Decision Theory-Based COI-SNP Tagging Approach for 126 Scombriformes Species Tagging

The mitochondrial gene cytochrome c oxidase I (COI) is commonly used for DNA barcoding in animals. However, most of the COI barcode nucleotides are conserved and sequences longer than about 650 base pairs increase the computational burden for species identification. To solve this problem, we propose a decision theory-based COI SNP tagging (DCST) approach that focuses on the discrimination of species using single nucleotide polymorphisms (SNPs) as the variable nucleotides of the sequences of a group of species. Using the example of 126 teleost mackerel fish species (order: Scombriformes), we identified 281 SNPs by alignment and trimming of their COI sequences. After decision rule making, 49 SNPs in 126 fish species were determined using the scoring system of the DCST approach. These COI-SNP barcodes were finally transformed into one-dimensional barcode images. Our proposed DCST approach simplifies the computational complexity and identifies the most effective and fewest SNPs to resolve or discriminate species for species tagging

Serum Bone Resorption Markers after Parathyroidectomy for Renal Hyperparathyroidism: Correlation Analyses for the Cross-Linked N-telopeptide of Collagen I and Tartrate-Resistant Acid Phosphatase

Patients on long-term dialysis may develop secondary hyperparathyroidism (SHPT) with increased serum concentrations of bone resorption markers such as the cross-linked N-telopeptide of type I collagen (NTX) and type-5b tartrate-resistant acid phosphatase (TRAP). When SHPT proves refractory to treatment, parathyroidectomy (PTX) may be needed. Renal patients on maintenance HD who received PTX for refractory SHPT (n=23) or who did not develop refractory SHPT (control subjects; n=25) were followed prospectively for 4 weeks. Serum intact parathyroid hormone (iPTH), NTX, TRAP, and bone alkaline phosphatase (BAP) concentrations were measured serially and correlation analyses were performed. iPTH values decreased rapidly and dramatically. BAP values increased progressively with peak increases observed at 2 weeks after surgery. NTX and TRAP values decreased concurrently and progressively through 4 weeks following PTX. A significant correlation between TRAP and NTX values was observed before PTX but not at 4 weeks after PTX. Additionally, the fractional changes in serum TRAP were larger than those in serum NTX at all times examined after PTX. Serum iPTH, TRAP, and NTX values declined rapidly following PTX for SHPT. Serum TRAP values declined to greater degrees than serum NTX values throughout the 4-week period following PTX

One-pot synthesis of poly (3,4-ethylenedioxythiophene)-Pt nanoparticle composite and its application to electrochemical H2O2 sensor.

RIGHTS : This article is licensed under the BioMed Central licence at http://www.biomedcentral.com/about/license which is similar to the 'Creative Commons Attribution Licence'. In brief you may : copy, distribute, and display the work; make derivative works; or make commercial use of the work - under the following conditions: the original author must be given credit; for any reuse or distribution, it must be made clear to others what the license terms of this work are.Poly(3,4-ethylenedioxythiophene)-Pt nanoparticle composite was synthesized in one-pot fashion using a photo-assisted chemical method, and its electrocatalytic properties toward hydrogen peroxide (H2O2) was investigated. Under UV irradiation, the rates of the oxidative polymerization of EDOT monomer along with the reduction of Pt4+ ions were accelerated. In addition, the morphology of PtNPs was also greatly influenced by the UV irradiation; the size of PtNPs was reduced under UV irradiation, which can be attributed to the faster nucleation rate. The immobilized PtNPs showed excellent electrocatalytic activities towards the electroreduction of hydrogen peroxide. The resultant amperometric sensor showed enhanced sensitivity for the detection of H2O2 as compared to that without PtNPs, i.e., only with a layer of PEDOT. Amperometric determination of H2O2 at -0.55 V gave a limit of detection of 1.6 μM (S / N = 3) and a sensitivity of 19.29 mA cm-2 M-1 up to 6 mM, with a response time (steady state, t95) of 30 to 40 s. Energy dispersive X-ray analysis, transmission electron microscopic image, cyclic voltammetry (CV), and scanning electron microscopic images were utilized to characterize the modified electrode. Sensing properties of the modified electrode were studied both by CV and amperometric analysis

Invited; Developing low-temperature defect passivation technology with supercritical fluid technology

Current technology nodes in the process of semiconductor manufacturing have faced many bottlenecks. Therefore, a disruptive-innovative semiconductor processing technology is crucially needed to make a significant breakthrough. Our research team has developed a low temperature (RT~250°C), defect passivation technology based on the supercritical fluid (SCF) technology applied in the nano-scale device processing to overcome the key issues. The SCF technology was originally applied in the field of the extraction and the cleaning of biotechnologies. However, our research team firstly applies this technology in the optoelectronic device. Compared to current high pressure annealing (HPA) and rapid thermal annealing (RTA) methods, the SCF-based defect passivation technology features low temperature, and can be applied for various materials and devices including photoelectric device, advanced nano-device, memory device, and wide bandgap device. Currently, the prototype of the 12” supercritical fluid processing equipment has already been built, and related recipes including nitridation, oxidation, hydrogenation, and sulfurization are also implemented for various devices and applications. In this talk, we will introduce related SCF defect passivation technology and future developments for the SCF applications

Trogodišnji trend promjena tjelesne pripremljenosti i indeksa tjelesne mase u učenika u dobi od 12 do 16 godina s ekstremnim indeksima tjelesne mase

The aim of this study was to investigate a three-year development in BMI and physical fitness of schoolchildren aged 12-16 years with extreme weight status. Taiwan Physical Fitness Test Battery, assessing aerobic fitness (1600-meter walk/run test), power (standing long jump), muscular endurance (sit-up), and flexibility (sit-and-reach) in 16,945 boys, was implemented in September from the year 2006 till 2008. Overweight and underweight were defined by the baseline BMI data values that fall within the highest and lowest 5% of their age population, whereas the BMI data values that fall within one standard deviation of the mean was considered “normal” in this study. The results showed that BMI of schoolchildren in 2006 was ~2–3 kg/m2 above the national average reported in 1993. All physical fitness components in the overweight group were substantially poorer than those in the normal group. Yet, these fitness parameters were improved over the three years in all groups. BMI in the underweight group increased at a faster rate than that in the normal and overweight groups. No difference was found in the jumping distance between the underweight and normal groups. Aerobic fitness in the underweight group was superior but flexibility and muscular endurance were slightly lower than those in the normal group. BMI of Taiwan schoolchildren increased substantially from 1993 to 2006 but leveled off from 2006 to 2008. Underweight schoolchildren during the growing period should not a priori be considered as physically weaker or unfit individuals.Cilj je ovog istraživanja bio ustanoviti trogodišnji trend razvoja indeksa tjelesne mase (ITM) i tjelesne pripremljenosti u učenika, u dobi između 12 i 16 godina, s ekstremnim vrijednostima tjelesne težine. Tajvanski sklop testova za tjelesnu pripremljenosti (Taiwan Physical Fitness Test Battery), koja uključuje procjenu aerobne pripremljenosti (test hodanja/ trčanja na 1600 metara), eksplozivne snage (skok u dalj s mjesta), mišićne izdržljivosti (podizanje trupa iz ležanja na leđima) i fleksibilnosti (sjed-i-dohvat), primijenjen je od 2006 do 2008 godine u mjesecu rujnu na uzorku od 16.945 dječaka. Preteški (overweight) i prelagani (underweight) ispitanici bili su definirani prema inicijalnoj vrijednosti ITM-a za dobnu skupinu populacije ispitanika kao oni koji se ubrajaju među 5% s najvišim odnosno najnižim vrijednostima ITM. Ispitanici koji su se nalazili unutar jedne standardne devijacije smatrali su se „normalnima“. Rezultati su pokazali da je ITM tajvanskih učenika u 2006. godini bio za ~2–3kg/m2 veći od nacionalnog prosjeka objavljenog 1993. godine. Sve varijable tjelesne pripremljenosti u grupi prekomjerno teških bile su značajno lošije u odnosu na rezultate koje su postigli ispitanici u normalnoj grupi. Ipak, rezultati su se u svim mjerenim varijablama u svim grupama poboljšali tijekom 3 godine mjerenja. ITM je u grupi nedovoljno teških porastao većom brzinom nego u grupama normalnih i prekomjerno teških učenika. Nije utvrđena značajna razlika u rezultatima skoka u dalj s mjesta između grupa nedovoljno teških i normalnih ispitanika. Nedovoljno teški ispitanici imali su najbolje rezultate u aerobnoj izdržljivosti u odnosu na ostale grupe, dok su u fleksibilnosti i mišićnoj izdržljivosti bili nešto slabiji nego ispitanici u normalnoj grupi. ITM je u tajvanske djece značajno porastao u razdoblju od 1993. do 2006. godine, ali je i stagnirao u razdoblju od 2006. do 2008. godine. Nedovoljno teška djeca ne bi se smjela a priori smatrati fizički slabijom ili nespremnom tijekom perioda odrastanja

The 2005 Ilan earthquake doublet and seismic crisis in northeastern Taiwan: evidence for dyke intrusion associated with on-land propagation of the Okinawa Trough

Northern Taiwan underwent mountain building in the early stage of the Taiwan orogeny but is currently subjected to post-collisional crustal extension. It may be related to gravitational collapse or to the rifting of the Okinawa Trough, which lies offshore northeastern Taiwan. The Ilan Plain, northeastern Taiwan, which is bounded by the normal fault systems and filled up with thick Pliocene–Pleistocene sedimentary sequences, formed under such an extension environment. Over there on 2005 March 5 two earthquakes with about the same magnitude (M_L = 5.9) occurred within 68 s and produced intense aftershocks activity according to the records of Central Weather Bureau Seismic Network of Taiwan. We relocated the earthquake sequence by the three-dimension earthquake location algorithm with the newly published 3-D Vp and Vp/Vs velocity model, and determined the first-polarity focal mechanisms of the earthquake doublet. One major cluster of aftershocks which trends E–W and dips steeply to the south can be identified and picked up as a potential fault plane. The focal mechanisms of the two main shocks are both classified as normal type by first-polarity but strike-slip by centroid moment tensor inversion; however two methods both yield consistent E–W strike. Static coseismic deformation was additionally determined from Global Positioning System (GPS) daily solutions at a set of continuous GPS stations and from strong-motion seismographs. These data show NW–SE extension at high angle to the fault plane, which cannot be explained from a simple strike-slip double-couple mechanism. On the other hand, the small vertical displacements and steep fault plane cannot be explained from a simple normal event as well. We present from elastic dislocation modelling that the geodetic data are best explained by significant component of tensile source with centimetre-scale of opening on a 15-km-long fault extending from 1 to 13 km depth. We therefore interpret the crisis as the result of dyke intrusion at the very tip of the Okinawa Trough, which is reasonably driven by backarc spreading

Measurements of Natural Carbonate Rare Earth Elements in Femtogram Quantities by Inductive Coupled Plasma Sector Field Mass Spectrometry

A rapid and precise standard-bracketing method has been developed for measuring femtogram quantity rare earth element (REE) levels in natural carbonate samples by inductively coupled plasma sector field mass spectrometry that does not require chemical separation steps. A desolvation nebulization system was used to effectively reduce polyatomic interference and enhance sensitivity. REE/Ca ratios are calculated directly from the intensities of the ion beams of 46Ca, 139La, 140Ce, 141Pr, 146Nd, 147Sm, 153Eu, 160Gd, 159Tb, 163Dy, 165Ho, 166Er, 169Tm, 172Yb, and 175Lu using external matrix-matched synthetic standards to correct for instrumental ratio drifting and mass discrimination. A routine measurement time of 3 min is typical for one sample containing 20-40 ppm Ca. Replicate measurements made on natural coral and foraminiferal samples with REE/Ca ratios of 2-242 nmol/mol show that external precisions of 1.9-6.5% (2 RSD) can be achieved with only 10-1000 fg of REEs in 10-20 μg of carbonate. We show that different sources for monthly resolved coral ultratrace REE variability can be distinguished using this method. For natural slow growth-rate carbonate materials, such as sclerosponges, tufa, and speleothems, the high sample throughput, high precision, and high temporal resolution REE records that can be produced with this procedure have the potential to provide valuable time-series records to advance our understanding of paleoclimatic and paleoenvironmental dynamics on different time scales

Evaluation of the diagnostic performance of infrared imaging of the breast: a preliminary study

<p>Abstract</p> <p>Background</p> <p>The study was conducted to investigate the diagnostic performance of infrared (IR) imaging of the breast using an interpretive model derived from a scoring system.</p> <p>Methods</p> <p>The study was approved by the Institutional Review Board of our hospital. A total of 276 women (mean age = 50.8 years, SD 11.8) with suspicious findings on mammograms or ultrasound received IR imaging of the breast before excisional biopsy. The interpreting radiologists scored the lesions using a scoring system that combines five IR signs. The ROC (receiver operating characteristic) curve and AUC (area under the ROC curve) were analyzed by the univariate logistic regression model for each IR sign and an age-adjusted multivariate logistic regression model including 5 IR signs. The cut-off values and corresponding sensitivity, specificity, Youden's Index (Index = sensitivity+specificity-1), positive predictive value (PPV), negative predictive value (NPV) were estimated from the age-adjusted multivariate model. The most optimal cut-off value was determined by the one with highest Youden's Index.</p> <p>Results</p> <p>For the univariate model, the AUC of the ROC curve from five IR signs ranged from 0.557 to 0.701, and the AUC of the ROC from the age-adjusted multivariate model was 0.828. From the ROC derived from the multivariate model, the sensitivity of the most optimal cut-off value would be 72.4% with the corresponding specificity 76.6% (Youden's Index = 0.49), PPV 81.3% and NPV 66.4%.</p> <p>Conclusions</p> <p>We established an interpretive age-adjusted multivariate model for IR imaging of the breast. The cut-off values and the corresponding sensitivity and specificity can be inferred from the model in a subpopulation for diagnostic purpose.</p> <p>Trial Registration</p> <p>NCT00166998.</p

Efficacy of the visual cognitive assessment test for mild cognitive impairment/mild dementia diagnosis: a meta-analysis

BackgroundMild cognitive impairment (MCI) is an intermediate stage between normal ageing and dementia. The early identification of MCI is important for timely intervention. The visual cognitive assessment test (VCAT) is a brief language-neutral screening tool for detecting MCI/mild dementia. This meta-analysis evaluated the diagnostic efficacy of the VCAT for MCI/mild dementia.MethodsMedline, Embase, Google Scholar, and Cochrane Library were searched from their inception until August 2023 to identify studies using VCAT to diagnose MCI/mild dementia. The primary outcome was to assess the diagnostic accuracy of the VCAT for detecting MCI/mild dementia through area under the receiver operating characteristic curve (AU-ROC) analysis. The secondary outcome was to explore the correlation between VCAT scores and MCI/mild dementia presence by comparing scores among patients with and without MCI/mild dementia. Pooled sensitivity, specificity, and area under the curve (AUC) were calculated.ResultsFive studies with 1,446 older adults (mean age 64–68.3 years) were included. The percentage of participants with MCI/mild dementia versus controls ranged from 16.5% to 87% across studies. All studies were conducted in Asian populations, mostly Chinese, in Singapore and Malaysia. The pooled sensitivity was 80% [95% confidence interval (CI) 68%–88%] and the specificity was 75% (95% CI 68%–80%). The AU-ROCC was 0.77 (95% CI 0.73–0.81). Patients with MCI/mild dementia had lower VCAT scores than the controls (mean difference −6.85 points, p &lt; 0.00001).ConclusionVCAT demonstrated acceptable diagnostic accuracy in distinguishing MCI/mild dementia in cognitively normal older adults. As a language-neutral and culturally unbiased tool, the VCAT shows promise in detecting MCI/mild dementia. Further studies in non-Asian populations are required.Systematic review registrationhttps://www.crd.york.ac.uk/prospero/, identifier: CRD42023453453