Miracle-dz/UniFAR-FTUs huggingface dataset:
Neural Mechanisms Underlying Cross-Modal Phonetic Encoding

Audiovisual (AV) integration is essential for speech comprehension, especially in adverse listening situations. Divergent, but not mutually exclusive, theories have been proposed to explain the neural mechanisms underlying AV integration. One theory advocates that this process occurs via interactions between the auditory and visual cortices, as opposed to fusion of AV percepts in a multisensory integrator. Building upon this idea, we proposed that AV integration in spoken language reflects visually induced weighting of phonetic representations at the auditory cortex. EEG was recorded while male and female human subjects watched and listened to videos of a speaker uttering consonant vowel (CV) syllables /ba/ and /fa/, presented in Auditory-only, AV congruent or incongruent contexts. Subjects reported whether they heard /ba/ or /fa/. We hypothesized that vision alters phonetic encoding by dynamically weighting which phonetic representation in the auditory cortex is strengthened or weakened. That is, when subjects are presented with visual /fa/ and acoustic /ba/ and hear /fa/ (illusion-fa), the visual input strengthens the weighting of the phone /f/ representation. When subjects are presented with visual /ba/ and acoustic /fa/ and hear /ba/ (illusion-ba), the visual input weakens the weighting of the phone /f/ representation. Indeed, we found an enlarged N1 auditory evoked potential when subjects perceived illusion-ba, and a reduced N1 when they perceived illusion-fa, mirroring the N1 behavior for /ba/ and /fa/ in Auditory-only settings. These effects were especially pronounced in individuals with more robust illusory perception. These findings provide evidence that visual speech modifies phonetic encoding at the auditory cortex. SIGNIFICANCE STATEMENT The current study presents evidence that audiovisual integration in spoken language occurs when one modality (vision) acts on representations of a second modality (audition). Using the McGurk illusion, we show that visual context primes phonetic representations at the auditory cortex, altering the auditory percept, evidenced by changes in the N1 auditory evoked potential. This finding reinforces the theory that audiovisual integration occurs via visual networks influencing phonetic representations in the auditory cortex. We believe that this will lead to the generation of new hypotheses regarding cross-modal mapping, particularly whether it occurs via direct or indirect routes (e.g., via a multisensory mediator).
An ordered pattern of Ana2 phosphorylation by Plk4 is required for centriole assembly

Polo-like kinase 4 (Plk4) initiates an early step in centriole assembly by phosphorylating Ana2/STIL, a structural component of the procentriole. Here, we show that Plk4 binding to the central coiled-coil (CC) of Ana2 is a conserved event, involving Polo-box 3 and a previously unidentified putative CC located adjacent to the kinase domain. Ana2 binding stimulates Plk4 kinase activity in vitro, and, in turn, is phosphorylated along its length. Previous studies showed that Plk4 phosphorylates the C-terminal STAN domain of Ana2/STIL, triggering binding and recruitment of the cartwheel protein Sas6 to the procentriole assembly site. However, the physiological relevance of N-terminal phosphorylation was unknown. We found that Plk4 first phosphorylates the extreme N–terminus of Ana2 which is critical for subsequent STAN domain modification. Phosphorylation of the central region then breaks the Plk4-Ana2 interaction. This phosphorylation pattern is important for centriole assembly and integrity because replacement of endogenous Ana2 with phospho-Ana2 mutants disrupts distinct steps in Ana2 function and inhibits centriole duplication.
NRF2 and glutathione are key resistance mediators to temozolomide in glioma and melanoma cells

Cancer is a leading cause of death worldwide, and while great advances have been made particularly in chemotherapy, many types of cancer still present a dismal prognosis. In the case of glioma, temozolomide (TMZ) is the main option for treatment, but it has limited success due to drug resistance. While this resistance is usually associated to DNA repair mechanisms, in this work we demonstrate that oxidative stress plays an important role. We showed that upon TMZ treatment there is an induction of the nuclear factor erythroid 2-related factor 2 (NRF2), which is the main antioxidant transcription factor regulator in human cells. This is accompanied by an enhancement of glutathione (GSH) concentration in the tumor cells. The effectiveness of this pathway was proven by silencing NFR2, which greatly enhanced cell death upon TMZ treatment both in vitro and in vivo. Also, higher DNA damage and induced cell death was observed by combining BSO - a GSH inhibitor - with TMZ. Similar effects were also observed using in vitro and in vivo models of melanoma, thus possibly indicating that GSH has a decisive role in TMZ resistance in a wider range of tumors. Thus, a combined regimen of BSO and TMZ configures an interesting therapeutic alternative for fighting both glioma and melanoma.
Loss of largest and oldest individuals of the Montpellier snake correlates with recent warming in the southeastern Iberian Peninsula

Abstract The effects of climate change on organisms are now being extensively studied in many different taxa. However, the variation in body size, usually shrinkage in response to increasing temperature, has received little attention regarding to reptiles. During past periods of global warming, many organisms shrank in size, and current evidence and experiments manipulating temperature have shown a biomass decrease in some organisms with increasing temperatures. Here we test whether the body size of the Montpellier snake Malpolon monspessulanus from the southeastern Iberian Peninsula is changing and correlated with the increasing temperature in this region during a 39-year period (1976–2014). We measured the snout–vent length (SVL) of vouchers in scientific collections to check for trends in adult body size at the population level in relation with temperature, while controlling for the age of the individuals (estimated by skeletochronology, n =141). Given the great ontogenetic variation in body size of the study species, we categorized age in 3 classes: “young adults” (under 5 years old), “intermediate adults” (from 5 to 7 years old), and “old adults” (from 8 to 14 years old). By means of linear mixed models, we found a negative relationship between SVL of “old adults” and average annual temperature in the region during the lifetime of each individual. Our results indicate that largest and oldest individuals of the Montpellier Snake, that is, males because of strong sexual size dimorphism in this species, disappeared from the study population, and suggest that it occurred in response to rising environmental temperature.
Neonatal outcomes following fresh as compared to frozen/thawed embryo transfer in in vitro fertilization

In vitro fertilization (IVF) and embryo cryopreservation have become increasingly common in recent years. As utilization increases, it is important to understand the clinical effects these technologies have on offspring, as well as the mechanisms behind these effects. Many epidemiologic studies have observed that pregnancies following IVF are more likely to be affected by obstetric complications such as pre‐eclampsia, preterm birth, and small for gestational age neonates compared with naturally conceived pregnancies. There has been a great deal of research emerging suggesting that these differences are related to the supraphysiologic hormonal environment that results from ovarian superovulation. While pregnancies resulting from frozen embryo transfer are less likely to experience these complications, babies born after frozen transfer are more likely to be large for gestational age. Epigenetic studies point toward differential methylation of genes critical for growth that may be responsible for the increased incidence of larger neonates following transfer of vitrified embryos. Although it does appear that perinatal outcomes are improved by transferring frozen embryos instead of fresh, it would be premature at this time to recommend universal freeze‐all protocols in all patients. This article, as part of the “IVF Reviews” special issue of this journal, aims to expound on the issues outlined above.
Signal Processing by Generalized Receiver in DS-CDMA Wireless Communications Systems

The main characteristics of any wireless communication system are deteriorated as a result 12 of the effect of the additive and multiplicative noise. The effect of addition of noise and 13 interference to the signal generates an appearance of false information in the case of the 14 additive noise. For this reason, the parameters of the received signal, which is an additive 15 mixture of the signal, noise, and interference, differ from the parameters of the transmitted 16 signal. Stochastic distortions of parameters in the transmitted signal, attributable to 17 unforeseen changes in instantaneous values of the signal phase and amplitude as a function 18 of time, can be considered as multiplicative noise. Under stimulus of the multiplicative 19 noise, false information is a consequence of changed parameters of transmitted signals, for 20 example, the parameters of transmitted signals are corrupted by the noise and interference. 21 Thus, the impact of the additive noise and interference may be lowered by an increase in the 22 signal-to-noise ratio (SNR). However, in the case of the multiplicative noise and 23 interference, an increase in SNR does not produce any positive effects. 24
Phosphorylation Networks Regulating JNK Activity in Diverse Genetic Backgrounds

Cellular signaling networks have evolved to enable swift and accurate responses, even in the face of genetic or environmental perturbation. Thus, genetic screens may not identify all the genes that regulate different biological processes. Moreover, although classical screening approaches have succeeded in providing parts lists of the essential components of signaling networks, they typically do not provide much insight into the hierarchical and functional relations that exist among these components. We describe a high-throughput screen in which we used RNA interference to systematically inhibit two genes simultaneously in 17,724 combinations to identify regulators of Drosophila JUN NH2-terminal kinase (JNK). Using both genetic and phosphoproteomics data, we then implemented an integrative network algorithm to construct a JNK phosphorylation network, which provides structural and mechanistic insights into the systems architecture of JNK signaling.
Plasma concentration of progesterone and estradiol during the ovulatory cycle of the turkey.

Radioimmunoassays were used to estimate concentrations of progesterone and estradiol in the peripheral plasma of hens in relation to the first (C1) or second (C2) ovulation in a sequence. Peak concentrations of progesterone were found at 6--3 hr. before ovulation. There were no consistent changes in estradiol concentrations. When blood samples were taken at 2-hr. intervals for 24--48 hrs. , estradiol concentrations peaked at 18 hours before C1 ovulation and during the same time of day (2--6 p.m.) during the period of no ovulation between sequences, but no estradiol peak preceded C2 ovulation. When blood samples were taken from a second population of hens at 1-hr. intervals during the 12 hr. period before expected C2 ovulation, a significant rise in estradiol (P less than 0.01) was associated with the preovulatory peak of progesterone. The preovulatory peak of estradiol in these hens may be linked to a seasonally high rate of secretion of both estradiol and progesterone. As estimated indirectly by hypophysectomy, release of an ovulatory amount of LH in the turkey coincided with the rise of progesterone to the preovulatory peak.
Performance and immunity of heat-stressed broilers fed vitamin- and electrolyte-supplemented drinking water.

The efficacy of different vitamin and electrolyte treatments of drinking water for heat-stressed broilers was studied in two experiments. In Experiment 1, commercial broilers (50% male, 50% female, sexed), were subjected to four drinking water treatments: 1) unsupplemented water (control); 2) B-vitamins plus electrolytes (B+E1); 3) vitamins A, D, and E, B-vitamins plus electrolytes (ADEB+E1); and 4) vitamins A, D, and E and B-vitamins (ADEB). Each treatment group was replicated in eight pens containing 70 birds. All birds were provided ad libitum access to feed through to 43 days of age and subjected to the water treatment from 16 to 21 days and 38 to 43 days. The birds were exposed to the 35 C ambient temperature during the last 72 h of each period. Immune function was tested on the males in each pen while they received the water treatments from 24 to 34 days of age. In comparison with the control, feed conversion was improved 5.6% by ADEB+E1 and ADEB, and body weight gain was improved 6.7% by ADEB (P less than .05). Total and IgG antibody response against SRBC after primary immunization was improved by B+E1; whereas, B+E1 and ADEB treatments improved IgG after secondary immunization. The highest numbers of Sephadex-elicited peritoneal macrophages were found among ADEB-treated birds, but neither adherence nor phagocytic ability of macrophages from either group was affected. Natural killer cells from all except ADEB+E1-treated birds exhibited comparably high tumoricidal activity. (ABSTRACT TRUNCATED AT 250 WORDS)
Population Modeling Integrating Pharmacokinetics, Pharmacodynamics, Pharmacogenetics, and Clinical Outcome in Patients With Sunitinib‐Treated Cancer

The tyrosine kinase inhibitor sunitinib is used as first‐line therapy in patients with metastasized renal cell carcinoma (mRCC), given in fixed‐dose regimens despite its high variability in pharmacokinetics (PKs). Interindividual variability of drug exposure may be responsible for differences in response. Therefore, dosing strategies based on pharmacokinetic/pharmacodynamic (PK/PD) models may be useful to optimize treatment. Plasma concentrations of sunitinib, its active metabolite SU12662, and the soluble vascular endothelial growth factor receptors sVEGFR‐2 and sVEGFR‐3, were measured in 26 patients with mRCC within the EuroTARGET project and 21 patients with metastasized colorectal cancer (mCRC) from the C‐II‐005 study. Based on these observations, PK/PD models with potential influence of genetic predictors were developed and linked to time‐to‐event (TTE) models. Baseline sVEGFR‐2 levels were associated with clinical outcome in patients with mRCC, whereas active drug PKs seemed to be more predictive in patients with mCRC. The models provide the basis of PK/PD‐guided strategies for the individualization of anti‐angiogenic therapies.
Learning Random-Walk Label Propagation for Weakly-Supervised Semantic Segmentation

Large-scale training for semantic segmentation is challenging due to the expense of obtaining training data for this task relative to other vision tasks. We propose a novel training approach to address this difficulty. Given cheaply-obtained sparse image labelings, we propagate the sparse labels to produce guessed dense labelings. A standard CNN-based segmentation network is trained to mimic these labelings. The label-propagation process is defined via random-walk hitting probabilities, which leads to a differentiable parameterization with uncertainty estimates that are incorporated into our loss. We show that by learning the label-propagator jointly with the segmentation predictor, we are able to effectively learn semantic edges given no direct edge supervision. Experiments also show that training a segmentation network in this way outperforms the naive approach.
Evaluation of the Phase-Dependent Rhythm Control of Human Walking Using Phase Response Curves

Humans and animals control their walking rhythms to maintain motion in a variable environment. The neural mechanism for controlling rhythm has been investigated in many studies using mechanical and electrical stimulation. However, quantitative evaluation of rhythm variation in response to perturbation at various timings has rarely been investigated. Such a characteristic of rhythm is described by the phase response curve (PRC). Dynamical simulations of human skeletal models with changing walking rhythms (phase reset) described a relation between the effective phase reset on stability and PRC, and phase reset around touch-down was shown to improve stability. A PRC of human walking was estimated by pulling the swing leg, but such perturbations hardly influenced the stance leg, so the relation between the PRC and walking events was difficult to discuss. This research thus examines human response to variations in floor velocity. Such perturbation yields another problem, in that the swing leg is indirectly (and weakly) perturbed, so the precision of PRC decreases. To solve this problem, this research adopts the weighted spike-triggered average (WSTA) method. In the WSTA method, a sequential pulsed perturbation is used for stimulation. This is in contrast with the conventional impulse method, which applies an intermittent impulsive perturbation. The WSTA method can be used to analyze responses to a large number of perturbations for each sequence. In the experiment, perturbations are applied to walking subjects by rapidly accelerating and decelerating a treadmill belt, and measured data are analyzed by the WSTA and impulse methods. The PRC obtained by the WSTA method had clear and stable waveforms with a higher temporal resolution than those obtained by the impulse method. By investigation of the rhythm transition for each phase of walking using the obtained PRC, a rhythm change that extends the touch-down and mid-single support phases is found to occur.
AER image filtering architecture for vision-processing systems

A VLSI architecture is proposed for the realization of real-time two-dimensional (2-D) image filtering in an address-event-representation (AER) vision system. The architecture is capable of implementing any convolutional kernel F(x,y) as long as it is decomposable into x-axis and y-axis components, i.e., F(x,y)=H(x)V(y), for some rotated coordinate system {x,y} and if this product can be approximated safely by a signed minimum operation. The proposed architecture is intended to be used in a complete vision system, known as the boundary contour system and feature contour system (BCS-FCS) vision model, proposed by Grossberg and collaborators. The present paper proposes the architecture, provides a circuit implementation using MOS transistors operated in weak inversion, and shows behavioral simulation results at the system level operation and some electrical simulations.
DOC: Deep Open Classification of Text Documents

Traditional supervised learning makes the closed-world assumption that the classes appeared in the test data must have appeared in training. This also applies to text learning or text classification. As learning is used increasingly in dynamic open environments where some new/test documents may not belong to any of the training classes, identifying these novel documents during classification presents an important problem. This problem is called open-world classification or open classification. This paper proposes a novel deep learning based approach. It outperforms existing state-of-the-art techniques dramatically.
Fatty acid composition and egg components of specialty eggs.

Egg components, total fat, and fatty acid content of specialty eggs were compared. One dozen eggs were collected and analyzed from each of five different brands from hens fed a diet free of animal fat (SP1), certified organic free-range brown eggs (SP2), uncaged unmedicated brown eggs (SP3), cage-free vegetarian diet brown eggs (SP4), or naturally nested uncaged (SP5). Regular white-shelled eggs were the control. A significant (P < 0.05) difference was observed in the egg components and fatty acid content in different brands. The percentage of yolk was lower (P < 0.05) in SP2 and SP4 with a concomitant increase (P < 0.05) in the percentage of white. The percentage of shell was lower (P < 0.05) in SP4 and SP5. The total edible portion was greater in SP4 and SP5. The yolk:white ratio was greater (P < 0.05) in SP3. The total lipid content was lower in SP4 eggs. The content of palmitic (C16:0), stearic (C18:0), and total saturated fatty acids were lower (P < 0.05) in SP1. No difference was observed in the content of palmitoleic (C16:1), oleic (C18:1), or total monounsaturated fatty acids. The content of n-3 fatty acids in SP2, SP4, and SP5 were similar to control eggs. The ratio of total n-6:n-3 polyunsaturated fatty acids ranged from 39.2 for SP5 to 11.5 for SP1 (P < 0.05). No difference was observed in the total polyunsaturated fatty acid content of eggs (P > 0.05).
Performance on the Nephrology In-Training Examination and ABIM Nephrology Certification Examination Outcomes.

BACKGROUND AND OBJECTIVES Medical specialty and subspecialty fellowship programs administer subject-specific in-training examinations to provide feedback about level of medical knowledge to fellows preparing for subsequent board certification. This study evaluated the association between the American Society of Nephrology In-Training Examination and the American Board of Internal Medicine Nephrology Certification Examination in terms of scores and passing status. DESIGN, SETTING, PARTICIPANTS, & MEASUREMENTS The study included 1684 nephrology fellows who completed the American Society of Nephrology In-Training Examination in their second year of fellowship training between 2009 and 2014. Regression analysis examined the association between In-Training Examination and first-time Nephrology Certification Examination scores as well as passing status relative to other standardized assessments. RESULTS This cohort included primarily men (62%) and international medical school graduates (62%), and fellows had an average age of 32 years old at the time of first completing the Nephrology Certification Examination. An overwhelming majority (89%) passed the Nephrology Certification on their first attempt. In-Training Examination scores showed the strongest association with first-time Nephrology Certification Examination scores, accounting for approximately 50% of the total explained variance in the model. Each SD increase in In-Training Examination scores was associated with a difference of 30 U (95% confidence interval, 27 to 33) in certification performance. In-Training Examination scores also were significantly associated with passing status on the Nephrology Certification Examination on the first attempt (odds ratio, 3.46 per SD difference in the In-Training Examination; 95% confidence interval, 2.68 to 4.54). An In-Training Examination threshold of 375, approximately 1 SD below the mean, yielded a positive predictive value of 0.92 and a negative predictive value of 0.50. CONCLUSIONS American Society of Nephrology In-Training Examination performance is significantly associated with American Board of Internal Medicine Nephrology Certification Examination score and passing status.