Miracle-dz/UniFAR-FTUs huggingface dataset:
Knockdown of KLK11 reverses oxaliplatin resistance by inhibiting proliferation and activating apoptosis via suppressing the PI3K/AKT signal pathway in colorectal cancer cell

Introduction Kallikrein 11 (KLK11) plays a crucial role in drug-resistance to oxaliplatin (L-OHP) in the treatment of metastatic colorectal cancer (mCRC). The study aimed to investigate the role of KLK11 in chemoresistance, and to clarify the mechanism underlying reverse of L-OHP resistance by knockdown of KLK11. Materials and Methods Resistance to oxaliplatin was induced in HCT-8 (HCT-8/L-OHP) colorectal adenocarcinoma cell lines by exposing cells to increasing concentrations of L-OHP. MTT, RT-qPCR, and Western blot were used to evaluate the resistance to L-OHP. We then knocked down KLK11 in HCT-8/L-OHP cells to explore the mechanism through which KLK11 reverses L-OHP resistance. The mRNA and protein expression of KLK11 in tissues from mCRC patients were detected by RT-qPCR and immunohistochemistry. Results The drug resistance index (RI) of HCT-8/L-OHP cell line to L-OHP, 5-Fluorouracil (5-FU), Irinotecan (CPT-11), Vincristine (VCR) and Cis-diamminedichloroplatinum (CDDP) were 10, 5.35, 3.23, 1.28, and 6.64, respectively. Increased expression of multi-drug resistant genes ABCC1, ABCB1, GSTP1 and ERCC1 were detected in HCT-8/L-OHP cell line. Moreover, the activated PI3K/AKT pathway was related to L-OHP-resistance. Knockdown of KLK11 in HCT-8/L-OHP cell reversed L-OHP-resistance by inhibiting cell growth and activating apoptosis via suppressing the PI3K/AKT signaling pathway. Moreover, high expression of KLK11 in chemoresistant-patients was associated with lymph node metastases and histopathology. Conclusion KLK11 was highly expressed in chemoresistant-patients and L-OHP-resistant cell lines. Moreover, L-OHP resistance was associated with activated PI3K/AKT signal pathway. Knockdown of KLK11 can reverse L-OHP resistance by blocking PI3K/AKT signaling pathway.
The effect of short-term coenzyme Q10 supplementation and pre-cooling strategy on cardiac damage markers in elite swimmers

Abstract Strenuous physical exercise and hyperthermia may paradoxically induce oxidative stress and adverse effects on myocardial function. The purpose of this study was to investigate the effect of 14-d coenzyme Q10 (CoQ10) supplementation and pre-cooling on serum creatine kinase-MB (CK-MB), cardiac Troponin I (cTnI), myoglobin (Mb), lactate dehydrogenase (LD), total antioxidant capacity (TAC), lipid peroxidation (LPO) and CoQ10 concentration in elite swimmers. In total, thirty-six healthy males (mean age 17 (sd 1) years) were randomly selected and divided into four groups of supplementation, supplementation with pre-cooling, pre-cooling and control. During an eighteen-session protocol in the morning and evening, subjects attended speed and endurance swimming training sessions for 5 km in each session. Blood sampling was done before (two stages) and after (two stages) administration of CoQ10 and pre-cooling. ANCOVA and repeated measurement tests with Bonferroni post hoc test were used for the statistical analysis of the data. There was no significant statistical difference among groups for the levels of CK-MB, cTnI, Mb, LD, TAC, LPO and CoQ10 at the presampling (stages 1 and 2) (P>0·05). However, pre-cooling and control groups show a significant increase in the levels of CK-MB, cTnI, Mb, LD and LPO compared with the supplementation and supplementation with pre-cooling groups in the post-sampling (stages 1 and 2) (P<0·05), except for the TAC and CoQ10. Consequently, CoQ10 supplementation prevents adverse changes of myocardial damage and oxidative stress during swimming competition phase. Meanwhile, the pre-cooling strategy individually has no desired effect on the levels of CK-MB, cTnI, Mb, LD, LPO, TAC and CoQ10.
Two Influential Primate Classifications Logically Aligned

Classifications and phylogenies of perceived natural entities change in the light of new evidence. Taxonomic changes, translated into Code-compliant names, frequently lead to name:meaning dissociations across succeeding treatments. Classification standards such as the Mammal Species of the World (MSW) may experience significant levels of taxonomic change from one edition to the next, with potential costs to long-term, large-scale information integration. This circumstance challenges the biodiversity and phylogenetic data communities to express taxonomic congruence and incongruence in ways that both humans and machines can process, that is, to logically represent taxonomic alignments across multiple classifications. We demonstrate that such alignments are feasible for two classifications of primates corresponding to the second and third MSW editions. Our approach has three main components: (i) use of taxonomic concept labels, that is name sec. author (where sec. means according to), to assemble each concept hierarchy separately via parent/child relationships; (ii) articulation of select concepts across the two hierarchies with user-provided Region Connection Calculus (RCC-5) relationships; and (iii) the use of an Answer Set Programming toolkit to infer and visualize logically consistent alignments of these input constraints. Our use case entails the Primates sec. Groves (1993; MSW2–317 taxonomic concepts; 233 at the species level) and Primates sec. Groves (2005; MSW3–483 taxonomic concepts; 376 at the species level). Using 402 RCC-5 input articulations, the reasoning process yields a single, consistent alignment and 153,111 Maximally Informative Relations that constitute a comprehensive meaning resolution map for every concept pair in the Primates sec. MSW2/MSW3. The complete alignment, and various partitions thereof, facilitate quantitative analyses of name:meaning dissociation, revealing that nearly one in three taxonomic names are not reliable across treatments—in the sense of the same name identifying congruent taxonomic meanings. The RCC-5 alignment approach is potentially widely applicable in systematics and can achieve scalable, precise resolution of semantically evolving name usages in synthetic, next-generation biodiversity, and phylogeny data platforms.
Querying for Queries: Indexes of Queries for Efficient and Expressive IT-PIR

We propose indexes of queries, a novel mechanism for supporting efficient, expressive, and information-theoretically private single-round queries over multi-server PIR databases. Our approach decouples the way that users construct their requests for data from the physical layout of the remote data store, thereby enabling users to fetch data using "contextual" queries that specify which data they seek, as opposed to "positional" queries that specify where those data happen to reside. For example, an open-access eprint repository could employ indexes of queries to let researchers fetch academic articles via PIR queries such as for "this year's 5 most cited papers about PIR" or "the 3 most recently posted papers about PIR". Our basic approach is compatible with any PIR protocol in the ubiquitous "vector-matrix" model for PIR, though the most sophisticated and useful of our constructions rely on some nice algebraic properties of Goldberg's IT-PIR protocol (Oakland 2007). We have implemented our techniques as an extension to Percy++, an open-source implementation of Goldberg's IT-PIR protocol. Our experiments indicate that the new techniques can greatly improve not only utility for private information retrievers but also efficiency for private information retrievers and servers alike.
Bilobalide alleviates depression-like behavior and cognitive deficit induced by chronic unpredictable mild stress in mice

Bilobalide (BB), a unique constituent of Ginkgo biloba, has powerful neuroprotection and stress-alleviating properties. However, whether BB exerts a positive effect on depression and cognitive deficit induced by chronic stress is not known. The present study was designed to investigate the influence of BB on depression and cognitive impairments induced by chronic unpredictable mild stress (CUMS) in mice. During daily exposure to stressors for 5 consecutive weeks, mice were administered BB at the doses of 0, 3, or 6 mg/kg/day intraperitoneally. We replicated the finding that CUMS induced depression-like behavior and cognitive deficits as the CUMS+vehicle (VEH) group showed a significant increase in immobility in the tail suspension test, a decrease in the discrimination index of the novel object recognition task, and increased latency to platform and decreased number of platform crossings in the Morris water maze compared with the control+VEH group. Chronic administration of BB effectively reversed these alterations. In addition, the CUMS+VEH group showed significantly higher levels of baseline serum corticosterone than those of the control+VEH group and BB dose-dependently inhibited this effect. Our results suggest that BB may be useful for inhibition of depression-like behavior and cognitive deficits, and this protective effect was possibly exerted partly through an action on the hypothalamic–pituitary–adrenal axis.
Production of cellulosic organic acids via synthetic fungal consortia.

Consolidated bioprocessing (CBP) is a potential breakthrough technology for reducing costs of biochemical production from lignocellulosic biomass. Production of cellulase enzymes, saccharification of lignocellulose, and conversion of the resulting sugars into a chemical of interest occur simultaneously within a single bioreactor. In this study, synthetic fungal consortia composed of the cellulolytic fungus Trichoderma reesei and the production specialist Rhizopus delemar demonstrated conversion of microcrystalline cellulose (MCC) and alkaline pre-treated corn stover (CS) to fumaric acid in a fully consolidated manner without addition of cellulase enzymes or expensive supplements such as yeast extract. A titer of 6.87 g/L of fumaric acid, representing 0.17 w/w yield, were produced from 40 g/L MCC with a productivity of 31.8 mg/L/hr. In addition, lactic acid was produced from MCC using a fungal consortium with Rhizopus oryzae as the production specialist. These results are proof-of-concept demonstration of engineering synthetic microbial consortia for CBP production of naturally occurring biomolecules.
Growth, body composition, and plasma androgen concentration of male broiler chickens subjected to different regimens of photoperiod and light intensity.

Day-old male Hubbard broilers (960) were assigned to one of four treatments (two pens of 120 birds per treatment) to evaluate the effects of high (150 lx) versus low (5 lx) light intensity and constant 23 h light (L):1 h dark (D) versus increasing (6L:18D increasing 4 h/wk to 23L:1D) photoperiod in a 2 x 2 factorial arrangement of treatments. Birds were raised to 8 wk on a typical commercial four-diet program. Low-intensity birds were heavier than high-intensity birds from 2 to 8 wk (3.25% heavier at 8 wk). Birds raised under constant photoperiod were heavier than birds raised under increasing photoperiod from 2 to 5 wk and at 7 wk of age (1.71% heavier at 7 wk). High-intensity bird carcasses had lower percentage body fat, weight of fat, and higher percentage body protein at 8 wk compared with low-intensity bird carcasses (7.77, 10.76, and 1.77%, respectively). High-intensity birds had smaller abdominal fat pads (weight and percentage of body weight) at 8 wk compared with low-intensity birds (15.46 and 12.17%, respectively). Photoperiod did not affect body composition. Birds treated with increasing photoperiod had larger testes (weight and percentage of body weight) at 8 wk compared with birds under the constant photoperiod (29.36 and 30.51%, respectively). Birds treated under increasing photoperiod had higher plasma androgen concentrations at 7 wk compared with birds under constant photoperiod (testosterone, .270 versus .188 ng/mL; androstenedione, .632 versus .494 ng/mL). (ABSTRACT TRUNCATED AT 250 WORDS)
Mean-Field Dynamics of the Spin–Magnetization Coupling in Ferromagnetic Materials: Application to Current-Driven Domain Wall Motions

In this paper, we present a mean-field model of the spin-magnetization coupling in ferromagnetic materials. The model includes non-isotropic diffusion for spin dynamics, which is crucial in capturing strong spin-magnetization coupling. The derivation is based on a moment closure of the quantum spinor dynamics coupled to magnetization dynamics via the Landau-Lifchitz-Gilbert equation and the spin-transfer torque. The method is general and systematic, and can be used to study spin-orbit coupling as well. The form of the non-isotropic diffusion is generic, i.e., independent of the closure assumptions. Fully 3-D numerical simulation is implemented and applied to predict current-driven domain wall motions. It shows a non-linear dependence of the wall speed on the current density, which agrees with the experiments.
Recombinant AAV8-mediated intrastriatal gene delivery of CDNF protects rats against methamphetamine neurotoxicity

Methamphetamine (METH) exerts significant neurotoxicity in experimental animals and humans when taken at high doses or abused chronically. Long-term abusers have decreased dopamine levels, and they are more likely to develop Parkinson's disease (PD). To date, few medications are available to treat the METH-induced damage of neurons. Glial cell line-derived neurotrophic factor (GDNF) has been previously shown to reduce the dopamine-depleting effects of neurotoxic doses of METH. However, the effect of cerebral dopamine neurotrophic factor (CDNF), which has been reported to be more specific and efficient than GDNF in protecting dopaminergic neurons against 6-OHDA toxicity, in attenuating METH neurotoxicity has not been determined. Thus, the present study aimed to evaluate the neuroprotective effect of CDNF against METH-induced damage to the dopaminergic system in vitro and in vivo. In vitro, CDNF protein increased the survival rate and reduced the tyrosine hydroxylase (TH) loss of METH-treated PC12 cells. In vivo, METH was administered to rats following human CDNF overexpression mediated by the recombinant adeno-associated virus. Results demonstrated that CDNF overexpression in the brain could attenuate the METH-induced dopamine and TH loss in the striatum but could not lower METH-induced hyperthermia.
Effect of diet and population density on male turkeys under various environmental conditions. 2. Body composition and meat yield.

Large White Nicholas male turkeys were reared at two stocking densities (.21 or .46 m2 per bird) and fed one of four diets: 1) control corn and soybean (mash) with 1% fat (CSM); 2) as Diet 1, pelleted (CSP); 3) as Diet 1 with supplemental fat increasing from 1 through 8% with age (CSF); and 4) as Diet 1 with barley at 0, 20, 35, 50, and 65% during successive 4-wk periods (CSB). The turkeys were reared in four environments: (A) intermittent light schedule [4(2 h light (L):4 h dark D))] with temperature at 7 or 21 C during light and dark photoperiod, respectively; (B) and (D) with intermittent light (2L:4D) with a constant 21 and 7 C temperatures, respectively; (C) continuous light cycle (18L:6D) with temperatures as in Environment A. At 20 wk of age, two turkeys per replicate pen, were killed for determination of body composition and meat yield. Compared with turkeys fed CSM diet, those on CSF and CSP diet had increased percentage carcass fat. Meat yield per bird and percentage carcass fat were greater for turkeys reared at . 46 m2 per bird compared with rearing at . 21 m2 per bird. Pelleting and fat supplementation resulted in significantly increased amounts of breast meat and leg compared with CSM. Breast meat yield (percentage) and amount were greater at 7 C (Environment D) than at 21 C (Environment B) and the cycling regimen (Environment A). Percentage abdominal fat was greatest at 7 C. Interactions of environment and diet were detected for breast meat yield percentage (P less than .023) and weight (P less than .036). Diet type had no effect on percentage breast meat or weight in Environment C. An increased amount of breast meat was obtained by feeding CSP in Environments A, B, and D, and dietary fat supplementation increased breast meat yield in Environments A and D over CSM treatment.
A comparison of argon, carbon dioxide, and nitrogen in a broiler killing system.

Argon, CO2, and N2 gasses were each evaluated in a broiler chicken gas killing system. Birds were killed by individual exposure to one of the three gasses for 2 min in a flow-through system. The gasses were evaluated by determining the time, in seconds, for the following responses: first reaction to the gas, loss of posture, eye closure, initiation of death struggle, and cessation of respiration. Percentage blood loss over a 3-min bleed time was determined by weight loss. Breast muscle pH values were determined at 15 min and 24 h post-mortem on the Pectoralis major muscle. Carbon dioxide resulted in the earliest first reaction, loss of posture, eye closure, and initiation of struggle. Argon and N2 exhibited a delayed first reaction, a less severe early reaction, but a more severe unconscious death struggle. All birds died in approximately 75 s. Results indicate that the flow-through gas system takes longer to kill broilers than the immersion systems previously reported. Gas killing resulted in lower (P < .05) blood loss. Initial breast muscle pH values were significantly highest for the birds killed with CO2, followed by the control treatment, which was significantly higher than the values for broilers killed with either Ar or N2. After 24 h of chilling, there were no differences in broiler breast muscle pH among the four treatments. These results indicated that a flow-through gassing chamber may be a feasible, although slower, method of performing gas killing as compared to an immersion system.
Etiology of Genital Ulcer Disease in Male Patients Attending a Sexually Transmitted Diseases Clinic: First Assessment in Cuba

Background Sexually transmitted diseases (STDs) and in particular genital ulcer disease (GUD) have a major impact on morbidity and mortality in developing countries. The World Health Organization recommends the use of syndromic guidelines for the treatment of sexually transmitted infections (STIs) in resource-constrained countries. Surveillance of autochthonous etiologies provides epidemiological information contributing to the prevention and treatment of STIs. We investigated the etiology and factors associated with GUD among male patients attending a STD clinic in Havana, Cuba. Methods Swabs from genital ulcers of 113 male patients, collected from May 2012 to June 2015, were analyzed using PCR for herpes simplex virus types 1 and 2, Treponema pallidum, Haemophilus ducreyi, and Chlamydia trachomatis. We also investigated the clinical and epidemiological characteristics associated with the presence of these pathogens in GUD. Results At least one of the pathogens was detected in 70% of patients. The occurrence of the pathogens was herpes simplex virus type 2 (HSV-2) (51.3%), T. pallidum (29.2%), and C. trachomatis (1.8%). Co-infections occurred as follows: T. pallidum-HSV-2 (10.6%), C. trachomatis-HSV-2 (0.9%) and C. trachomatis-T. pallidum (0.9%). Herpes simplex virus type 1 and H. ducreyi were not detected. Ages 15 to 40 years, HIV-positive serostatus, and no condom use were significant risk factors for the presence of HSV-2 in genital ulcers. Conclusions Our preliminary results highlight the predominance of HSV-2 and T. pallidum as the leading GUD etiologies in the study population and identified risk factors associated with HSV-2. This information should help to inform guidelines for better management of GUD in Havana, Cuba.
School Achievement, IQ, and Risk of Alcohol Use Disorder: A Prospective, Co-Relative Analysis in a Swedish National Cohort.

OBJECTIVE Most studies suggest that poor cognitive functioning in adolescence increases risk of alcohol use disorders (AUDs). We seek to clarify the causes of this association. METHOD In Swedish individuals born from 1972 to 1990 in whom cognitive functioning was assessed by school achievement at age 16 years (males and females, N = 1,796,048) and by IQ at ages 18-20 (males, N = 554,644), we examined the hazard ratio (HR) for AUD ascertained from public registries. We examined and modeled risk of AUD in cousins, full siblings, and monozygotic twin pairs discordant for school achievement and IQ scores. RESULTS In males and females, HRs for AUD per standard deviation of increasing school achievement equaled 0.47 (95% CI [0.46, 0.47]) and 0.52 (95% CI [0.51, 0.53]), respectively. In males, the HR for AUD per standard deviation of increasing IQ was 0.54 (95% CI [0.53, 0.55]). Excluding onsets of AUD within 5 years of the cognitive evaluation did not weaken the association, nor did controlling for alcohol intake and problems at IQ assessment. The HRs for AUD in relative pairs were higher than those observed in the population but significantly less than unity. We predicted the following HRs for AUD in discordant monozygotic twins for school achievement in males and females and for IQ in males: 0.66 (95% CI [0.62, 0.70]), 0.67 (95% CI [0.62, 0.73]), and 0.72 (95% CI [0.65, 0.79]), respectively. CONCLUSIONS Cognitive ability in adolescence, assessed by two different measures, strongly predicts risk of AUD. This association cannot be explained by early symptoms of AUD impairing performance. Co-relative analyses suggest that this association arises partly from familial confounding and partly from a causal impact of low cognitive ability on AUD risk.
Linking physiological parameters to perturbations in the human exposome: Environmental exposures modify blood pressure and lung function via inflammatory cytokine pathway

ABSTRACT Human biomonitoring is an indispensable tool for evaluating the systemic effects derived from external stressors including environmental pollutants, chemicals from consumer products, and pharmaceuticals. The aim of this study was to explore consequences of environmental exposures to diesel exhaust (DE) and ozone (O3) and ultimately to interpret these parameters from the perspective of in vitro to in vivo extrapolation. In particular, the objective was to use cytokine expression at the cellular level as a biomarker for physiological systemic responses such as blood pressure and lung function at the systemic level. The values obtained could ultimately link in vivo behavior to simpler in vitro experiments where cytokines are a measured parameter. Human exposures to combinations of DE and O3 and the response correlations between forced exhaled volume in 1 second (FEV1), forced vital capacity (FVC), systolic and diastolic blood pressure (SBP and DBP, respectively), and 10 inflammatory cytokines in blood (interleukins 1β, 2, 4, 5, 8, 10, 12p70 and 13, IFN-γ, and TNF-α) were determined in 15 healthy human volunteers. Results across all exposures revealed that certain individuals displayed greater inflammatory responses compared to the group and, generally, there was more between-person variation in the responses. Evidence indicates that individuals are more stable within themselves and are more likely to exhibit responses independent of one another. Data suggest that in vitro findings may ultimately be implemented to elucidate underlying adverse outcome pathways (AOP) for linking high-throughput toxicity tests to physiological in vivo responses. Further, this investigation supports assessing subjects based upon individual responses as a complement to standard longitudinal (pre vs. post) intervention grouping strategies. Ultimately, it may become possible to predict a physiological (systemic) response based upon cellular-level (in vitro) observations.