PatchGT: Transformer over Non-trainable Clusters for Learning Graph Representations

Recently the Transformer structure has shown good performances in graph learning tasks. However, these Transformer models directly work on graph nodes and may have difficulties learning high-level information. Inspired by the vision transformer, which applies to image patches, we propose a new Transformer-based graph neural network: Patch Graph Transformer (PatchGT). Unlike previous transformer-based models for learning graph representations, PatchGT learns from non-trainable graph patches, not from nodes directly. It can help save computation and improve the model performance. The key idea is to segment a graph into patches based on spectral clustering without any trainable parameters, with which the model can first use GNN layers to learn patch-level representations and then use Transformer to obtain graph-level representations. The architecture leverages the spectral information of graphs and combines the strengths of GNNs and Transformers. Further, we show the limitations of previous hierarchical trainable clusters theoretically and empirically. We also prove the proposed non-trainable spectral clustering method is permutation invariant and can help address the information bottlenecks in the graph. PatchGT achieves higher expressiveness than 1-WL-type GNNs, and the empirical study shows that PatchGT achieves competitive performances on benchmark datasets and provides interpretability to its predictions. The implementation of our algorithm is released at our Github repo: https://github.com/tufts-ml/PatchGT.Comment: 25 pages, 10 figure

Phylogenetic Tree Analysis of the Cold-Hot Nature of Traditional Chinese Marine Medicine for Possible Anticancer Activity

Traditional Chinese Marine Medicine (TCMM) represents one of the medicinal resources for research and development of novel anticancer drugs. In this study, to investigate the presence of anticancer activity (AA) displayed by cold or hot nature of TCMM, we analyzed the association relationship and the distribution regularity of TCMMs with different nature (613 TCMMs originated from 1,091 species of marine organisms) via association rules mining and phylogenetic tree analysis. The screened association rules were collected from three taxonomy groups: (1) Bacteria superkingdom, Phaeophyceae class, Fucales order, Sargassaceae family, and Sargassum genus; (2) Viridiplantae kingdom, Streptophyta phylum, Malpighiales class, and Rhizophoraceae family; (3) Holothuroidea class, Aspidochirotida order, and Holothuria genus. Our analyses showed that TCMMs with closer taxonomic relationship weremore likely to possess anticancer bioactivity.We found that the cluster pattern ofmarine organisms with reported AA tended to cluster with cold nature TCMMs. Moreover, TCMMs with salty-cold nature demonstrated properties for softening hard mass and removing stasis to treat cancers, and species withinMetazoa orViridiplantae kingdomof cold natureweremore likely to contain AA properties.We propose that TCMMs from these marine groups may enable focused bioprospecting for discovery of novel anticancer drugs derived from marine bioresources

Long-term BMI change trajectories in Chinese adults and its association with the hazard of type 2 diabetes: evidence from a 20-year China Health and Nutrition Survey.

INTRODUCTION To investigate the relationship between long-term change trajectory in body mass index (BMI) and the hazard of type 2 diabetes among Chinese adults. RESEARCH DESIGN AND METHODS Data were obtained from the China Health and Nutrition Survey (CHNS). Type 2 diabetes was reported by participants themselves in each survey wave. The duration of follow-up was defined as the period from the first visit to the first time self-reported type 2 diabetes, death, or other loss to follow-up from CHNS. The patterns of change trajectories in BMI were derived by latent class trajectory analysis method. The Fine and Gray regression model was used to estimate HRs with corresponding 95% CIs for type 2 diabetes. RESULTS Four patterns of the trajectories of change in BMI were identified among Chinese adults, 42.7% of participants had stable BMI change, 40.8% for moderate BMI gain, 8.9% for substantial BMI gain and 7.7% for weight loss. During the follow-up with mean 11.2 years (158 637 person-years contributed by 14 185 participants), 498 people with type 2 diabetes (3.7%) occurred. Risk of type 2 diabetes was increased by 47% among people who gained BMI more substantially and rapidly (HR: 1.47, 95% CI 1.08 to 2.02, p=0.016) and increased by 20% among those in people with the moderate BMI gain (HR: 1.20, 95% CI 0.98 to 1.48, p=0.078), compared with those with stable BMI change. CONCLUSIONS Long-term substantial gain of BMI was significantly associated with an increased risk of type 2 diabetes in the Chinese adults

How does monetary loss empathy modulate generosity in economic sharing behavior? An ERPs study

Previous studies have shown that generosity is driven by empathy and that both generosity in economic sharing behavior and monetary loss empathy decay as the social distance increases. However, it is still unclear whether this decay in economic sharing generosity can be influenced by the decay in monetary loss empathy. In the current study, we carried out two experiments to investigate this issue to deepen our understanding of the relationship between monetary loss empathy and generosity in economic sharing behavior. Our results show that in the observation group (observers watch their friend, and a stranger plays a gambling game), a negative correlation between log-transformed k value (ln(k)) and the distinction of d-FRN (feedback-related negativity difference between gain and loss) between friends and strangers was observed. However, in the execution group (executors play a gambling game themselves and watch a stranger play the same gambling game), there was no significant correlation between ln(k) and the distinction of d-FRN between self and strangers. Current results indicate that the decayed generosity across different social distances in economic sharing behavior can be modulated by the decayed monetary loss empathy. The study adds weight to the relationship between decayed monetary loss empathy and decayed generosity in sharing economic behavior at the level of social distance and provides electrophysiological evidence

Effects of Chinese Medicine Tong xinluo on Diabetic Nephropathy via Inhibiting TGF- β

Diabetic nephropathy (DN) is a major cause of chronic kidney failure and characterized by interstitial and glomeruli fibrosis. Epithelial-to-mesenchymal transition (EMT) plays an important role in the pathogenesis of DN. Tong xinluo (TXL), a Chinese herbal compound, has been used in China with established therapeutic efficacy in patients with DN. To investigate the molecular mechanism of TXL improving DN, KK-Ay mice were selected as models for the evaluation of pathogenesis and treatment in DN. In vitro, TGF-β1 was used to induce EMT. Western blot (WB), immunofluorescence staining, and real-time polymerase chain reaction (RT-PCR) were applied to detect the changes of EMT markers in vivo and in vitro, respectively. Results showed the expressions of TGF-β1 and its downstream proteins smad3/p-smad3 were greatly reduced in TXL group; meantime, TXL restored the expression of smad7. As a result, the expressions of collagen IV (Col IV) and fibronectin (FN) were significantly decreased in TXL group. In vivo, 24 h-UAER (24-hour urine albumin excretion ratio) and BUN (blood urea nitrogen) were decreased and Ccr (creatinine clearance ratio) was increased in TXL group compared with DN group. In summary, the present study demonstrates that TXL successfully inhibits TGF-β1-induced epithelial-to-mesenchymal transition in DN, which may account for the therapeutic efficacy in TXL-mediated renoprotection

Knowledge, attitudes and willingness to organ donation among the general public: a cross-sectional survey in China

Background: The purpose of this study is to assess the level of knowledge, attitudes, and willingness to organ donation among the general public in China. Methods: The study population consisted of 4274 participants from Eastern, Central and Western China. The participants’ knowledge, attitudes and willingness to organ donation were collected by a self-designed questionnaire consisting of 30 items. Knowledge is measured by 10 items and presented as a 10 point score, attitudes is measured by 20 items using a 5-step Likert scale and total score ranged between 0 and 80; while the willingness to donate is assessed as binary variable (0 = No; 1 = Yes). A logistic regression model was used to assess the association of knowledge and attitudes with willingness to organ donation, controlling for demographic and socioeconomic confounders. Results: The questionnaire response rate was 94.98%. The mean score (± SD) of the general public’s knowledge to organ donation was 6.84 ± 1.76, and the mean score (± SD) of attitudes to organ donation was 47.01 ± 9.07. The general public’s knowledge and attitudes were the highest in Eastern China, followed by West and Central China. The logistic regression model indicated a positive association between knowledge and the willingness to organ donation (OR = 1.12, 95%CI: 1.08, 1.17; P < 0.001); attitudes were also positively potential determinant of more willingness to organ donation (OR = 1.08, 95%CI: 1.07, 1.09; P < 0.001). Conclusions: Knowledge and attitudes were found to be positively associated with the Chinese general public’s willingness to organ donation. Knowledge about the concept of brain death and the transplant procedure may help raise the rate of willingness to organ donation

Assessing acid rain and climate effects on the temporal variation of dissolved organic matter in the unsaturated zone of a karstic system from southern China

Acid rain has the potential to significantly impact the quantity and quality of dissolved organic matter (DOM) leached from soil to groundwater. Yet, to date, the effects of acid rain have not been investigated in karstic systems, which are expected to strongly buffer the pH of atmospheric rainfall. This study presents a nine-year DOM fluorescence dataset from a karst unsaturated zone collected from two drip sites (HS4, HS6) in Heshang Cave, southern China between 2005 and 2014. Cross-correlograms show that fluorescence intensity of both dripwaters lagged behind rainfall by ∼1 year (∼11 months lag for HS4, and ∼13 months for HS6), whereas drip rates responded quite quickly to rainfall (0 months lag for HS4, and ∼3 months for HS6), based on optimal correlation coefficients. The rapid response of drip rates to rainfall is related to the change of reservoir head pressure in summer, associated with higher rainfall. In winter, low rainfall has a limited effect on head pressure, and drip rates gradually slow to a constant value associated with base flow from the overlying reservoir- this effect being most evident on inter-annual timescales (R2 = 0.80 for HS4 and R2 = 0.86 for HS6, n = 9, p < 0.01). We ascribed the ∼1 year lag of fluorescence intensity to the effect of the soil moisture deficit and the karst process on delaying water and solute transport. After eliminating the one year lag, the congruent seasonal pacing and amplitude between fluorescence intensity and rainfall observed suggests that the seasonality of fluorescence intensity was mainly controlled by the monsoonal rains which can govern the output of DOM from the soil, as well as the residence time of water in the unsaturated zone. On inter-annual timescales, a robust linear relationship between fluorescence intensity and annual (effective) precipitation amount (R2 = 0.86 for HS4 and R2 = 0.77 for HS6, n = 9, p < 0.01) was identified, implying that annual (effective) precipitation is the main determinant of DOM concentration in the aquifer. Conversely, the insensitivity of fluorescence intensity and fluorescence wavelength maxima to variations in the pH of local rainfall suggests that acid rain over the study period (∼pH 5.6 to ∼ 4.5) had no discernable effect on the quantity and quality of DOM in karst soil and soil solution, likely being strongly buffered by soil carbonates. Therefore, despite large increases in anthropogenic acid rain in recent Chinese history, hydrologic forcing is the predominant factor driving variations in DOM in karst aquifers

Maternal exposure to life events during pregnancy and congenital heart disease in offspring: a case-control study in a Chinese population

Background: Previous studies have suggested that maternal stress could increase the risk of some adverse pregnancy outcomes, but evidence on congenital heart disease (CHD) is limited. We aimed to explore the association between maternal exposure to life events during pregnancy and CHD in offspring. Methods: The data was based on an unmatched case-control study about CHD conducted in Shaanxi province of China from 2014 to 2016. We included 2280 subjects, 699 in the case group and 1581 in the control group. The cases were infants or fetuses diagnosed with CHD, and the controls were infants without any birth defects. The life events were assessed by the Life Events Scale for Pregnant Women, and were divided into positive and negative events for synchronous analysis. A directed acyclic graph was drawn to screen the confounders. Logistic regression was employed to estimate the odds ratio and 95% confidence interval for the effects of life events on CHD. Results: After controlling for the potential confounders, the pregnant women experiencing the positive events during pregnancy had lower risk of CHD in offspring than those without positive events (OR = 0.38, 95%CI: 0.30 ~ 0.48). The risk of CHD in offspring could increase by 62% among the pregnant women experiencing the negative events compared to those without (OR = 1.62, 95%CI: 1.29 ~ 2.03). Both effects showed a certain dose-response association. Besides, the positive events could weaken the risk impact of negative events on CHD. Conclusion: It may suggest that maternal exposure to negative life events could increase the risk of CHD in offspring, while experiencing positive events could play a potential protective role

Relationship between iodine knowledge and dietary iodine intake in pregnant and lactating women: a cross-sectional study

Abstract Objective: This study assessed the iodine knowledge of pregnant and lactating women and the relationship to dietary iodine intake and iodine status. The factors influencing iodine intake were analysed. Design: Basic information and iodine knowledge were collected via a questionnaire. A FFQ assessed dietary iodine intake. The urinary iodine concentration (UIC) was measured using the arsenic-cerium catalytic spectrophotometric determination of iodine in urine (WS/T 107 -2016). Setting: A cross-sectional study involving pregnant and lactating women in Xinjiang, China was conducted. Participants: A total of 1181 pregnant women and 504 lactating women were enrolled in the study. Results: The median UIC for pregnant and lactating women was 179·27 and 192·81 µg/l, respectively, and the dietary iodine intake was 407·16 and 356·89 µg/d, respectively. Of the pregnant and lactating women, 73·4 % and 82·5 % had medium iodine knowledge, respectively. In pregnant women, iodine knowledge and dietary iodine intake were positively correlated. High iodine knowledge and iodine education were shown to be protective factors for excessive iodine intake in pregnant women. Conclusion: This study demonstrated that the iodine nutritional status of women in Xinjiang was appropriate, and iodine knowledge was at a medium level, but there was confusion about iodine nutrition. Public education is needed to improve iodine knowledge and active iodine supplementation awareness among these populations of women