Miracle-dz/UniFAR-FTUs huggingface dataset:
Test Wrapper and Test Access Mechanism Co-Optimization for System-on-Chip

Test access mechanisms (TAMs) and test wrappers are integral parts of a system-on-chip (SOC) test architecture. Prior research has concentrated on only one aspect of the TAM/wrapper design problem at a time, i.e., either optimizing the TAMs for a set of pre-designed wrappers, or optimizing the wrapper for a given TAM width. In this paper, we address a more general problem, that of carrying out TAM design and wrapper optimization in conjunction. We present an efficient algorithm to construct wrappers that reduce the testing time for cores. Our wrapper design algorithm improves on earlier approaches by also reducing the TAM width required to achieve these lower testing times. We present new mathematical models for TAM optimization that use the core testing time values calculated by our wrapper design algorithm. We further present a new enumerative method for TAM optimization that reduces execution time significantly when the number of TAMs being designed is small. Experimental results are presented for an academic SOC as well as an industrial SOC.
More on the Effects of Early Manual Communication on the Cognitive Development of Deaf Children

Three groups of Israeli deaf children ages 6 to 14 and a group of hearing children were compared on intelligence. The three deaf groups were (a) 23 deaf children with deaf parents and deaf siblings (DpDs)—heredity as cause of deafness, manual environment; (b) 76 deaf children with hearing parents and deaf siblings (HpDs)—heredity, partial manual environment; and (c) 144 deaf children with hearing parents and siblings (HpHs)—no heredity, oral environment. Three measures of cognitive development were used: teachers' evaluations, the Draw-a-Person Test, and the Snijders-Oomen Non-Verbal Test. The DpDs children were superior to other deaf children and comparable to hearing children on most intelligence measures. Results showed that the manual environment factors, and not heredity, are responsible for the cognitive superiority of deaf children of deaf parents.
Shift from toll-like receptor 2 (TLR-2) toward TLR-4 dependency in the erosive stage of chronic streptococcal cell wall arthritis coincident with TLR-4-mediated interleukin-17 production.

OBJECTIVE Toll-like receptors (TLRs) may activate innate and adaptive immune responses in rheumatoid arthritis (RA) through recognition of microbial as well as endogenous ligands that have repeatedly been found in arthritic joints. The objective of this study was to investigate the involvement of TLR-2 and TLR-4 in the development of chronic destructive streptococcal cell wall (SCW)-induced arthritis, in which interleukin-1 (IL-1)/IL-17-dependent T cell-driven pathologic changes replace the macrophage-driven acute phase. METHODS Chronic SCW arthritis was induced by 4 repeated intraarticular injections of SCW fragments in wild-type, TLR-2(-/-), and TLR-4(-/-) mice. Clinical, histopathologic, and immunologic parameters of arthritis were evaluated. RESULTS The TLR-2 dependency of joint swelling during the acute phase was shifted to TLR-4 dependency during the chronic phase. Persistent joint inflammation in the latter phase of the model was significantly suppressed in TLR-4(-/-) mice. In the chronic phase, TLR-4 actively contributed to matrix metalloproteinase (MMP)-mediated cartilage destruction and to osteoclast formation, since the expression of the MMP-specific aggrecan neoepitope VDIPEN and the osteoclast marker cathepsin K was significantly reduced in TLR-4(-/-) mice. Furthermore, TLR-4(-/-) mice expressed less IL-1beta, tumor necrosis factor alpha, IL-6, and IL-23, cytokines that are implicated in IL-17 production. Accordingly, SCW-specific IL-17 production was found to be dependent on TLR-4 activation, since T cells from arthritic TLR-4(-/-) mice produced markedly less IL-17 upon SCW stimulation, whereas interferon-gamma production remained unaffected. CONCLUSION These data indicate the involvement of TLR-4 in the chronicity and erosive character of arthritis coincident with the antigen-specific IL-17 response. The high position of TLR-4 in the hierarchy of erosive arthritis provides an interesting therapeutic target for RA.
Mortality reduction from gastric cancer by endoscopic and radiographic screening

To evaluate mortality reduction from gastric cancer by endoscopic screening, we undertook a population‐based cohort study in which both radiographic and endoscopic screenings for gastric cancer have been carried out. The subjects were selected from the participants of gastric cancer screening in two cities in Japan, Tottori and Yonago, from 2007 to 2008. The subjects were defined as participants aged 40–79 years who had no gastric cancer screening in the previous year. Follow‐up of mortality was continued from the date of the first screening to the date of death or up to December 31, 2013. A Cox proportional hazards model was used to estimate the relative risk (RR) of gastric cancer incidence, gastric cancer death, all cancer deaths except gastric cancer death, and all‐causes death except gastric cancer death. The number of subjects selected for endoscopic screening was 9950 and that for radiographic screening was 4324. The subjects screened by endoscopy showed a 67% reduction of gastric cancer compared with the subjects screened by radiography (adjusted RR by sex, age group, and resident city = 0.327; 95% confidence interval [CI], 0.118–0.908). The adjusted RR of endoscopic screening was 0.968 (95%CI, 0.675–1.387) for all cancer deaths except gastric cancer death, and 0.929 (95%CI, 0.740–1.168) for all‐causes death except gastric cancer death. This study indicates that endoscopic screening can reduce gastric cancer mortality by 67% compared with radiographic screening. This is consistent with previous studies showing that endoscopic screening reduces gastric cancer mortality.
Scalar social dynamics in female vervet monkey cohorts

Primate social life and behaviour is contingent on a number of levels: phylogenetic, functional and proximate. Although this contingency is recognized by socioecological theory, variability in behaviour is still commonly viewed as ‘noise’ around a central tendency, rather than as a source of information. An alternative view is that selection has acted on social reaction norms that encompass demographic variation both between and within populations and demes. Here, using data from vervet monkeys (Chlorocebus aethiops pygerythrus), we illustrate how this alternative approach can provide a more nuanced account of social structure and its relation to contingent events at the ecological and demographic levels. Female vervets in our South African study population live in large groups, where they experience demographic stress and increased levels of feeding competition relative to an East African population in Amboseli, Kenya. Females in the South African population did not respond to this stress by intensifying competition for high-value grooming partners to help alleviate the effects of this stress, did not show the expected rank-related patterns of grooming, nor did they show any spatial association with their preferred grooming partners. Increased group size therefore resulted in a reorganization of female social engagement that was both qualitatively and quantitatively different to that seen elsewhere, and suggests that female vervets possess the flexibility to shift to alternative patterns of social engagement in response to contingent ecological and demographic conditions.
The expression level of frog relaxin mRNA (fRLX), in the testis of Rana esculenta, is influenced by testosterone

SUMMARY Frog relaxin (fRLX) belongs to the relaxin/insulin gene family present in the testis of Rana esculenta and is specifically expressed by Leydig cells. Since the expression of fRLX transcript changes during the reproductive cycle and is more abundant when circulating levels of androgens are relatively high, we investigated the effect(s) of testosterone and its antagonist (cyproterone acetate, CPA) on its expression pattern, in the testis of the frog Rana esculenta. Results from in vivo and in vitro experiments demonstrate that testosterone strongly induces a significant increase of fRLX mRNA expression in frog testes and, this effect is counteracted by CPA, supporting the existence of intratesticular (autocrine/paracrine) mechanisms of action. Interestingly, in both the control and testosterone-treated testes, fRLX mRNA expression was markedly decreased 24 h post-treatment, as compared to that measured at 2 h and 8 h post-treatment, suggesting that factor(s), other than testosterone, may act(s) in controlling its expression. In addition, RT-PCR analysis and in situ hybridization performed on frog testis injected with CPA for 15 days, on alternate days, showed a strong decrease of fRLX expression, suggesting that CPA counteracts the effect of testosterone on fRLX expression. Taken together our results strongly indicate that changes in the production, by the Leydig cells, of both testosterone and fRLX may represent a marker for the study of Leydig cell activity in the testis of the frog Rana esculenta.
Systems proteomics for translational network medicine.

Proteomics encompasses diverse methods by which to study proteins, their abundance, structure, posttranslational modifications, and physical or functional interacting partners to map the proteome, the protein complement of a genome. Although such methods can be applied to individual proteins, proteomics facilitates large-scale analysis of complete proteomes or targeted subproteomes (Table 1). Moreover, proteomics enables comparisons between distinct conditions/states, from defined biological sources, across discrete timelines. In general, a proteomic cartography pipeline involves sample acquisition, followed by protein isolation, separation, resolution, and identification (Figure). Along this continuum, each successive module harbors a multistep process, whereby proteomic methodologies can be implemented. Figure. Network systems proteomic pipeline. Strategy extending proteomic profiling from mapping and quantification of protein identities to ontological categorization, pathway analysis and network generation for inclusive systems interpretation. View this table: Table 1. Systems Proteomics Lexicon Once proteins are isolated from the source of interest, 2 major separation strategies have evolved to address proteome complexity.1,2 Traditional gel-based approaches, particularly 2-dimensional gel electrophoresis involving isoelectric focusing followed orthogonally by sodium dodecyl sulfate - polyacrylamide gel electrophoresis, were the earliest methods adopted for protein separation and resolution, comparative assessment of relative abundance, and initial reduction of protein complexity before mass spectrometry (MS). Although 2-dimensional gel electrophoresis remains common, the advent of quantitative MS techniques has led to increased application of various gel-based and gel-free alternatives, whereby protein or peptide complexity is addressed by separation and resolution before or in conjunction with MS, whereas quantification is subsequently measured from MS precursor or fragment ion spectra. Choice of separation strategy is influenced by study objectives and resources, often guided by advantages and limitations to each approach. Quantitative MS methods tend to be less time- and labor-intensive while offering greater potential throughput and data acquisition, yet in instances where 2-dimensional gel electrophoresis approaches are applied in parallel, use of …
Low Levels of Corticotropin-Releasing Hormone during Early Pregnancy Are Associated with Precocious Maturation of the Human Fetus

Elevation in placental corticotropin-releasing hormone (pCRH) during the last trimester of pregnancy has been associated with an increased risk for preterm delivery. Less is known about the consequences for the human fetus exposed to high levels of pCRH early in pregnancy. pCRH levels were measured in 138 pregnant women at least once at 15, 20 and 25 weeks of gestation. At 25 weeks of gestation, fetal heart rate (FHR) responses to a startling vibroacoustic stimulus (VAS) were recorded as an index of maturity. pCRH levels at 15 weeks of gestation, but at no later point, predicted FHR responses to the VAS. Fetuses exposed to the lowest concentrations of pCRH at 15 weeks of gestation exhibited a distinguishable response to the VAS, whereas fetuses exposed to higher levels of pCRH did not respond. The findings suggest that exposure to low levels of pCRH early in gestation may be optimal and associated with a response pattern indicating greater maturity.
Serial assessment of left ventricular diastolic function after Fontan procedure

OBJECTIVE To assess longitudinal changes in systemic ventricular diastolic function late after the Fontan procedure. DESIGN AND PATIENTS Prospective study of 13 patients at 2.8 (2.0) years (early) and again at 11.4 (2.0) years (late) after the Fontan procedure by Doppler echocardiography with simultaneous ECG, phonocardiogram, and respirometer. SETTING Tertiary paediatric cardiac centre. RESULTS The isovolumic relaxation time (IVRT) was significantly longer, and E wave deceleration time, E and A wave velocities, and E:A velocity ratio were reduced compared to normal both early and late after the procedure. The mean (SD) z score of IVRT decreased significantly from +2.50 (1.00) to +1.24 (0.80) (p = 0.002), and the z score of the E wave deceleration time decreased from −1.69 (1.31) to −2.40 (1.47) (p = 0.03) during follow up. The A wave deceleration time also tended to decrease (early 80 (12) ms v late 73 (11) ms, p = 0.13) with increased follow up. There were no changes of the E and A wave velocities and E:A velocity ratio. The E wave velocity was inversely related to IVRT both early (r = −0.82, p = 0.001) and late (r = −0.59, p = 0.034) after the operation. The prevalence of diastolic flow during isovolumic relaxation decreased from 85% (11/13) to 38% (5/13) (p = 0.04), while that of mid diastolic flow increased from 23% (3/13) to 77% (10/13) (p = 0.02) between the two assessments. CONCLUSIONS Left ventricular diastolic function remains highly abnormal late after the Fontan procedure. The longitudinal changes demonstrated on follow up are compatible with reduction of left ventricular compliance in addition to persisting abnormalities of relaxation.
Gamma-ray bursts prompt emission spectrum: an analysis of a photosphere model

A thermal radiative component is likely to accompany the first stages of the prompt emission of gamma-ray bursts (GRBs) and X-ray flashes. We analyse the effect of such a component on the observable spectrum, assuming that the observable effects are due to a dissipation process occurring below or near the thermal photosphere. For comparable energy densities in the thermal and leptonic components, the dominant emission mechanism is Compton scattering. This leads to a nearly flat energy spectrum (νFν∝ν0) above the thermal peak at approximately 10–100 keV and below 10–100 MeV, for a wide range of optical depths 0.03≲τ≲100, regardless of the details of the dissipation mechanism or the strength of the magnetic field. For higher values of the optical depth, a Wien peak is formed at 100 keV to 1 MeV. In particular, these results are applicable to the internal shock model of GRBs, as well as to slow dissipation models, e.g. as might be expected from reconnection, if the dissipation occurs at a sub-photospheric radii. We conclude that dissipation near the thermal photosphere can naturally explain (i) clustering of the peak energy at sub-MeV energies at early times, (ii) steep slopes observed at low energies, and (iii) a flat spectrum above 10 keV at late times. Our model thus provides an alternative scenario to the optically thin synchrotron–synchrotron self-Compton model.
Exploring a minimal two-component p53 model

The tumor suppressor p53 coordinates many attributes of cellular processes via interlocked feedback loops. To understand the biological implications of feedback loops in a p53 system, a two-component model which encompasses essential feedback loops was constructed and further explored. Diverse bifurcation properties, such as bistability and oscillation, emerge by manipulating the feedback strength. The p53-mediated MDM2 induction dictates the bifurcation patterns. We first identified irradiation dichotomy in p53 models and further proposed that bistability and oscillation can behave in a coordinated manner. Further sensitivity analysis revealed that p53 basal production and MDM2-mediated p53 degradation, which are central to cellular control, are most sensitive processes. Also, we identified that the much more significant variations in amplitude of p53 pulses observed in experiments can be derived from overall amplitude parameter sensitivity. The combined approach with bifurcation analysis, stochastic simulation and sampling-based sensitivity analysis not only gives crucial insights into the dynamics of the p53 system, but also creates a fertile ground for understanding the regulatory patterns of other biological networks.
Gaussian process modeling of aperture efficiency ripple in reflector antennas

This paper presents a low cost Gaussian process (GP) modeling technique for antenna responses that exhibit highly oscillatory behavior as a function of frequency. Using a judiciously constructed composite covariance function that is able to capture the quasi-periodic behavior of the responses, an accurate interpolant could be established with far fewer training points than would normally be considered necessary for representing the oscillatory behaviour. The specific example investigated here is the aperture efficiency response of an offset Gregorian reflector antenna system, which has previously been shown to possess an oscillatory response which is computationally expensive to model accurately. Initial results using the suggested method are promising, with accurate interpolants of the expected response generated using only a sparse set of randomly selected training data. Notably, predictions were accurate even in sections of the response that contained multiple contiguous cycles and no training points.
Dementia with Lewy Bodies versus Alzheimer's Disease and Parkinson's Disease Dementia: A Comparison of Cognitive Profiles

Background and Purpose It is particularly difficult to differentiate dementia with Lewy bodies (DLB) from the related dementias of Alzheimer's disease (AD) and Parkinson's disease dementia (PDD). Few studies have been designed to comparatively analyze detailed neuropsychological assessments of DLB patients and patients with AD and PDD. Methods Three groups of patients participated in this study: 10 with DLB, 76 with AD, and 17 with PDD, who had been diagnosed as probable DLB, AD, and PDD, respectively, according to the clinical criteria of the consortium on DLB, National Institute of Neurological and Communicative Diseases and Stroke/Alzheimer's Disease and Related Disorder Association, and the clinical diagnostic criteria for PDD. All patients were evaluated by careful neurological examination with detailed neuropsychological testing. Results Significant differences among the three groups were found for attention, memory, and executive function, which included tasks of backward digit span, three-word recall, verbal delayed recall, and the Stroop test. Post hoc analysis revealed that the deficiencies of attention on the digit span task were greater in the DLB group than in the AD and PDD groups. The scores for episodic verbal memory tasks were significantly lower in the DLB and AD groups than in the PDD group. The performance in frontal executive function, as indicated by the Stroop test, was significantly worse in the DLB and PDD groups than in the AD group. Conclusions The results of the present study show that the pattern of cognitive dysfunction, in terms of attention, episodic memory, and executive functions, differ between patients with DLB and patients with AD and PDD.
Randomized Controlled Trials of Add-On Antidepressants in Schizophrenia

Background: Despite adequate treatment with antipsychotics, a substantial number of patients with schizophrenia demonstrate only suboptimal clinical outcome. To overcome this challenge, various psychopharmacological combination strategies have been used, including antidepressants added to antipsychotics. Methods: To analyze the efficacy of add-on antidepressants for the treatment of negative, positive, cognitive, depressive, and antipsychotic-induced extrapyramidal symptoms in schizophrenia, published randomized controlled trials assessing the efficacy of adjunctive antidepressants in schizophrenia were reviewed using the following parameters: baseline clinical characteristics and number of patients, their on-going antipsychotic treatment, dosage of the add-on antidepressants, duration of the trial, efficacy measures, and outcomes. Results: There were 36 randomized controlled trials reported in 41 journal publications (n=1582). The antidepressants used were the selective serotonin reuptake inhibitors, duloxetine, imipramine, mianserin, mirtazapine, nefazodone, reboxetin, trazodone, and bupropion. Mirtazapine and mianserin showed somewhat consistent efficacy for negative symptoms and both seemed to enhance neurocognition. Trazodone and nefazodone appeared to improve the antipsychotics-induced extrapyramidal symptoms. Imipramine and duloxetine tended to improve depressive symptoms. No clear evidence supporting selective serotonin reuptake inhibitors’ efficacy on any clinical domain of schizophrenia was found. Add-on antidepressants did not worsen psychosis. Conclusions: Despite a substantial number of randomized controlled trials, the overall efficacy of add-on antidepressants in schizophrenia remains uncertain mainly due to methodological issues. Some differences in efficacy on several schizophrenia domains seem, however, to exist and to vary by the antidepressant subgroups—plausibly due to differences in the mechanisms of action. Antidepressants may not worsen the course of psychosis. Better designed, larger, and longer randomized controlled trials are needed.
Anti-GT1a IgG in Guillain-Barré syndrome

Objective: To investigate the presence of serum anti-GT1a IgG in Guillain-Barré syndrome (GBS) and its relation to clinical manifestations. Background: Several patients with GBS and bulbar palsy have been reported to have serum anti-GT1a IgG. Most, however, also have anti-GQ1b IgG. A previous study failed to detect GT1a in human cranial nerves, but GQ1b was abundant in human ocular motor nerves. Whether anti-GT1a IgG itself determines the clinical manifestations is not yet clear. Methods: The association of clinical manifestations with the presence of anti-GT1a IgG and with its cross reactivity was investigated. An immunochemical study was performed to determine whether GT1a is present in human cranial nerves. Results: Anti-GT1a and anti-GQ1b IgG were positive in 10% and 9% respectively of 220 consecutive patients with GBS. Patients with anti-GT1a IgG often had cranial nerve palsy (ophthalmoparesis, 57%; facial palsy, 57%; bulbar palsy, 70%), and 39% needed artificial ventilation. These features were also seen in patients with anti-GQ1b IgG. There was no significant difference between the two groups with respect to the frequency of clinical findings. An enzyme-linked immunosorbent assay showed that anti-GT1a IgG cross reacted with GQ1b in 75% of the patients, GD1a in 30%, GM1 in 20%, and GD1b in 20%. All five patients who carried anti-GT1a IgG that did not cross react with GQ1b had bulbar palsy, neck weakness, absence of sensory disturbance, and positive Campylobacter jejuni serology. Thin-layer chromatography with immunostaining showed that GT1a is present in human oculomotor and lower cranial nerves. Conclusions: These findings provide further evidence that anti-GT1a IgG itself can determine clinical manifestations. The distinctive clinical features of patients with anti-GT1a IgG without anti-GQ1b activity distinguish a specific subgroup within GBS.