gebhart/patrepeval huggingface dataset:
Survey of the Human Pancreatic β-Cell G1/S Proteome Reveals a Potential Therapeutic Role for Cdk-6 and Cyclin D1 in Enhancing Human β-Cell Replication and Function In Vivo (2009)

The human G1/S proteome is described for the first time. Human islets are unlike their rodent counterparts in that they contain easily measurable cdk-6. Cdk-6 overexpression, alone or in combination with cyclin D1, strikingly stimulates human beta-cell replication, both in vitro as well as in vivo, without inducing cell death or loss of function. Using this model, human beta-cell replication can be induced and studied in vivo.
A Machine Learning Approach to Fitting Prescription for Hearing Aids (2019)

A successful Hearing-Aid Fitting (HAF) is more than just selecting an appropriate Hearing Aid (HA) device for a patient with Hearing Loss (HL). The initial fitting is given by the prescription based on user’s hearing loss; however, it is often necessary for the audiologist to readjust some parameters to satisfy the user demands. Therefore, in this paper, we concentrated on a new application of Neural Network (NN) combined with a Transfer Learning (TL) strategy to develop a fitting algorithm with the prescription database for hearing loss and readjusted gain to minimize the gap between fitting satisfaction. As prior information, we generated the data set from two popular hearing-aid fitting software, then fed the training data to our proposed model, and verified the performance of the architecture. Pondering real life circumstances, where numerous fitting records may not always be accessible, we first investigated the number of minimum fitting records required for possible sufficient training. After that, we evaluated the performance of the proposed algorithm in two phases: (a) NN with refined hyper parameter showed enhanced performance in compare to state-of-the-art DNN approach, and (b) the TL approach boosted the performance of the NN algorithm in a broad way. Altogether, our model provides a pragmatic and promising tool for HAF.
Reduced soluble RAGE is associated with disease severity of axonal Guillain-Barré syndrome (2016)

Soluble receptor for advanced glycation end products (sRAGE) is an anti-inflammatory factor that mitigates the proinflammatory effects of high mobility group box 1 (HMGB1). The aim of this study was to investigate whether Guillain-Barré syndrome (GBS)-related inflammation are mediated by sRAGE and HMGB1. We measured serum sRAGE, HMGB1, IL-6, and TNF-α levels in 86 patients with GBS and analysed associations between sRAGE or HMGB1 and clinical variables in these subjects. In addition, we determined cerebrospinal fluid sRAGE and HMGB1 levels in a cross-sectional study of 50 patients with GBS who had matched serum samples. We found serum sRAGE levels in patients with the acute motor axonal neuropathy (AMAN) subtype of GBS, but not other subtypes, were significantly lower than those in healthy controls, and were significantly correlated with GBS disability score and Erasmus GBS outcome score, while serum HMGB1, IL-6, and TNF-α levels in all subtypes of GBS were significantly higher than those in healthy controls. Moreover, increased sRAGE levels and decreased HMGB1 levels after treatment were observed. Our results showed that serum sRAGE may be a useful biomarker for inflammation in the AMAN GBS subtype, while HMGB1 may be related to the inflammatory process across all types of GBS.
Data flow and validation in workflow modelling (2004)

A complete workflow specification requires careful integration of many different process characteristics. Decisions must be made as to the definitions of individual activities, their scope, the order of execution that maintains the overall business process logic, the rules governing the discipline of work list scheduling to performers, identification of time constraints and more. The goal of this paper is to address an important issue in workflows modelling and specification, which is data flow, its modelling, specification and validation. Researchers have neglected this dimension of process analysis for some time, mainly focussing on structural considerations with limited verification checks. In this paper, we identify and justify the importance of data modelling in overall workflows specification and verification. We illustrate and define several potential data flow problems that, if not detected prior to workflow deployment may prevent the process from correct execution, execute process on inconsistent data or even lead to process suspension. A discussion on essential requirements of the workflow data model in order to support data validation is also given..
Prebiotic Effect of Fructooligosaccharide in the Simulator of the Human Intestinal Microbial Ecosystem (SHIME <sup>®</sup> Model) (2014)

Maintaining "gut health" is a goal for scientists throughout the world. Therefore, microbiota management models for testing probiotics, prebiotics, and synbiotics have been developed. The SHIME(®) model was used to study the effect of fructooligosaccharide (FOS) on the fermentation pattern of the colon microbiota. Initially, an inoculum prepared from human feces was introduced into the reactor vessels and stabilized over 2 weeks using a culture medium. This stabilization period was followed by a 2-week control period during which the microbiota was monitored. The microbiota was then subjected to a 4-week treatment period by adding 5 g/day-1 FOS to vessel one (the "stomach" compartment). Plate counts, Denaturing Gradient Gel Electrophoresis (DGGE), short-chain fatty acid (SCFA), and ammonium analyses were used to observe the influence of FOS treatment in simulated colon compartments. A significant increase (P<.01) in the Lactobacillus spp. and Bifidobacterium spp. populations was observed during the treatment period. The DGGE obtained showed the overall microbial community was changed in the ascending colon compartment of the SHIME reactor. FOS induced increase of the SCFA concentration (P<.05) during the treatment period, mainly due to significant increased levels of acetic and butyric acids. However, ammonium concentrations increased during the same period (P<.01). This study indicates the usefulness of in vitro methods that simulate the colon region as part of research towards the improvement of human health.
Ochratoxin A Induces Apoptosis in Human Lymphocytes through Down Regulation of Bcl-xL (2004)

Ochratoxin A (OTA) is a widespread mycotoxin contaminating feed and food. Besides its potent nephrotoxicity, OTA also affects the immune system. We demonstrate here a role for Bcl-x(L) in OTA-induced apoptosis in human lymphocytes. In particular, human peripheral blood lymphocytes and the human lymphoid T cell line, Kit 225 cells, underwent apoptosis in a time- and dose-dependent manner. This apoptosis was inhibited by z-VAD.fmk, suggesting that caspases were responsible for the induction of apoptosis. Moreover, OTA triggered mitochondrial transmembrane potential (Deltachim) loss and caspase-9 and caspase-3 activation. Interestingly, Bcl-x(L) protein expression was decreased by OTA treatment, whereas Bcl-2 protein level was not affected. Down-regulation of bcl-x(L) mRNA was not observed in cells treated with OTA. Overexpression of Bcl-x(L) in Kit 225 cells protected them against mitochondrial perturbation and retarded the appearance of apoptotic cells. Taken together, our data indicate that mitochondria are a central component in OTA-induced apoptosis and that the loss of Bcl-x(L) may participate in OTA-induced cell death.
Load adaptive congestion control and rate readjustment for wireless mesh networks (2014)

Traffic in WMNs has a wide range of variations which contributes to channel saturation and may bring up congestion due to contention caused by concurrent transmission, buffer overflows and time varying wireless channel condition. In this paper, we propose a distributed congestion control scheme for wireless mesh networks to ensure higher network throughput while avoiding congestion and maintaining inter-flow fairness. Our proposed technique handles congestion by restricting the available transmission rate of downstream nodes among the upstream nodes according to their flow demands based on their: packet arrival rate, service rate and buffer occupancy. We also introduce prioritized queues in each node to treat real time and non-real time traffic differently. Therefore, congestion degree calculation, rate allocation and traffic prioritization ensures higher network throughput and guaranteed delivery of real time traffic. Experiments conducted on ns-2 simulations demonstrate that our proposed algorithm can achieve significant improvements in both overall network throughput and inter-flow fairness for both non real time and delay bound traffic.
Video Stitching Based on Optical Flow (2018)

Video stitching remains a challenging problem in computer vision, especially for the widely existed artifacts around moving objects, including parallaxes, ghosts, etc. Traditional methods usually rely on single projective model, which may cause inaccurate correspondences of moving objects in the overlapped region. In this paper, we leverage the optical flow field in the overlapped area, which provides pixel-wise dense projection, so that the artifacts can be drastically reduced. However, since the projection of non-overlapped area is calculated from overlapped area's projection, we propose to automatically select the left or right frame as a reference to avoid the inconsistent transformation when an object moves across the border between overlapped and non-overlapped area. Experimental results demonstrate the advantage of our method over state-of-the-art ones around moving objects.
Digital charge-coupled logic (DCCL) (1977)

A new method of implementing digital logic functions is presented. The method is based on the use of charge-coupled devices in pipeline configurations and results in a very high functional density and an extremely low power dissipation. The authors show how various logic functions such as OR, AND, INVERT, and charge refresh are performed. The operation of a DCCL full-adder is compared with another configuration that uses cascaded dual half-adders and a carry-OR. A floating-gate is required as a binary switch in any function that requires binary inversion such as an exclusive-OR. The switching range of the floating-gate is derived as a function of the gate area, the size of the input charge packet and the extraneous capacitances. The implementation of DCCL pipeline arithmetic is discussed. An 8/spl times/8 multiplier and a 16+16 adder pipeline array now being produced are described. The power dissipation and package density of DCCL are compared with PMOS, NMOS, CMOS, and I/SUP 2/L devices in full-adder configurations and in various size arithmetic arrays. The authors conclude with a description of the present status of the technology and some projections for future uses.
On the Variances of Asymptotically Normal Estimators from Complex Surveys (1983)

David A. Binder, On the Variances of Asymptotically Normal Estimators from Complex Surveys, International Statistical Review / Revue Internationale de Statistique, Vol. 51, No. 3 (Dec., 1983), pp. 279-292
Theobromine Inhibits Uric Acid Crystallization. A Potential Application in the Treatment of Uric Acid Nephrolithiasis (2014)

Theobromine, a natural dimethylxanthine present in high amounts in cocoa, acts as an inhibitor of nucleation and crystal growth of uric acid. Therefore, theobromine may be clinically useful in the treatment of uric acid nephrolithiasis.
Osteopontin and latent-TGF β binding-protein 2 as potential diagnostic markers for HBV-related hepatocellular carcinoma (2014)

Chronic Hepatitis B (HB) is the main risk factor for chronic liver disease (CLD) and hepatocellular carcinoma (HCC) in many low-resource countries, where diagnosis is constrained by lack of clinical, histopathological and biomarker resources. We have used proteomics to detect plasma biomarkers that outperform α-Fetoprotein (AFP), the most widely used biomarker for HCC diagnosis in low-resource contexts. Deep-plasma proteome analysis was performed in HCC patients, patients with CLD and in HB-carrier controls from Thailand (South-East Asia) and The Gambia (West-Africa). Mass spectrometry profiling identified latent-transforming growth factor β binding-protein 2 (LTBP2) and Osteopontin (OPN) as being significantly elevated in HCC versus CLD and controls. These two proteins were further analyzed by ELISA in a total of 684 plasma samples, including 183 HCC, 274 CLD and 227 asymptomatic controls. When combined, LTBP2 and OPN showed an area under the receiver operating curve of 0.85 in distinguishing HCC from CLD in subjects with AFP <20 ng/mL. In a prospective cohort of 115 CLD patients from Korea, increased plasma levels of LTBP2 and/or OPN were detected in plasma collected over 2 years prior to diagnosis in 21 subjects who developed HCC. Thus, the combination of LTBP2 and OPN outperformed AFP for diagnosis and prediction of HCC and may therefore improve biomarker-based detection of HBV-related HCC.
Characteristics of opioid‐maintained clients smoking fentanyl patches: The importance of confirmatory drug analysis illustrated by a case series and mini‐review (2018)

The increase in opioid prescribing in many European countries over the last decade has raised concerns about associated diversion, overdose, and mortality. Fentanyl is one of these synthetic opioids that is typically prescribed as a transdermal patch for pain that requires continuous pain relief and has been the focus of investigation due to reports of overdose and death. We report a case series of 14 drug addiction treatment entrants, who entered treatment in a service located in the region of Southern Denmark from August 2015 to December 2015 for smoking fentanyl patches. Clients presented with difficulties breathing and pains in the lungs. The clients had a history of past opioid use, including heroin. Relapses resulted in treatment disengagement. Immunoassays for fentanyl were used in the service. In some cases, false negative results occurred. Clients' urine samples were subsequently analysed in a collaborating laboratory. Seven clients tested positive for fentanyl. One client was positive for both fentanyl and heroin. Analyses were also positive for other opioids and metabolites in 6 clients, predominantly codeine and oxycodone. Results from confirmatory analysis contributed to clearer insights into clients' drug histories, which facilitated personalised care plans consisting of opioid agonist therapy informed by confirmed drug use. In Denmark, prescription levels of fentanyl are high, which has been accompanied by observations of diversion and smoking in a smaller population. In addition to revision of inappropriate prescribing to reduce diversion, we recommend increased reliance upon confirmatory drug analysis in the addiction treatment sector in Denmark.
Financial Socialization’s Impact on College Students’ Credit Card Behavior (2017)

This study looked at the association between family financial socialization and credit card behavior among college students. The data came from the 2014-2015 National Student Financial Wellness Study, administered by the Ohio State University. Responses from 283 undergraduate students enrolled in South Dakota State University were analyzed. In general, responsible credit card behavior was found to be more likely exhibited by students who said their parents encouraged them to invest and students who thought their parents were good financial role models.
Human-in-the-loop optimization of hip assistance with a soft exosuit during walking (2018)

Wearable robotic devices have been shown to substantially reduce the energy expenditure of human walking. However, response variance between participants for fixed control strategies can be high, leading to the hypothesis that individualized controllers could further improve walking economy. Recent studies on human-in-the-loop (HIL) control optimization have elucidated several practical challenges, such as long experimental protocols and low signal-to-noise ratios. Here, we used Bayesian optimization-an algorithm well suited to optimizing noisy performance signals with very limited data-to identify the peak and offset timing of hip extension assistance that minimizes the energy expenditure of walking with a textile-based wearable device. Optimal peak and offset timing were found over an average of 21.4 ± 1.0 min and reduced metabolic cost by 17.4 ± 3.2% compared with walking without the device (mean ± SEM), which represents an improvement of more than 60% on metabolic reduction compared with state-of-the-art devices that only assist hip extension. In addition, our results provide evidence for participant-specific metabolic distributions with respect to peak and offset timing and metabolic landscapes, lending support to the hypothesis that individualized control strategies can offer substantial benefits over fixed control strategies. These results also suggest that this method could have practical impact on improving the performance of wearable robotic devices.
Association Between Common Variants Near the Melanocortin 4 Receptor Gene and Severe Antipsychotic Drug–Induced Weight Gain (2012)

These data implicate MC4R in extreme SGA-induced weight gain and related metabolic disturbances. A priori identification of high-risk subjects could lead to alternative treatment strategies in this population.
Proteome analyses using accurate mass and elution time peptide tags with capillary LC time-of-flight mass spectrometry (2003)

We describe the application of capillary liquid chromatography (LC) time-of-flight (TOF) mass spectrometric instrumentation for the rapid characterization of microbial proteomes. Previously (Lipton et al., Proc. Natl. Acad. Sci. U.S.A. 2002, 99, 11049) the peptides from a series of growth conditions of Deinococcus radiodurans have been characterized using capillary LC MS/MS and accurate mass measurements which are captured as an accurate mass and time (AMT) tag database. Using this AMT tag database, detected peptides can be assigned using measurements obtained on a TOF due to the additional use of elution time data as a constraint. When peptide matches are obtained using AMT tags (i.e., using both constraints) unique matches of a mass spectral peak occurs 88% of the time. Not only are AMT tag matches unique in most cases, the coverage of the proteome is high; approximately 3500 unique peptide AMT tags are found on average per capillary LC run. From the results of the AMT tag database search, approximately 900 ORFs detected using LC-TOFMS, with approximately 500 ORFs covered by at least two AMT tags. These results indicate that AMT database searches with modest mass and elution time criteria can provide proteomic information for approximately one thousand proteins in a single run of <3 h. The advantage of this method over using MS/MS based techniques is the large number of identifications that occur in a single experiment as well as the basis for improved quantitation. For MS/MS experiments, the number of peptide identifications is severely restricted because of the time required to dissociate the peptides individually. These results demonstrate the utility of the AMT tag approach using capillary LC-TOF MS instruments, and also show that AMT tags developed using other instrumentation can be effectively utilized.
1-W 3.3–16.3-V Boosting Wireless Power Transfer Circuits With Vector Summing Power Controller (2012)

This paper presents SD-card-size wireless power transfer system for large-volume contactless memory cards. Voltage is boosted simultaneously with power transfer, which eliminates the dc-dc converter or charge-pump circuit for data write operation into the flash memory chip. The proposed approach reduces the number of components and BOM cost and improves the total power efficiency. A vector summing technique is proposed to control the transmitting power and secondary side voltage. The transmitter and rectifier have been designed and fabricated using 0.18-μ m-CMOS with high voltage option. Voltage boost from 3.3 to 16.3 V and 1-W power transfer with 50% total efficiency have been successfully demonstrated, and the response time for the power control loop is shorter than 35 μs .
Human-centric panoramic imaging stitching (2012)

We introduce a novel image mosaicing algorithm to generate 360° landscape images while also taking into account the presence of people at the boundaries between stitched images. Current image mosaicing techniques tend to fail when there is extreme parallax caused by nearby objects or moving objects at the boundary between images. This parallax causes ghosting or unnatural discontinuities in the image. To address this problem, we present an image mosaicing algorithm that is robust to parallax and misalignment, and is also able to preserve the important human-centric content, specifically faces. In particular, we find an optimal path between the boundary of two images that preserves color continuity and peoples' faces in the scene. Preliminary results show promising results of preserving close-up faces with parallax while also being able to generate a perceptually plausible 360° panoramic image.
Statistical Fault Analysis (1985)

Statistical Fault Analysis, or Stafan, is proposed as an alternative to fault simulation of digital circuits. This method defines Controllabilities and observabilities of circuit nodes as probabilities estimated from signal statistics of fault-free simulation. Special Procedures deal with these quantities at fanout and feedback nodes. The computed probabilities are used to derive unbiased estimates of fault detection probabilities and overall fault coverage for the given set of input vectors. Among Stafan's advantages, fault coverage and the undetected fault data obtained for actual circuits are shown to agree within five percent of fault simulator results, yet CPU time and memory demands fall far short of those required in fault simulation. The Computational complexity added to a fault-free simulator by Stafan grows only linearly with the number of circuit nodes.
Systematic review of genetic variants associated with cognitive impairment and depressive symptoms in Parkinson’s disease (2019)

PD carriers of GBA variants are at high risk for cognitive decline and depression. Screening for these variants may facilitate early identification and effective management of these non-motor symptoms. The molecular mechanisms underlying favourable cognitive functioning in LRRK2 rs34637584 variant carriers warrant further investigation.
Long-Term Restriction by APOBEC3F Selects Human Immunodeficiency Virus Type 1 Variants with Restored Vif Function (2010)

Tandem stop mutations K26X and H27X in human immunodeficiency virus type 1 (HIV-1) vif compromise virus replication in human T-cell lines that stably express APOBEC3F (A3F) or APOBEC3G (A3G). We previously reported that partial resistance to A3G could develop in these Vif-deficient viruses through a nucleotide A200-to-T/C transversion and a vpr null mutation, but these isolates were still susceptible to restriction by A3F. Here, long-term selection experiments were done to determine how these A3G-selected isolates might evolve to spread in the presence of A3F. We found that A3F, like A3G, is capable of potent, long-term restriction that eventually selects for heritable resistance. In all 7 instances, the selected isolates had restored Vif function to cope with A3F activity. In two isolates, Vif Q26-Q27 and Y26-Q27, the resistance phenotype recapitulated in molecular clones, but when the selected vif alleles were analyzed in the context of an otherwise wild-type viral background, a different outcome emerged. Although HIV-1 clones with Vif Q26-Q27 or Y26-Q27 were fully capable of overcoming A3F, they were now susceptible to restriction by A3G. Concordant with prior studies, a lysine at position 26 proved essential for A3G neutralization. These data combine to indicate that A3F and A3G exert at least partly distinct selective pressures and that Vif function may be essential for the virus to replicate in the presence of A3F.