gebhart/patrepeval huggingface dataset:
Internal Controls for Quantitative Polymerase Chain Reaction of Swine Mammary Glands During Pregnancy and Lactation (2008)

High-throughput microarray analysis is an efficient means of obtaining a genome-wide view of transcript profiles across physiological states. However, quantitative PCR (qPCR) remains the chosen method for high-precision mRNA abundance analysis. Essential for reliability of qPCR data is normalization using appropriate internal control genes (ICG), which is now, more than ever before, a fundamental step for accurate gene expression profiling. We mined mammary tissue microarray data on >13,000 genes at -34, -14, 0, 7, 14, 21, and 28 d relative to parturition in 27 crossbred primiparous gilts to identify suitable ICG. Initial analysis revealed TBK1, PCSK2, PTBP1, API5, VAPB, QTRT1, TRIM41, TMEM24, PPP2R5B, and AP1S1 as the most stable genes (sample/reference = 1 +/- 0.2). We also included 9 genes previously identified as ICG in bovine mammary tissue. Gene network analysis of the 19 genes identified AP1S1, API5, MTG1, VAPB, TRIM41, MRPL39, and RPS15A as having no known co-regulation. In addition, UXT and ACTB were added to this list, and mRNA abundance of these 9 genes was measured by qPCR. Expression of all 9 of these genes was decreased markedly during lactation. In a previous study with bovine mammary tissue, mRNA of stably expressed genes decreased during lactation due to a dilution effect brought about by large increases in expression of highly abundant genes. To verify this effect, highly abundant mammary genes such as CSN1S2, SCD, FABP3, and LTF were evaluated by qPCR. The tested ICG had a negative correlation with these genes, demonstrating a dilution effect in the porcine mammary tissue. Gene stability analysis identified API5, VABP, and MRPL39 as the most stable ICG in porcine mammary tissue and indicated that the use of those 3 genes was most appropriate for calculating a normalization factor. Overall, results underscore the importance of proper validation of internal controls for qPCR and highlight the limitations of using absence of time effects as the criteria for selection of appropriate ICG. Further, we showed that use of the same ICG from one organism might not be suitable for qPCR normalization in other species.
ChemInform Abstract: ACYLANTHRANILS. 12. REACTION OF ACETYLANTHRANIL WITH ALCOHOLS TO GIVE PRODUCTS OF SELF-CONDENSATION (1983)

Acetylanthranil (I) reagiert mit Alkoholen (II) in Gegenwart von Säure unter Kondensation von (I) zu den Derivaten (III) und (IV) sowie Essigsäureester (V) und Ether (VI) über diskutierte Zwischenstufen.
Digital Autotuning for Integrated Switched-Mode Battery Chargers (2022)

This paper presents a novel autotuning method that intends to improve controller performance in mobile device battery chargers. The mobile device chargers have a wide range of possible operating conditions and high converter parameter variations, making the design of fixed-coefficient controllers a challenging task. This work aims to tackle this issue using a comprehensive, yet simple, self-tuning algorithm with the goal to maximize bandwidth and to guarantee stability. The novel approach uses a single-tone injection, a single-node measurement, and generates orthogonal components for extracting in-phase and quadrature projections of the response. The algorithm enables significant savings of computational resources thus making it practical. Effectiveness of the proposed solution has been ex-perimentally verified using an FPGA-based controller and an integrated battery charger prototype.
TRIFLUOROMETHYLATION OF ORGANIC DISULFIDES WITH SODIUM TRIFLUOROMETHANESULFINATE UNDER OXIDATIVE CONDITIONS: SYNTHESIS OF TRIFLUOROMETHYL THIOETHERS (1991)

Abstract Trifluoromethyl thioethers can be obtained from disulfides, sodium trifluoromethanesulfinate and an oxidizer like t-BuOOH, CAN or K2S2O8. The reaction seems to be a radical one and one half of the disulfide molecule only is used for trifluoromethylation. Yields are related to the nucleophilicity of the sulfur atoms. The choice of the solvent can be crucial, especially with aromatic disulfides for which sulfur trifluoromethylation competes with nucleus one.
A practical tool for distributing Ada programs (1992)

Article A practical tool for distributing Ada programs: TeleSoft's distributed Ada configuration tool Share on Authors: Tom Burger View Profile , Jim Bladen View Profile , Richard A. Volz View Profile , Ron Theriault View Profile , Gary Smith View Profile , Kali H. Buhariwalla View Profile Authors Info & Claims TRI-Ada '92: Proceedings of the conference on TRI-Ada '92December 1992 Pages 484–492https://doi.org/10.1145/143557.144000Online:01 December 1992Publication History 2citation113DownloadsMetricsTotal Citations2Total Downloads113Last 12 Months3Last 6 weeks0 Get Citation AlertsNew Citation Alert added!This alert has been successfully added and will be sent to:You will be notified whenever a record that you have chosen has been cited.To manage your alert preferences, click on the button below.Manage my AlertsNew Citation Alert!Please log in to your account Save to BinderSave to BinderCreate a New BinderNameCancelCreateExport CitationPublisher SiteGet Access
Lensless Compressive Sensing Imaging (2013)

In this paper, we propose a lensless compressive sensing imaging architecture. The architecture consists of two components, an aperture assembly and a sensor. No lens is used. The aperture assembly consists of a two dimensional array of aperture elements. The transmittance of each aperture element is independently controllable. The sensor is a single detection element, such as a single photo-conductive cell. Each aperture element together with the sensor defines a cone of a bundle of rays, and the cones of the aperture assembly define the pixels of an image. Each pixel value of an image is the integration of the bundle of rays in a cone. The sensor is used for taking compressive measurements. Each measurement is the integration of rays in the cones modulated by the transmittance of the aperture elements. A compressive sensing matrix is implemented by adjusting the transmittance of the individual aperture elements according to the values of the sensing matrix. The proposed architecture is simple and reliable because no lens is used. Furthermore, the sharpness of an image from our device is only limited by the resolution of the aperture assembly, but not affected by blurring due to defocus. The architecture can be used for capturing images of visible lights, and other spectra such as infrared, or millimeter waves. Such devices may be used in surveillance applications for detecting anomalies or extracting features such as speed of moving objects. Multiple sensors may be used with a single aperture assembly to capture multi-view images simultaneously. A prototype was built by using a LCD panel and a photoelectric sensor for capturing images of visible spectrum.
MAPLAB: an extensible software package for analysis of multichannel ECG recordings (2002)

Analysis of multichannel ECG recordings (body surface maps and endocardial maps) requires special software. Both interactive usage of a fast and robust user interface and batch job processing for the analysis of large amounts of data is necessary. In addition, the package should be user-extensible, because new techniques for the analysis of multichannel ECGs are continuously under development, and it should not take very much time to develop. We wrote a package using an interactive computational program (MATLAB). The package includes routines for both common and experimental data processing tasks, as well as an extensive user interface. Sources are well documented using the WEB system, and available to the users. Any part of the package can be changed by the user, and new parts can be added. The package is used by its authors and several researchers from associated research groups.
A 1q42 deletion involving DISC1, DISC2, and TSNAX in an autism spectrum disorder (2009)

Individuals with autism spectrum disorders have impairments in social, communicative, and behavior development that are often accompanied by abnormalities in cognitive functioning, learning, attention, and sensory processing. In this report, we describe a 3-year-old male child with an autism spectrum disorder who carries a 2 Mb deletion of chromosome 1q42. Array comparative genome hybridization revealed that this deletion involves at least three genes-DISC1, DISC2, and TSNAX-which have been found to be associated with neuropsychiatric disorders and are likely to play key roles in normal CNS development. Further studies revealed that the deletion was inherited from his unaffected mother. This suggests that other genetic and/or environmental factors, some of which may be sex specific, may modify the phenotypic effects of this deletion. While this case provides evidence for the potential role of DISC1, DISC2, and TSNAX in the development of autism spectrum disorders, it is equally clear that caution must be taken when providing families with prognostic information and genetic counseling regarding such deletions.
Beneficial Effects on Cosmetic Activity by Optimizing the Calamondin Orange Extraction Process (2019)

This study expands the usage of Citrus madurensis ( Citrofortunella microcarpa), which is a good source of skin whitening and antioxidants activation in cosmetics. The goal of this study is to provide cosmeceutical activity data about the extraction yield and total polyphenol of calamondin orange by optimizing the focused high ultrasound (INEFU), ultrasound extraction (UE), and water extraction (WE) conditions. Under optimal extraction conditions, which consisted of 1800 W for 45 minutes (INEFU) and 500 W for 45 minutes (UE), 21.55% (w/w) and 13.27% (w/w) of the highest extractions yield and total polyphenol content was obtained. For the skin whitening activity, tyrosinase inhibitory activity was observed at 69.28% in the INEFU extracts, which was 69.24% higher than that of the UE extracts (58.82%). To reduce melanin production in Clone M-3 cells, 86.9% melanin production was observed following the addition of control, WE relative to the control without a sample, and 81.2% and 78.9% were found in the UE and INEFU conditions, respectively. The highest total phenol secretion was conclusively obtained under the optimal conditions and resulted in a significant improvement of the cosmetic activities of C. madurensis ( C. microcarpa)-based cosmeceutical ingredient.
Perancangan dan Implementasi Encoder dan Decoder CRC-8 untuk Pendeteksian Error pada Transmisi Data antar Perangkat IoT (2022)

Cyclic Redundancy Check (CRC) is a widely used error detection code in digital communication systems to detect errors in data transmitted between transmitter and receiver. With the development of Internet-of-Things (IoT) technology, where many devices communicate wirelessly, the application of error detection codes such as CRC is essential to obtain reliable communication. The computation of CRC can be implemented in hardware using a linear feedback shift register (LFSR) or in software with shift and bitwise exclusive OR (XOR) operations for polynomial division. Due to the frequent use of CRC in wireless communication for IoT, research for the design and implementation of CRC continues to this day. This study aims to design and implement the encoder and decoder of CRC-8 with generator polynomial 0x07 on IoT devices. Two algorithms for computing the CRC, namely bitwise computation using LFSR and another one using lookup tables, are implemented on the Arduino Uno R3 board. Two Arduino boards connected in serial were used to verify the encoder and decoder implementation in the data transmission and error detection process. The experiment results showed that the encoder could correctly calculate the CRC value from the input data. Furthermore, the computation using lookup tables takes about four times faster than the bitwise method but requires more memory. In contrast, the bitwise computation method requires less memory but slower computation time. When testing using input data of 128 characters, the bitwise-based encoder requires a computation time of 2.37 milliseconds, while the lookup table-based encoder utilizing a lookup table requires a computation time of 0.5 milliseconds. In the error detection test, the results demonstrated that the receiver could detect errors in the transmitted data with a percentage of 100%.
A study on the pay systems of the workers at hospitals in Korea (1999)

The purpose of this study is to provide the basic data for the development of new pay system of hospitals by analyzing the status and problems of current pay system. The pay systems of 20 nationwide hospitals were analyzed and compared with the average pay level in Korea. In addition, the annual trend of pay system was analyzed. Based on this study, the following suggestions can be made. First, the pay levels of hospitals are, in some types of workers, lower than average. Hospitals should take much efforts to improve the payment capability through the effective management. Second, the effort to raise the proportion of basic pay to the total pay and to simplify the pay system on the basis of basic pay rather than the allowance and bonus should be made. Third, the pay system based on the length of service should be revised into the one based on work capability, achievement and performance in case of professional, clerical and managerial jobs. Fourth, the pay system determined depending on the power relationship between the labor unions and the management should be improved into the one, with which workers can feel reliable and satisfied through the revealing of the payment ability and the management improvement.
Signal sequence analysis of expressed sequence tags from the nematode Nippostrongylus brasiliensisand the evolution of secreted proteins in parasites (2004)

These results indicate that secreted proteins may be undergoing accelerated evolution, either because of relaxed functional constraints, or in response to stronger selective pressure from host immunity.
Cognitive function in people with and without freezing of gait in Parkinson’s disease (2020)

Freezing of gait (FOG) is common in people with Parkinson's disease (PD) which is extremely debilitating. One hypothesis for the cause of FOG episodes is impaired cognitive control, however, this is still in debate in the literature. We aimed to assess a comprehensive range of cognitive tests in older adults and people with Parkinson's with and without FOG and associate FOG severity with cognitive performance. A total of 227 participants took part in the study which included 80 healthy older adults, 81 people with PD who did not have FOG and 66 people with PD and FOG. A comprehensive battery of neuropsychological assessments tested cognitive domains of global cognition, executive function/attention, working memory, and visuospatial function. The severity of FOG was assessed using the new FOG questionnaire and an objective FOG severity score. Cognitive performance was compared between groups using an ANCOVA adjusting for age, gender, years of education and disease severity. Correlations between cognitive performance and FOG severity were analyzed using partial correlations. Cognitive differences were observed between older adults and PD for domains of global cognition, executive function/attention, and working memory. Between those with and without FOG, there were differences for global cognition and executive function/attention, but these differences disappeared when adjusting for covariates. There were no associations between FOG severity and cognitive performance. This study identified no significant difference in cognition between those with and without FOG when adjusting for covariates, particularly disease severity. This may demonstrate that complex rehabilitation programs may be undertaken in those with FOG.
Mammary Epithelial Cell Tight Junction Integrity and Mammary Blood Flow During an Extended Milking Interval in Goats (1994)

The timing and relation of changes in mammary epithelial cell tight junction integrity and mammary blood flow during a 36-h milking interval were studied in six lactating Saanen goats. An increase in lactose concentration in plasma, a decrease in transepithelial potential difference, and changes in ionic milk composition were used to indicate tight junction patency. After 36 h of milk accumulation, mammary tight junctions had become disrupted. Further analyses indicated that this disruption began after 21 h of milk accumulation and that mammary blood flow also started to decline after 21 h. The time when both events occurred was not significantly different from the time when milk secretion began to decline (19 h). Moreover, positive but nonsignificant correlations existed between these events. Mammary tight junctions became disrupted when milk secretion declined, suggesting that impairment of mammary tight junction integrity is associated with decreased milk secretion during an extended milking interval. The decline in mammary blood flow may be the result of a negative feedback response to a reduced demand for metabolites, which is due to a reduced rate of milk secretion.
Maize transcription factor ZmBES1/BZR1-5 positively regulates kernel size (2020)

The BES1/BZR1 transcription factors regulate the expression of genes responsive to brassinosteroids and play pivotal roles in plant development, but their role in regulating kernel development in maize remains unclear. In this study, we found that ZmBES1/BZR1-5 positively regulates kernel size. Association analysis of candidate genes in 513 diverse maize inbred lines indicated that three SNPs related to ZmBES1/BZR1-5 were significantly associated with kernel width and whilst four SNPs were related to 100-kernel weight. Overexpression of ZmBES1/BZR1-5 in Arabidopsis and rice both significantly increased seed size and weight, and smaller kernels were produced in maize Mu transposon insertion and EMS mutants. The ZmBES1/BZR1-5 protein locates in the nucleus, contains bHLH and BAM domains, and shows no transcriptional activity as a monomer but forms a homodimer through the BAM domain. ChIP-sequencing analysis, and yeast one-hybrid and dual-luciferase assays demonstrated that the protein binds to the promoters of AP2/EREBP genes (Zm00001d010676 and Zm00001d032077) and inhibits their transcription. cDNA library screening showed that ZmBES1/BZR1-5 interacts with casein kinase II subunit β4 (ZmCKIIβ4) and ferredoxin 2 (ZmFdx2) in vitro and in vivo, respectively. Taken together, our study suggests that ZmBES1/BZR1-5 positively regulates kernel size, and provides new insights into understanding the mechanisms of kernel development in maize.
Smart buffering technique for lossless hard handover in wireless ATM networks (2002)

The introduction of ATM technology in wireless environments, allowing mobile terminals to support multimedia traffic, is a subject of significant interest. Towards this objective, the mobility procedures need to be designed in an efficient way that will minimize the QoS deterioration, imposed by the movement of the users. This paper discusses the network architecture, its constituent functional entities, as well as the algorithms needed in support of mobility. In order to achieve minimum impact on the connection quality when a user crosses the boundaries of a cell, a so called "smart buffering technique" has been designed. Throughout the proposed design, special provision has been taken to minimize modifications or extensions, required on existing fixed ATM infrastructure. In this respect, existing versions of B-ISDN signaling protocols (Q.2931, ATMP UNI 3.1) are considered, which are enhanced by a supplementary mobility related protocol.
Short Tandem Repeats in plants: Genomic distribution and function prediction (2020)

Short Tandem repeats (STRs) existed as popular elements in both eukaryotic and prokaryotic genomes. In this study, we analyzed the characteristics, distributions, and motif features of STRs within whole-genomes of 140 plant species. The results showed that STR density was negatively correlated with the genome size. Hexanucleotide repeat was the most abundant type of STRs. The distribution of algae shows a preference different from that of other plants. By analyzing GC contents of STRs and genome, it was concluded that STR motif was influenced by GC contents. Analysis of the long STRs in genome (length ≥ 1000 bp) found that dicots have the more long STRs. For STR types, di- and tri-nucleotide accounted for the highest proportion. Analyzing and designing long STRs in CDS (length ≥ 500 bp) was to verify the role of long STRs in Gossypium hirsutum TM-1 and Solanum tuberosum. By comparing the long STRs found in Fragaria x ananassa with other species, some evolutionary characteristics of the long STRs were obtained. We got the characteristics, distribution, and motif features of STRs in the whole genome of 140 plants and obtained some evolutionary characteristics of long STRs. The study provides useful insights into STR preference, characteristics, and distribution in plants. How to cite: Zhu L, Wu H, Li H, et al., Short Tandem Repeats in plants: genomic distribution and function prediction. Electron J Biotechnol 2021;50.https://doi.org/10.1016/j.ejbt.2020.12.003
Immune Dysregulation in the Aging Human Lung (1996)

Aging has been associated with diminished lung function and increased susceptibility to lung infection. To determine whether changes suggestive of immune dysregulation and inflammation appear in the lungs of clinically normal individuals as a function of advancing age, we performed bronchoalveolar lavage (BAL) on discontinuous age groups (20-36, 45-55, and 65-78 yr old) of clinically normal volunteer subjects. We measured immunoglobulin (IgG, IgA, IgM), albumin, interleukin-6 (IL-6), and interleukin-10 concentrations in BAL fluid. Bronchoalveolar cell profiles, cell surface antigen expression, and superoxide anion production were also measured. A significant increase in total cell concentration, neutrophils, and BAL immunoglobulin content was observed in the oldest age group compared with the youngest age group. Mean lymphocyte subset (CD4+/CD8+) ratios were significantly increased in blood (2.6 +/- 0.4 versus 1.6 +/- 0.1; p<0.03) and to a greater degree in BAL (4.8 +/- 1.0 versus 1.9 +/- 0.2; p<0.01) for the oldest versus youngest age groups. Similarly, BAL-derived cells displayed significantly increased phorbol myristate acetate-stimulated release of superoxide anion (8.8 +/- 1.3 versus 4.5 +/- 0.7 nmol/5 x 10 5 cells/h; p<0.01) for the oldest versus youngest subject group, and mean BAL IL-6 concentrations were significantly elevated in the oldest age group (0.86 +/- 0.13 ng/ml) compared with the youngest age group (0.53 +/- 0.03 ng/ml; p<0.01). Our observations suggest that altered inflammatory cell profiles and low-grade inflammation exist in the lower respiratory tracts of many asymptomatic, clinically normal volunteers of advanced age.
Clinical and Radiographic Diagnosis of Femoroacetabular Impingement (2013)

Femoroacetabular impingement (FAI) in the adolescent patient is becoming increasingly recognized. A number of morphologic variants can lead to abnormal abutment of the femoral neck against the acetabular rim. Unrecognized FAI can lead to the development of secondary hip disorders including osteoarthritis. FAI is both a clinical and radiographic diagnosis and requires a thorough and complete understanding to diagnose appropriately. A precise history and comprehensive physical examination is paramount. Radiographs and advanced imaging techniques help to confirm the diagnosis.
Outcomes of a single-step endoscopic ultrasound-guided drainage of pancreatic-fluid collections using an electrocautery-enhanced coaxial lumen-apposing, self-expanding metal stent with and without fluoroscopy (2020)

ELAMS may avoid the need for fluoroscopy during cystogastrostomy. Procedures without fluoroscopy were significantly shorter and fluoroscopy use had no impact on the technical or clinical success rates.