Adaptive Cache-Oblivious All-to-All Operation

Modern processors rely on cache memories to reduce the latency of data accesses. Extensive cache misses would thus compromise the usefulness of the scheme. Cache-aware algorithms make use of the knowledge about the cache, such as the cache line size, L, and cache size, Z, to be cache efficient. However, careful tuning of these parameters for these algorithms is needed for different hardware platforms. Cache-oblivious (CO) algorithms were first introduced by Leiserson to work without the knowledge of the cache parameters mentioned earlier, but still achieve optimal work complexity and optimal cache complexity. Here we present CO algorithms for all-to-all operations (analogous to the cross-product operation). Its applications include Convolution, Polynomial Arithmetic, Multiple Sequence Alignment, N-Body Simulation, etc. Given two lists each with n elements, a naive implementation of all-to-all operation incurs O(n²/L) cache misses. Our CO version incurs only O(n²/L²√Z) cache misses. Preliminary experiments on Opteron 1.4GHz and MIPS 250MHz show that the CO implementation achieves two times faster. The profiling tool further confirms that the amount of cache misses is significantly lower. We also consider various situations where (a) the elements have non-uniform sizes, (b) an element cannot fit into the cache, (c) the lengths of the lists vary, and (d) an element is linked list. In addition, we study the extension to K-lists All-to-All Operation and its application. Finally, we will present the empirical results and compare with cache-aware algorithms.Singapore-MIT Alliance (SMA

Mutations in the PKM2 exon-10 region are associated with reduced allostery and increased nuclear translocation.

PKM2 is a key metabolic enzyme central to glucose metabolism and energy expenditure. Multiple stimuli regulate PKM2's activity through allosteric modulation and post-translational modifications. Furthermore, PKM2 can partner with KDM8, an oncogenic demethylase and enter the nucleus to serve as a HIF1α co-activator. Yet, the mechanistic basis of the exon-10 region in allosteric regulation and nuclear translocation remains unclear. Here, we determined the crystal structures and kinetic coupling constants of exon-10 tumor-related mutants (H391Y and R399E), showing altered structural plasticity and reduced allostery. Immunoprecipitation analysis revealed increased interaction with KDM8 for H391Y, R399E, and G415R. We also found a higher degree of HIF1α-mediated transactivation activity, particularly in the presence of KDM8. Furthermore, overexpression of PKM2 mutants significantly elevated cell growth and migration. Together, PKM2 exon-10 mutations lead to structure-allostery alterations and increased nuclear functions mediated by KDM8 in breast cancer cells. Targeting the PKM2-KDM8 complex may provide a potential therapeutic intervention

Ecophysiology and plant size in a tropical epiphytic fern, Asplenium nidus, in Taiwan

Recent studies indicate that, especially in epiphytes, plant size has a strong influence on the ecophysiology of individual leaves of a plant. Extensive data sets that address this phenomenon, however, are limited to a few taxa of flowering plants. It was the purpose of this study to examine numerous physiological parameters in individuals of varying sizes of Asplenium nidus, a widespread epiphytic tropical fern, in a rain forest in northeastern Taiwan. Although stomatal dimensions and frond thickness did not vary with plant size, frond stomatal densities were higher in larger plants. Frond elemental concentration did not vary with plant size for nitrogen, magnesium, phosphorus, and sodium, while the concentrations of carbon, calcium, and potassium changed with plant size, though in different ways. The osmotic concentration of liquid expressed from the fronds did not change with plant size, nor did chlorophyll concentrations and chlorophyll a/b ratio. Fronds excised from smaller plants contained more water yet lost water at lower rates in laboratory drying experiments. Although rates of net CO2 exchange of the fronds measured in situ in the field appeared to increase with plant size, this increase and other size-related differences in gas exchange parameters were not significant. Although some aspects of the ecophysiology of this epiphytic fern varied with changes in plant size, most physiological parameters did not. Thus, the results of this study lend only little support to past findings that plant size is an important consideration in ecophysiological studies of plants

Use of Seasonal Influenza Vaccination and Its Associated Factors among Elderly People with Disabilities in Taiwan: A Population-Based Study

Influenza immunization among elderly people with disabilities is a critical public health concern; however, few studies have examined the factors associated with vaccination rates in non-Western societies.By linking the National Disability Registration System and health service claims dataset from the National Health Insurance program, this population-based study investigated the seasonal influenza vaccination rate among elderly people with disabilities in Taiwan (N = 283,172) in 2008. A multivariate logistic regression analysis was conducted to adjust for covariates.Nationally, only 32.7% of Taiwanese elderly people with disabilities received influenza vaccination. The strongest predictor for getting vaccinated among older Taiwanese people with disabilities was their experience of receiving an influenza vaccination in the previous year (adjusted odds ratio [AOR] = 6.80, 95% confidence interval [CI]: 6.67-6.93). Frequent OPD use (AOR = 1.85, 95% CI: 1.81-1.89) and undergoing health examinations in the previous year (AOR = 1.66, 95% CI: 1.62-1.69) also showed a moderate and significant association with receiving an influenza vaccination.Although free influenza vaccination has been provided in Taiwan since 2001, influenza immunization rates among elderly people with disabilities remain low. Policy initiatives are required to address the identified factors for improving influenza immunization rates among elderly people with disabilities

Ginsenoside-Rg1 Protects the Liver against Exhaustive Exercise-Induced Oxidative Stress in Rats

Despite regular exercise benefits, acute exhaustive exercise elicits oxidative damage in liver. The present study determined the hepatoprotective properties of ginsenoside-Rg1 against exhaustive exercise-induced oxidative stress in rats. Forty rats were assigned into vehicle and ginsenoside-Rg1 groups (0.1 mg/kg bodyweight). After 10-week treatment, ten rats from each group performed exhaustive swimming. Estimated oxidative damage markers, including thiobarbituric acid reactive substance (TBARS) (67%) and protein carbonyls (56%), were significantly (P < 0.01) elevated after exhaustive exercise but alleviated in ginsenoside-Rg1 pretreated rats. Furthermore, exhaustive exercise drastically decreased glutathione (GSH) content (∼79%) with concurrent decreased superoxide dismutase (SOD), catalase (CAT), and glutathione peroxidase (GSH-Px) activities. However, these changes were attenuated in Rg1 group. Additionally, increased xanthine oxidase (XO) activity and nitric oxide (NO) levels after exercise were also inhibited by Rg1 pretreatment. For the first time, our findings provide strong evidence that ginsenoside-Rg1 can protect the liver against exhaustive exercise-induced oxidative damage

Oral Rg1 supplementation strengthens antioxidant defense system against exercise-induced oxidative stress in rat skeletal muscles

BACKGROUND: Previous studies reported divergent results on nutraceutical actions and free radical scavenging capability of ginseng extracts. Variations in ginsenoside profile of ginseng due to different soil and cultivating season may contribute to the inconsistency. To circumvent this drawback, we assessed the effect of major ginsenoside-Rg1 (Rg1) on skeletal muscle antioxidant defense system against exhaustive exercise-induced oxidative stress. METHODS: Forty weight-matched rats were evenly divided into control (N = 20) and Rg1 (N = 20) groups. Rg1 was orally administered at the dose of 0.1 mg/kg bodyweight per day for 10-week. After this long-term Rg1 administration, ten rats from each group performed an exhaustive swimming, and remaining rats considered as non-exercise control. Tibialis anterior (TA) muscles were surgically collected immediately after exercise along with non-exercise rats. RESULTS: Exhaustive exercise significantly (p<0.05) increased the lipid peroxidation of control group, as evidenced by elevated malondialdehyde (MDA) levels. The increased oxidative stress after exercise was also confirmed by decreased reduced glutathione to oxidized glutathione ratio (GSH/GSSG ratio) in control rats. However, these changes were completely eliminated in Rg1 group. Catalase (CAT) and glutathione peroxidase (GPx) activities were significantly (p<0.05) increased by Rg1 in non-exercise rats, while no significant change after exercise. Nevertheless, glutathione reductase (GR) and glutathione S-transferase (GST) activities were significantly increased after exercise in Rg1 group. CONCLUSIONS: This study provide compelling evidences that Rg1 supplementation can strengthen antioxidant defense system in skeletal muscle and completely attenuate the membrane lipid peroxidation induced by exhaustive exercise. Our findings suggest that Rg1 can use as a nutraceutical supplement to buffer the exhaustive exercise-induced oxidative stress