cells from a normal human brain containing 16 cells and approximately 2.5 million loci. For the cancer data, Phylovar detected somatic SNVs with high or moderate functional impact that were also supported by bulk sequencing dataset and for the neuron dataset, Phylovar identified 5745 SNVs with non-synonymous effects some of which were associated with neurodegenerative diseases. We implemented Phylovar and made it publicly available at https://github.com/mae6/Phylovar.git .
Objective To evaluate the degree of peripheral vasodilation induced by dexmedetomidine and midazolam in the patients undergoing lower extremity surgery. Methods One hundred patients of both sexes, aged 27-64 yr, with body mass index of 20-30 kg/m2, of American Society of Anesthesiologists physical status Ⅰ or Ⅱ, undergoing elective lower extremity surgery under epidural anesthesia, were randomly divided into 4 groups(n=25 each): dexmedetomidine group(group D), compensatory volume expansion+ dexmedetomidine group(group CVE+ D), midazolam group(group M), and compensatory volume expansion + midazolam group(group CVE+ M). In D and CVE+ D groups, dexmedetomidine was infused over 5 min in a loading dose of 0.5 μg/kg, followed by an infusion of 0.3-0.6 μg·kg-1·h-1 until Observer's Assessment of Alertness/Sedation (OAA/S)score reached 3.In M and CVE+ M groups, midazolam was injected over 5 min in a dose of 0.05 mg/kg, followed by an infusion of 0.03-0.10 μg·kg-1·h-1 until OAA/S score reached 3.In CVE+ D and CVE+ M groups, compensatory volume expansion was performed at the same time as dexmedetomidine and midazolam were infused, 6% hydroxyethyl starch 130/0.4 and sodium chloride solution was infused intravenously at a rate of 0.5 ml·kg-1·min-1, and the total volume infused was 7 ml/kg.Before injection of dexmedetomidine or midazolam, and when OAA/S score reached 3, arterial blood samples were collected to determine the blood glucose concentration.Then 50% glucose 10 ml was injected intravenously, and 3 min later, arterial blood samples were collected again to determine the blood glucose concentration.According to the initial distribution volume of glucose, the degree of glucose dilution was determined to reflect the degree of peripheral vasodilation. Results The degree of peripheral vasodilation was(8.5±0.5)%, (8.4±0.4)%, (0.9±0.5)% and(0.8±0.5)% in D, CVE+ D, M and CVE+ M groups, respectively.There was no significant difference in the degree of peripheral vasodilation between D and CVE+ D groups, and between M and CVE+ M groups. Conclusion The degree of peripheral vasodilation induced by dexmedetomidine is about 8.5%, and by midazolam is only about 0.9% in the patients undergoing lower extremity surgery. Key words: Dexmedetomidine; Midazolam; Conscious sedation; Peripheral vasodilation
Abstract This work focuses on the systematic investigation of the shape, size, and composition‐controlled synthesis of perovskite nanocrystals (NCs) under inert gas‐free conditions and using pre‐synthesized precursor stock solutions. In the case of CsPbBr 3 NCs, we find that the lowering of reaction temperature from ∼175 to 100 °C initially leads to a change of morphology from bulk‐like 3D nanocubes to 0D nanocubes with 3D‐quantum confinement, while at temperatures below 100 °C the reaction yields 2D nanoplatelets (NPls) with 1D‐quantum confinement. However, to our surprise, at higher temperatures (∼215 °C), the reaction yields CsPbBr 3 hexapod NCs, which have been rarely reported. The synthesis is scalable, and their halide composition is tunable by simply using different combinations of precursor solutions. The versatility of the synthesis is demonstrated by applying it to relatively less explored shape‐controlled synthesis of FAPbBr 3 NCs. Despite the synthesis carried out in the air, both the inorganic and hybrid perovskite NCs exhibit nearly‐narrow emission without applying any size‐selective separation, and it is precisely tunable by controlling the reaction temperature.
The effective production of xylooligosaccharides (XOs) from rice straw was investigated. Rice straw contains rich hemicellulose which can be hydrolyzed by enzyme; the XOs were obtained under hydrothermal conditions. To improve the productivity of XOs, ultrafiltration was chosen to eliminate xylan in the XOs. Under optimum hydrolysis conditions (1000 IU enzyme/g, 35 0C, 10% substrate concentration, pH 6.5, 6 h), the DP was the lowest. After ultrafiltration, xylan was eliminated. On the basis of experimental data, an industrial XO production process consisting of pretreatment, enzymatic treatment and purification was designed. Using the designed process, 2.9g dry of purified XO was produced from 50g dry rice straw power.
PartitionTest test suite
A new cold vapor technique within the context of green chemistry is described for determination of mercury in liquid samples following high-intensity ultrasonication. Volatile Hg evolved in a sonoreactor without the use of a chemical reducing agent is carried to a quartz cell kept at room temperature for measurement of the atomic absorption. The mechanism involved lies in the reduction of Hg(II) to Hg(0) by reducing gases formed upon sonication and subsequent volatilization of Hg(0) due to the degassing effect caused by the cavitation phenomenon. Addition of a low molecular weight organic acid such as formic acid favors the process, but vapor generation also occurs from Hg solutions in ultrapure water. The detection limit of Hg was 0.1 microg/L, and the repeatability, expressed as relative standard deviation, was 4.4% (peak height). Addition of small amounts of oxidizing substances such as the permanganate or dichromate anions completely suppressed the formation of Hg(0), which confirms the above mechanism. Effect of other factors such as ultrasound irradiation time, ultrasound amplitude, and the presence of concomitants are also investigated. Some complexing anions such as chloride favored the stabilization of Hg(II) in solution, hence causing an interference effect on the ultrasound-assisted reduction/volatilization process.
