Search

The application of machine learning (ML)-based methods to the study of thermoelectric (TE) materials is promising. Although conventional ML algorithms can achieve high prediction performance, their lack of interpretability severely obstructs researchers from extracting material-oriented insights from ML models. In this work, high ML-based prediction performance was achieved with respect to TE power factors (PFs), and the results were well understood by the SHapley Additive exPlanations (SHAP), a method to identify the correlations between targets and descriptors. We designed a robust PF prediction model for diamond-like compounds via a stacking technique, and the model achieved a coefficient of determination value above 0.95 on the test set. From the SHAP analysis, the PFs were negatively correlated with electronegativity and positively correlated with the descriptor “volume per atom” based on the previously reported dataset. TE domain knowledge was adopted to understand these correlations. This work shows that ML models can achieve high accuracy while exhibiting good interpretability, making them useful for materials scientists.

Background Hepatocellular carcinoma (HCC) is common among adolescents and young adults (AYAs) in areas with endemic hepatitis B virus infection. We sought to characterize clinical features and long-term outcomes among AYAs versus older adults (OAs) who underwent HCC resection. Methods From a Chinese multicenter database, patients were categorized as AYA (aged 13–39 years) versus OA (aged ≥40 years). Patient clinical features, perioperative outcomes, overall survival (OS) and time-to-recurrence (TTR) were compared. Multivariable Cox-regression analyses were performed to identify the impact of age on OS and TTR. Results Among 1952 patients, 354(22.2%) were AYAs. AYAs were less likely to have cirrhosis yet were likely to have advanced tumor pathological characteristics than OAs. Postoperative morbidity and mortality were comparable. Compared with OAs, AYAs had a comparable OS but a decreased TTR. Multivariable analyses identified that young age ( Conclusions Compared with OAs, AYAs had a higher incidence of recurrence following liver resection among patients with HCC, suggesting that enhanced surveillance for postoperative recurrence may be required among AYAs.

The uneven distribution of sample points is a common problem in medical datasets. How to improve the classification accuracy with these datasets remains to be solved. Based on the density-based spatial clustering of applications with noise (DBSCAN) algorithm, a weight learning approach is proposed to utilize the density information of datasets for the accurate prediction of cardiovascular diseases (CVDs). The approach selects important features by the random forest (RF) algorithm, divides the sample points into three types and weights them using different values by weight learning based on the density. Thus, the constructed machine learning models that combine the original features and weight feature can learn density information, more effectively identify decision boundaries, and achieve better performance. Compared with conventional machine learning models, the cross-validation approach showed that the performance of machine learning models with weight learning could achieve improved accuracy by 3 percentage points with the Stroke dataset and more than 10 percentage points with the University of California, Irvine (UCI) dataset.

Surgical resection is the only potentially curative treatment for patients with resectable perihilar cholangiocarcinoma (PHC). There is still no consensus on the value of lymphadenectomy despite evidence indicating lymph node (LN) status is an important prognostic indicator for postoperative long-term survival. We sought to perform a meta-analysis to summarize the current evidence on the value of lymphadenectomy among patients undergoing surgery for PHC. The PubMed (OvidSP), Embase and Cochrane Library were systematically searched for studies published before July 2020 that reported on lymphadenectomy at the time of surgery for PHC after curative surgery. 7748 patients from 28 studies were included in the meta-analysis. No survival benefit was identified with increased number of LN resected (all P > 0.05). Meanwhile, overall LN status was an important prognostic factor. Patients with lymph node metastasis had a pooled estimate hazard ratio of death that was over two-fold higher than patients without lymph node metastasis (HR 2.07, 95% CI 1.65–2.59, P

Cancer stem cells (CSCs) are primarily maintained by a network of pluripotency transcription factors (PTFs). Given a close relationship of CSC regulation with epidermal growth factor receptor and vascular endothelial growth factor signalling, we investigated whether single-nucleotide polymorphisms (SNPs) in PTF genes are related to the efficacy of cetuximab and/or bevacizumab in patients with metastatic colorectal cancer (mCRC).Genomic and clinical data from three independent clinical trial cohorts were tested: cetuximab cohort (FOLFIRI/cetuximab arm in FIRE-3, n = 129), bevacizumab cohort 1 (FOLFIRI/bevacizumab arm in FIRE-3, n = 107) and bevacizumab cohort 2 (FOLFIRI/bevacizumab arm in TRIBE, n = 215). Genomic DNA extracted from blood samples was genotyped, and ten SNPs were tested for association with clinical outcomes.In the cetuximab cohort, four SNPs were significantly associated with progression-free survival in univariate analysis: NANOG rs11055767 (any A allele vs C/C, hazard ratio [HR] = 0.62, 95% confidence interval [CI] = 0.42-0.94, p = 0.02), NANOG rs10744044 (any A allele vs G/G, HR = 0.59, 95% CI = 0.39-0.90, p = 0.01), NANOGP8 rs2168958 (any C allele vs A/A, HR = 2.12, 95% CI = 1.36-3.29, p 0.001) and NANOGP8 rs2279066 (any C allele vs T/T, HR = 1.80, 95% CI = 1.06-1.68, p = 0.03). Multivariate analysis confirmed the significant associations for NANOGP8 rs2168958 and NANOGP8 rs2279066. In either bevacizumab cohort, no significant associations were observed in univariate analysis.Germ line polymorphisms in the PTF genes could be predictive markers for cetuximab in mCRC.

Background "Diffuse midline glioma, H3 K27M-mutant" (DMG) mainly arises within the pontine, thalamic, and spinal cord regions. Because of the rarity of spinal cord gliomas, the general knowledge surrounding DMGs is mainly based on pontine and thalamic gliomas, whereas tumor location tends to influence the clinicopathological features and prognosis. Objective To determine the clinicopathological characteristics and molecular profiles of DMGs located in the spinal cord. Methods The clinical and molecular pathologic features and prognosis were comprehensively analyzed in a series of 44 patients with spinal cord DMGs. Results The median age was 36 yr, and 88.7% of patients (39/44) were adults (≥18 yr). Histopathologically, malignant grades included grade II (16 cases), grade III (20 cases), and grade IV (8 cases). Compared with patients with histological grade IV, patients with lower histological grade (grade II/III) were older (37 vs 24 yr, P = .020) and were associated with longer overall survival (24.1 vs 8.6 mo, P = .007). All 30 tested tumors were isocitrate dehydrogenase (IDH) wild type, and 96% of cases (22/23) presented with unmethylated O6-methylguanine-DNA methyltransferase. Univariate and multivariate analyses showed that histological grade and presurgery McCormick Scale scores were independent prognostic factors for overall survival, whereas extensive surgical resection and chemoradiotherapy were not significantly associated with improved survival. The most frequent anatomic locations were the cervical enlargement (C4-T1, n = 16) and conus medullaris (T12-L1, n = 13), which exhibited distinctive clinical characteristics and molecular features. Conclusion The findings provide guidelines for the evidence-based practice of the specialized management of spinal cord DMGs.

Deep neural networks are vulnerable to adversarial examples. However, existing attacks exhibit relatively low efficacy in generating transferable adversarial examples. Improved transferability to address this issue is proposed via a rotation‐invariant attack method that maximizes the loss function w.r.t the random rotated image instead of the original input at each iteration, thus mitigating the high correlation between the adversarial examples and the source models and making the adversarial examples more transferable. Extensive experiments show that the proposed method can significantly improve the transferability of the adversarial examples with almost no extra computational cost and can be integrated into various methods. In addition, when this method is easily applied through a plug‐in, the average attack success rate against six robustly trained models increases by 5.4% over the state‐of‐the‐art baseline method, demonstrating its effectiveness and efficiency. The codes used are publicly available at https://github.com/YeXinD/Rotation‐Invariant‐Attack.

Purpose Due to the rarity of diffuse spinal cord astrocytoma, an effective model is still lacking to stratify their prognosis. Here, we aimed to establish a prognostic model through comprehensively evaluating clinicopathological features and preoperative peripheral blood inflammatory markers in 89 cases. Methods We performed univariate and multivariate Cox regression to identify prognosis factors. The Kaplan–Meier curves and ROC curves were employed to compare the prognostic value of selected factors. Results In addition to clinicopathological factors, we revealed the preoperative peripheral blood leukocyte count, neutrophils-to-lymphocytes ratio (NLR), and platelet-to-lymphocyte ratio (PLR) were also significantly correlated with overall survival of spinal cord astrocytoma in univariate Cox regression, and NLR was still significant in multivariate Cox analysis. Further, we demonstrated that NLR ≤ 3.65 and preoperative McCormick score (MMS) ≤ 3 were independently correlated with better survival of WHO grade IV tumors. Meanwhile, Ki-67 3.65 or MMS = 4. Conclusion We successfully constructed a comprehensive prognostic model including preoperative peripheral blood inflammatory markers, which can stratify diffuse spinal cord astrocytoma into 4 subgroups.

Pancreatic ductal adenocarcinoma (PDAC), one of the most lethal human cancers, can be divided into head and body/tail cancers anatomically. We previously reported a prognostic relevance of tumour location in resectable PDAC. This study aimed to further explore the mechanism underlying the molecular diversity between the head and body/tail of PDACs. We detected tumour genomes in 154 resectable (surgery) and non‐resectable (biopsy) PDACs using a next‐generation sequencing panel. Wilcoxon's rank test or Fisher's exact test was used for evaluating associations between clinical characteristics, mutation frequency and survival probability between the two cohorts. Compared with pancreatic head cancers, pancreatic body/tail cancers showed significantly more enriched genomic alterations in KRAS (97.1% vs 82.4%, P = 0.004) and SMAD4 (42.0% vs 21.2%, P = 0.008). At early stages (I‐II), the SMAD4 mutation rate was significantly higher in pancreatic body/tail cancers than pancreatic head cancers (56.0% vs 26.5%, P = 0.021). At late stages (III‐IV), pancreatic body/tail cancers presented significantly higher KRAS mutation rate (100.0% vs 75.8%, P = 0.001), higher frequency of MAPK pathway mutation (100% vs 87.8%, P = 0.040) and lower rates of druggable genomic alterations (30.8% vs 57.6%, P = 0.030) than pancreatic head cancers. Our work points out that pancreatic body/tail cancer seems to be more malignant than pancreatic head cancer at late stages.

Electroencephalography (EEG) is a method of the brain–computer interface (BCI) that measures brain activities. EEG is a method of (non-)invasive recording of the electrical activity of the brain. This can be used to build BCIs. From the last decade, EEG has grasped researchers’ attention to distinguish human activities. However, temporal information has rarely been retained to incorporate temporal information for multi-class (more than two classes) motor imagery classification. This research proposes a long-short-term-memory-based deep learning model to learn the hidden sequential patterns. Two types of features are used to feed the proposed model, including Fourier Transform Energy Maps (FTEMs) and Common Spatial Patterns (CSPs) filters. Multiple experiments have been conducted on a publicly available dataset. Extraction of spatial and spectro-temporal features using CSP filters and FTEM allow the sequence-to-sequence based proposed model to learn the hidden sequential features. The proposed method is trained, evaluated, and optimized for a publicly available benchmark data set and resulted in 0.81 mean kappa value. Obtained results depict the model robustness for the artifacts and suitable for real-life applications with comparable classification accuracy. The code and findings will be available at https://github.com/waseemabbaas/Motor-Imagery-Classification.git .

Microwave measurement system, which acquires the microwave parameters including frequency, phase, and amplitude information, is one of the backbone parts in modern radio frequency (RF) systems. In this article, a simple and novel optical approach is proposed to perform broadband in-phase/quadrature (I/Q) downconverter and is applied in Doppler frequency shift (DFS) and phase measurement. In the proposed approach, a Mach–Zehnder modulator (MZM) is used to modulate both RF and local oscillator (LO) signals. A Sagnac loop structure and optical coupler are used to suppress the optical carrier. A dense wavelength division multiplexer (DWDM) and two photodiodes (PDs) are used to build I/Q channels. The proposed approach has an all-optical structure and no frequency-dependent electronic devices are needed. In the experimental demonstration, the I/Q downconverter achieves low phase imbalance ( $\text {dB}\cdot \text {Hz}^{2/3}$ ) over an ultrawide operating frequency. When DFS measurement is implemented using the I/Q downconverter, the microwave DFS is measured with a maximum measurement error of 8 Hz, and a clear direction can be obtained. When the system is applied for phase detection, the phase shift is successfully estimated with a measurement error of less than 7°.

Knowing the transcription factor binding sites (TFBSs) is essential for modeling the underlying binding mechanisms and follow-up cellular functions. Convolutional neural networks (CNNs) have outperformed methods in predicting TFBSs from the primary DNA sequence. In addition to DNA sequences, histone modifications and chromatin accessibility are also important factors influencing their activity. They have been explored to predict TFBSs recently. However, current methods rarely take into account histone modifications and chromatin accessibility using CNN in an integrative framework. To this end, we developed a general CNN model to integrate these data for predicting TFBSs. We systematically benchmarked a series of architecture variants by changing network structure in terms of width and depth, and explored the effects of sample length at flanking regions. We evaluated the performance of the three types of data and their combinations using 256 ChIP-seq experiments and also compared it with competing machine learning methods. We find that contributions from these three types of data are complementary to each other. Moreover, the integrative CNN framework is superior to traditional machine learning methods with significant improvements.

Morphological networks constructed with structural magnetic resonance imaging (sMRI) images have been widely investigated by exploring interregional alterations of different brain regions of interest (ROI) in the spatial domain for Alzheimer’s disease (AD) classification. However, few attentions are attracted to construct a subband-based individual network with the sMRI image in the frequency domain. In order to verify the feasibility of constructing individual networks with subbands and extract features from the subband-based individual network for AD classification, in this study, we propose a novel method to capture correlations of the abnormal energy distribution patterns related to AD by constructing nonsubsampled contourlet subband-based individual networks (NCSINs) in the frequency domain. Specifically, a 2-dimensional representation of the preprocessed sMRI image is firstly reshaped by downsampling and reconstruction steps. Then, the nonsubsampled contourlet transform is performed on the 2-dimensional representation to obtain directional subbands, and each directional subband at one scale is described by a column energy feature vector (CV) regarded as a node of the NCSIN. Subsequently, edge between any two nodes is weighted with connection strength (CS). Finally, the concatenation of node and edge features of the NCSINs at different scales is used as a network feature of the sMRI image for AD classification. Meanwhile, the support vector machine (SVM) classifier with a radial basis function (RBF) kernel is applied for categorizing 680 subjects from the Alzheimer’s Disease Neuroimaging Initiative (ADNI) database. Experimental results demonstrate that it is feasible to construct the subband-based individual network in the frequency domain and also show that our NCSIN method outperforms five other state-of-the-art approaches.

Background Acanthosis nigricans (AN), Leser-Trelat sign, and tripe palm are all skin diseases. To date, reports of these appearing as a paraneoplastic syndrome in a gastric cancer patient are quite rare. Case summary We report the case of a 61-year-old man with darkened skin color in the face and torso with no obvious inducement after 1 year of treatment for Riehl's melanosis. He had 40 brown maculopapular eruptions on his face and the top of his head with obvious itching. Papillary wart-like hyperkeratosis with dark brown pigmentation was also observed on both sides of the areola. He had papilloma-like lesions on the face, around the orbit, and on the neck. His bilateral palms had small, smooth, papillary projections with millet-like appearance. Histopathological examination of the skin showed that the patient was suffering from AN, tripe palms, and Leser-Trelat sign. Gastroscopy showed the patient's cardia was affected, and pathological biopsy revealed that he had moderate-to-poorly differentiated adenocarcinoma. Computed tomography test results showed that his cardia wall had thickened. Based on these histological and skin characteristics, the patient was diagnosed with gastric cancer with AN, tripe palms, and Leser-Trelat sign. Conclusion Researchers should follow up on patients with malignant AN, Leser-Trelat sign, and tripe palms.

Highlights • The incidence of VTE among hospitalised COVID-19 patients was high, particular among patients in ICU. • Anticoagulation was not associated with an increased risk of mortality in hospitalised COVID-19 patients. • Clinical trials are urgently needed to evaluate the roles of prophylactic and therapeutic anticoagulation in COVID-19., Background The incidence of venous thromboembolic events (VTE) in patients with COVID-19 is generally high but varies markedly. However, the relationship between anticoagulation and mortality in patients with COVID-19 is still unclear. Methods We performed a systematic review and meta-analysis to determine the incidence of VTE and evaluate the role of anticoagulation in patients with COVID-19. Random effects models were used to determine overall pooled estimates and 95% confidence intervals (CIs). Results After a database search, 25 observational studies (20 on VTE incidence and 5 on the relationship between anticoagulation and mortality) were included. The pooled incidence rates of VTE, pulmonary embolism (PE), and deep vein thrombosis (DVT) in hospitalised COVID-19 patients were 21% (95% CI 15–27%), 15% (95% CI 10–20%), and 27% (95% CI 19–36%), respectively. A meta-analysis of five studies found that anticoagulation was not associated with an increased risk of mortality in hospitalised COVID-19 patients (RR = 0.86, 95% CI, 0.69–1.09, P = 0.218; I2 = 47.4%). Conclusions In conclusion, the incidence of VTE among hospitalised COVID-19 patients was high. Clinical trials are urgently needed to evaluate the roles of prophylactic and therapeutic anticoagulation in COVID-19.

Background Enhancer–promoter interactions (EPIs) play key roles in transcriptional regulation and disease progression. Although several computational methods have been developed to predict such interactions, their performances are not satisfactory when training and testing data from different cell lines. Currently, it is still unclear what extent a across cell line prediction can be made based on sequence-level information. Results In this work, we present a novel Sequence-based method (called SEPT) to predict the enhancer–promoter interactions in new cell line by using the cross-cell information and Transfer learning. SEPT first learns the features of enhancer and promoter from DNA sequences with convolutional neural network (CNN), then designing the gradient reversal layer of transfer learning to reduce the cell line specific features meanwhile retaining the features associated with EPIs. When the locations of enhancers and promoters are provided in new cell line, SEPT can successfully recognize EPIs in this new cell line based on labeled data of other cell lines. The experiment results show that SEPT can effectively learn the latent import EPIs-related features between cell lines and achieves the best prediction performance in terms of AUC (the area under the receiver operating curves). Conclusions SEPT is an effective method for predicting the EPIs in new cell line. Domain adversarial architecture of transfer learning used in SEPT can learn the latent EPIs shared features among cell lines from all other existing labeled data. It can be expected that SEPT will be of interest to researchers concerned with biological interaction prediction.

Summary Introduction Total psoas muscle area (TPA) can indicate the status of the entire human body's skeletal muscle mass. It has been reported that lower TPA can increase the risk of mortality in critically ill patients. The aim of our study was to evaluate the relationship between TPA and ICU mortality and to compare the performance of Sequential Organ Failure Assessment (SOFA), TPA combined with SOFA and Acute Physiology, Chronic Health Evaluation (APACHE-II) for predicting ICU mortality in critically ill surgical patients. Methods This study was a retrospective observational cohort study with a total of 96 critically ill surgical patients, ages 21–96 years old. Main outcome measures included difficult-to-wean (DTW), operation methods, ICU mortality, ICU stay, APACHE II, sepsis and SOFA. CT-scan assessed the TPA. It is acknowledged that the entire study was completed by Hao-Wei Kou et al. and the data were uploaded from plosone.com . The authors used this data only for secondary analysis. Results The results showed that TPA is a protective factor for ICU mortality (OR: 0.99 95% [0.99, 1.00], P = 0.0269). In addition, when we defined sarcopenia-based TPA, our study showed that sarcopenia increased the risk of ICU mortality (OR:3.73 (1.27, 10.98) P = 0.0167. Furthermore, discrimination of ICU mortality was significantly higher using SOFA (AUROC, 0.7810 [99% CI, 0.6658–0.8962]) than either TPA (AUROC, 0.7023 [99% CI, 0.5552–0.8494]) or APACHE II score (AUROC, 0.7447 [99% CI, 0.6289–0.8604]). Additionally, when we combined TPA with SOFA score, the ROC of TPA + SOFA (AUROC, 0.8647 [99% CI, 0.7881–0.9412]) was the highest when compared to the other three models. Conclusion The relationship between TPA and ICU mortality is negative in critically ill surgical patients. In addition, the combination of TPA and SOFA was the best tool among the three scoring systems in providing significant discriminative ability when predicting ICU mortality in critically ill surgical patients.

The enrichment of limestone gas in the roof of No. 8 coal seam of the Taiyuan Formation in the Shenzhou Coal Mine on the eastern edge of the Ordos Basin, north-central China, is a special discovery...

The downstaging of hepatocellular carcinoma (HCC) has been confirmed to benefit liver transplantation (LT) patients whose tumors are beyond the transplantation criteria. Milan criteria (MC), a tumor size and number-based assessment, is currently used as the endpoint in these patients. However, many studies believe that tumor biological behavior should be added to the evaluation criteria for downstaging efficacy. Hence, this study aimed to explore the feasibility of Hangzhou criteria (HC), which introduced tumor grading and alpha-fetoprotein in addition to tumor size and number, as an endpoint of downstaging.We performed a multicenter and retrospective study of 206 patients accepted locoregional therapy (LRT) as downstaging/bridge treatment prior to LT in three centers of China.Recipients were divided into four groups: failed downstaging to the HC (group A, n = 46), successful downstaging to the HC (group B, n = 30), remained within the HC all the time (group C, n = 113), and tumor progressed (group D, n = 17). The 3-year HCC recurrence probabilities of groups B and C were not significantly different (10.3% vs. 11.6%, P = 0.87). The HCC recurrent rate was significantly higher in group A (52.3%) compared with that in group B/C (P 0.05). Seven patients (7/76, 9.2%) whose tumor exceeded the the HC were successfully downstaged to the MC, and 39.5% (30/76) to the the HC. In group B, 23 patients remained beyond the MC and their survivals were as well as those of patients within the MC.Compared to the MC, HC downstaging criteria can give more HCC patients access to LT and furthermore, the outcome of these patients is the same as those matching MC downstaging criteria. Hangzhou downstaging criteria therefore is applicable in clinical practice.

Background Due to their rarity, the clinicopathological characteristics and prognostic factors of spinal cord gliomas are still unclear. Here, we aimed to clarify these issues in a cohort of 108 spinal cord astrocytomas. Methods We characterized the clinicopathological characteristics, including 2016 World Health Organization (WHO) grade, age, sex, location, segment length, resection, pre‐ and postsurgery, Modified McCormick Scale (MMS), radio‐ and chemotherapy, and Ki‐67 and H3 K27M mutations, in 108 spinal cord astrocytomas through heatmaps. The Cox regression analysis and Kaplan‐Meier curves were used to study the prognostic value of these clinicopathological features. Results There are a total 38 H3 K27M‐mutant tumors, including 31 cases with histological grade II/III tumors. The age of low‐grade astrocytoma patients (WHO grade I/II, n = 54) was significantly younger (27.0 vs 35.5 years, P = .001) than those with high‐grade tumors (WHO grade III/IV, n = 54). All patients underwent surgical resection with neurophysiological monitoring, and the surgery did not result in significant changes in MMS. The presurgery MMS was associated with overall survival in the high‐grade subgroup (P = .008) but not in the low‐grade subgroup (P = .312). While, the high content of resection improved the survival of only patients with low‐grade astrocytomas (P = .016) but not those with high‐grade astrocytomas (P = .475). Both the low‐grade and high‐grade astrocytomas had no obvious benefit from neither adjuvant chemotherapy nor radiotherapy (all P > .05). Conclusions We characterized the clinicopathological characteristics and their prognostic values in 108 spinal cord astrocytomas, which could help with evidence‐based management of spinal cord astrocytomas., We characterized the clinicopathological characteristics and their prognostic values in 108 spinal cord astrocytomas, which could help with evidence‐based management of spinal cord astrocytomas.

Background With an increase in life expectancy and improvement of surgical safety, more elderly patients with hepatocellular carcinoma (HCC), even with large tumors, are now considered for hepatectomy. This study aimed to clarify the impact of age on short- and long-term outcomes after major hepatectomy (≥3 segments) for large HCC (≥5 cm). Patients and methods Using a multicenter database, patients who underwent curative-intent major hepatectomy for large HCC between 2006 and 2016 were identified. Postoperative morbidity and mortality, overall survival (OS) and recurrence-free survival (RFS) were compared between the elderly (≥65 years) and younger ( Results Of 830 patients, 92 (11.1%) and 738 (88.9%) were elderly and younger patients, respectively. There were no significant differences in postoperative 30-day mortality and morbidity between the two groups (5.4% vs 2.6% and 43.5% vs 38.3%, both P>0.05). The 5-year OS and RFS rates in elderly patients were also comparable to younger patients (35.0% vs 33.2% and 20.0% vs 20.8%, both P>0.05). In the entire cohort, multivariable Cox-regression analyses identified that old age was not independently associated with OS and RFS. However, in the elderly cohort, preoperative alpha-fetoprotein level >400 μg/L, multiple tumors, macrovascular invasion and microvascular invasion were independently associated with decreased OS and RFS. Conclusion Carefully selected elderly patients benefited from major hepatectomy for large HCC as much as younger patients, and their long-term prognosis was determined by preoperative alpha-fetoprotein level, tumor number and presence of macro- or micro-vascular invasion.

By using thin section identification, cathodoluminescence, major and trace elements and fluid inclusion tests and authigenic illite dating, based on observation of core cracks, combined with the microscopic characteristics and imaging logging characteristics of fractures, the stages of the fractures in the Huagang Formation of the central reversal tectonic belt of the Xihu Sag in the East China Sea, and the matching relationship between the fracture development stages and the oil and gas charging stages are clarified. There are diagenetic fractures and tectonic fractures in the reservoirs of the Huagang Formation in the study area. The diagenetic fractures developed during the diagenetic stage of the reservoirs and have less effect on oil and gas migration and transport. The tectonic fractures are divided into three stages based on tectonic movements controlling the fractures and their relationships with hydrocarbon charging: The first stage of fractures was generated in the early stage of the Himalayan Movement–Longjing Movement (12–13 Ma ago), when the tectonic stress caused the sutures and shale strips to twist, deform, and break. Tectonic microfractures generated in this period had short extension, narrow width, and poor effectiveness, and had little effect on oil and gas migration and transport. The second stage of fractures came up during the middle-late period of Himalayan Movement–Longjing Movement (9–12 Ma ago), when tectonic movements caused the development of tectonic fractures in the central reversal tectonic belt, these fractures are of large scale, long extension, and good effectiveness, and matched with the first stage of large scale oil and gas charging (9–12 Ma ago), so they play an important role in oil and gas migration, transportation, and accumulation. The third stage of fractures were created from Himalayan Movement–Okinawa Trough movement to the present day (0–3 Ma ago), the fractures are tectonic ones developing successively; matching with the second stage (0–3 Ma ago) of large-scale oil and gas charging, they created conditions for continuous natural gas migration and transportation. All these prove that the development of reservoir fractures in the Huagang Formation of Xihu Sag can provide seepage space and continuous and effective channels for efficient migration and accumulation of oil and gas.

Retinal blood vessels, the diagnostic bio-marker of ophthalmologic and diabetic retinopathy, utilise thick and thin vessels for diagnostic and monitoring purposes. The existing deep learning methods attempt to segment the retinal vessels using a unified loss function. However, a difference in spatial features of thick and thin vessels and a biased distribution creates an imbalanced thickness, rendering the unified loss function to be useful only for thick vessels. To address this challenge, a patch-based generative adversarial network-based technique is proposed which iteratively learns both thick and thin vessels in fundoscopic images. It introduces an additional loss function that allows the generator network to learn thin and thick vessels, while the discriminator network assists in segmenting out both vessels as a combined objective function. Compared with state-of-the-art techniques, the proposed model demonstrates the enhanced accuracy, sensitivity, specificity, and area under the receiver operating characteristic curves on STARE, DRIVE, and CHASEDB1 datasets.

Purpose: The aim of the current study is as follows: (1) to study whether wearing the presurgical nasoalveolar molding appliance (PNAM) had facilitated the establishment of Streptococcus mutans and Lactobacillus ( LB) and to determine other factors including pH and caries susceptibility associated with wearing the PNAM. Methods: Saliva samples of 61 infants (4.5 ± 2.06 months old) were collected from the following 3 groups: PNAM (n = 23), healthy (n = 30), and cleft lip and palate (CLP) without any treatment (n = 8). Saliva samples were assessed using selective agar to enumerate total LB and S mutans and subjected to adenosine triphosphate (ATP)-driven bioluminescence determinations using a luciferin-based assay system, and pH level was evaluated. One-way analysis of variance with least significant difference post hoc test ( P < .05) and Pearson correlation were used to evaluate S mutans, LB, pH, and ATP levels. Results: A total of 63 patients (30 healthy patients, 23 patients with cleft lip/palate who had PNAM appliance and 8 patients with cleft lip/palate who did not use the appliance) were seen in this study. There is a significant difference in pH ( P = .012), LB Caries Risk Test ( P < .001), LB colony count ( P < .001), S mutans Caries Risk Test ( P < .001), and S mutans colony count ( P < .001) among the 3 groups (PNAM > CLP > healthy). The ATP level was not significantly different among the 3 groups. Conclusion: Higher bacterial count and lower pH were found in the PNAM group. Cleft lip and/or palate patients wearing the PNAM appliance are at higher risk for dental caries.

Background Patients with desmoplastic (angiogenic) histopathological growth pattern (HGP) colorectal liver metastases (CLM) might derive more benefit from bevacizumab-based chemotherapy than those with replacement (non-angiogenic) HGP. This study investigated the association of HGP with the immune phenotype (IP) and clinical outcome after liver resection. Methods CLM of patients treated with perioperative bevacizumab-based chemotherapy and liver resection were investigated. Association of HGP and IP with response, recurrence-free survival (RFS) and overall survival (OS) was investigated. Results One hundred and eighteen patients (M/F 66/52, median age 62.3 (31.0–80.4) years, median follow-up 32.2 (5.0–92.7) months) were enrolled. The inflamed IP was associated with the desmoplastic HGP. The desmoplastic HGP was associated with better radiological and histological response compared to the replacement HGP, respectively. The replacement HGP was associated with shorter RFS (8.7 versus 16.3 months, HR 2.60, P = 0.001) and OS (36.6 months versus not reached, HR 2.32, P = 0.027), respectively. The non-inflamed IP was associated with shorter RFS (10.8 versus 16.5 months, HR 1.85, P = 0.029). The HGP but not the IP remained significant in multivariable analysis for RFS. Conclusions The desmoplastic HGP is associated with the inflamed IP and HGP may be a potential biomarker for adjuvant treatment that includes targeting the immune contexture.

Due to the rare incidence of spinal cord astrocytomas, their molecular features remain unclear. Here, we characterized the landscapes of mutations in H3 K27M, isocitrate dehydrogenase 1 (IDH1) R132H, BRAF V600E, and the TERT promoter in 83 diffuse spinal cord astrocytic tumors. Among these samples, thirty-five patients had the H3 K27M mutation; this mutant could be observed in histological grade II (40%), III (40%), and IV (20%) astrocytomas. IDH1 mutations were absent in 58 of 58 cases tested. The BRAF V600E mutation (7/57) was only observed in H3-wildtype astrocytomas, and was associated with a better prognosis in all histological grade II/III astrocytomas. TERT promoter mutations were observed in both H3 K27M-mutant (4/25) and -wildtype (9/33) astrocytomas, and were associated with a poor prognosis in H3-wildtype histological grade II/III astrocytomas. In the 2016 WHO classification of CNS tumors, H3 K27M-mutant diffuse midline gliomas, including spinal cord astrocytomas, are categorized as WHO grade IV. Here, we noticed that the median overall survival of histological grade II/III H3 K27M-mutant cases (n = 28) was significantly longer than that of either the total histological grade IV cases (n = 12) or the H3 K27M-mutant histological grade IV cases (n = 7). We also directly compared H3 K27M-mutant astrocytomas to H3-wildtype astrocytomas of the same histological grade. In histological grade II astrocytomas, compared to H3-wildtype cases (n = 37), H3 K27M-mutant patients (n = 14) had showed a significantly higher Ki-67-positive rate and poorer survival rate. However, no significant differences in these parameters were observed in histological grade III and IV astrocytoma patients. In conclusion, these findings indicate that spinal cord astrocytomas are considerably different from hemispheric and brainstem astrocytomas in terms of their molecular profiles, and that the histological grade cannot be ignored when assessing the prognosis of H3 K27M-mutant spinal cord astrocytomas.

In this paper, a novel spectral-efficient coherent radio-over-fiber (RoF) link with linear digital phase demodulation is proposed and experimentally demonstrated. At the transmitter, to make an efficient use of the optical power and spectra, an intensity-modulated optical signal serving as the optical reference signal and a phase-modulated optical signal are polarization-multiplexed on a single optical carrier. At the receiver, the two optical signals are coherently detected with an optical local oscillator (OLO) and demodulated free of laser phase fluctuation through digital signal processing. Owing to simple and linear digital phase demodulation, an RF input signal is linearly demodulated from the optical phase without approximations and preconditions, which preserves the linearity of the phase-modulated RoF optical link from the transmitter end to the receiver end. The proposed scheme is experimentally verified by 25-km single-mode-fiber (SMF) transmission of two 16-QAM microwave vector signals at 2 GHz and 2.4 GHz, both with a symbol rate of 50 Msymbol/s. The transmission performance in term of error vector magnitude (EVM) is evaluated. Additionally, 25-km SMF transmission of the phase-modulated input signal with a spurious-free dynamic range (SFDR) of 112.8 dB·Hz2/3 is obtained.

Regorafenib has improved the survival of patients with refractory metastatic colorectal cancer (mCRC), yet the mechanisms of inherited or acquired resistance are not well understood. A total of 50 patients with refractory mCRC were enrolled. Circulating tumor cell (CTC) enumeration was carried out at baseline, day 21 after initiation of regorafenib, and at the time of progression of disease (PD) using the CellSearch System (Veridex LLC, NJ, USA). Poly(A) mRNA was extracted from CTCs, and gene expression of epithelial and epithelial‐mesenchymal transition markers was analyzed by a multiplex‐PCR based DNA Chip. Patients with fewer than 3 CTCs at baseline and day 21 had a longer progression‐free survival than those with 3 or more CTCs (3.3 vs 2.0 months, P = .008 and 3.3 vs 2.0 months, P = .004, respectively). Patients with fewer than 3 CTCs at baseline and day 21 had a longer overall survival (OS) than those with 3 or more CTCs (10.0 vs 4.6 months, P, We identified circulating tumor cell count as a prognostic marker in metastatic colorectal cancer patients treated with regorafenib. Circulating tumor cell EGFR expression was significantly increased with regorafenib at the time of disease progression, suggesting this to be a mode of resistance and lending further mechanistic evidence for the synergistic effects seen with regorafenib and anti‐EGFR mAbs.

Word embeddings, which map words into a unified vector space, capture rich semantic information. From a linguistic point of view, words have two carriers, speech and writing. Yet the most recent word embedding models focus on only the writing carrier and ignore the role of the speech carrier in semantic expressions. However, in the development of language, speech appears before writing and plays an important role in the development of writing. For phonetic language systems, the written forms are secondary symbols of spoken ones. Based on this idea, we carried out our work and proposed double-carrier word embedding (DCWE). We used DCWE to conduct a simulation of the generation order of speech and writing. We trained written embedding based on phonetic embedding. The final word embedding fuses writing and phonetic embedding. To illustrate that our model can be applied to most languages, we selected Chinese, English, and Spanish as examples and evaluated these models through word similarity and text classification experiments.

Film industries all over the world are producing several hundred movies rapidly and grabbing the attraction of people of all ages. Every movie producer is of keen interest in knowing which movies are either likely to hit or flop in the box office. So, the early prediction of the popularity of a movie is of the utmost importance to the film industry. In this study, we examine factors inside the hidden patterns which become movie popular. In past studies, machine learning techniques were implemented on blog articles, social networking, and social media to predict the success of a movie. Their works focused on which algorithms are better at predicting the success of a movie but less focused on data and attributes related to an ongoing movie and in various directions. In this paper, we inspect this perspective that might be related to the prediction of the results. Data collected from the publicly available Internet Movie Database (IMDb). We implemented five machine learning algorithms, i.e., Generalized Linear Model (GLM), Deep Learning (DL), Decision Tree (DT), Random Forest (RF), and Gradient Boosted Tree (GBT) using Root Mean Squared Error (RMSE) as a performance metric and got the accuracy performances of GLM: 47.9%, DL: 51.1%, DT: 54.5%, RF: 50.0%, and GBT: 49.5%, respectively. We found that GLM is the high achieving accuracy regression classifier due to the lower value of RMSE, which is considered to be better.

This paper reports the design of a double layer micromachined chiral metasurface. The cou-pling of the two layers can be tuned via shifting the unit cells of the top layer. The tunable metasurface has large optical activity in terahertz frequency range. Furthermore asymmetric transmission of 16% is also demonstrated in the numerical simulation. The rotation angle and asymmetry can be actively tuned through micromachined actuator.

The colony-stimulating factor 1 receptor (CSF1R) is a key tyrosine kinase transmembrane receptor modulating microglial homeostasis, neurogenesis, and neuronal survival in the central nervous system (CNS). CSF1R, which can be proteolytically cleaved into a soluble ectodomain and an intracellular protein fragment, supports the survival of myeloid cells upon activation by two ligands, colony stimulating factor 1 and interleukin 34. CSF1R loss-of-function mutations are the major cause of adult-onset leukoencephalopathy with axonal spheroids and pigmented glia (ALSP) and its dysfunction has also been implicated in other neurodegenerative disorders including Alzheimer’s disease (AD). Here, we review the physiological functions of CSF1R in the CNS and its pathological effects in neurological disorders including ALSP, AD, frontotemporal dementia and multiple sclerosis. Understanding the pathophysiology of CSF1R is critical for developing targeted therapies for related neurological diseases.

Lymph nodes (LNs) and distant metastases can arise from independent subclones of the primary tumor. Herein, we characterized the molecular landscape and the differences between LNs, distant metastases and primary colorectal cancers (CRCs). Samples were analyzed using next generation sequencing (NGS, MiSeq on 47 genes, NextSeq on 592 genes) and immunohistochemistry. Tumor mutational burden (TMB) was calculated based on somatic nonsynonymous missense mutations, and microsatellite instability (MSI) was evaluated by NGS of known MSI loci. In total, 11,871 samples were examined, comprising primaries (N = 5862), distant (N = 5605) and LNs metastases (N = 404). The most frequently mutated genes in LNs were TP53 (72%), APC (61%), KRAS (39%), ARID1A (20%), PIK3CA (12%). LNs showed a higher mean TMB (13 mut/MB) vs distant metastases (9 mut/MB, p p p = 0.017, respectively) classifications were more frequent in primaries and LNs vs distant metastases (9.5% and 8.8% vs 4.2%, p p = 0.001, respectively). TMB-high is significantly more common in LNs vs distant metastases and primaries (P APC, KRAS, PI3KCA, KDM6A, and BRIP1 (p

BACKGROUND: The TIMELESS–TIPIN complex protects the replication fork from replication stress induced by chemotherapeutic drugs. We hypothesised genetic polymorphisms of the TIMELESS–TIPIN complex may affect the response, progression-free survival (PFS), and overall survival (OS) of cytotoxic drugs in patients with metastatic colorectal cancer (mCRC). METHODS: We analysed data from the MAVERICC trial, which compared FOLFOX/bevacizumab and FOLFIRI/bevacizumab in untreated patients with mCRC. Genomic DNA extracted from blood samples was genotyped using an OncoArray. Eight functional single nucleotide polymorphisms (SNPs) in TIMELESS and TIPIN were tested for associations with clinical outcomes. RESULTS: In total, 324 patients were included (FOLFOX/bevacizumab arm, n = 161; FOLFIRI/bevacizumab arm, n = 163). In the FOLFOX/bevacizumab arm, no SNPs displayed confirmed associations with survival outcomes. In the FOLFIRI/bevacizumab arm, TIMELESS rs2291739 was significantly associated with OS in multivariate analysis (G/G vs. any A allele, hazard ratio = 3.06, 95% confidence interval = 1.49–6.25, p = 0.004). TIMELESS rs2291739 displayed significant interactions with treatment regarding both PFS and OS. CONCLUSIONS: TIMELESS rs2291739 might have different effects on therapeutic efficacy between oxaliplatin- and irinotecan-based chemotherapies. Upon further validation, our findings may be useful for personalised approaches in the first-line treatment of mCRC.

Description, A stimulated proinflammatory feature of leukemic progenitors facilitates their survival and immune evasion after chemotherapy., Chemotherapy can effectively reduce the leukemic burden and restore immune cell production in most acute myeloid leukemia (AML) cases. Nevertheless, endogenous immunosurveillance usually fails to recover after chemotherapy, permitting relapse. The underlying mechanisms of this therapeutic failure have remained poorly understood. Here, we show that abnormal IL-36 production activated by NF-κB is an essential feature of mouse and human leukemic progenitor cells (LPs). Mechanistically, IL-36 directly activates inflammatory monocytes (IMs) in bone marrow, which then precludes clearance of leukemia mediated by CD8+ T cells and facilitates LP growth. While sparing IMs, common chemotherapeutic agents stimulate IL-36 production from residual LPs via caspase-1 activation, thereby enabling the persistence of this immunosuppressive IL-36–IM axis after chemotherapy. Furthermore, IM depletion by trabectedin, with chemotherapy and PD-1 blockade, can synergistically restrict AML progression and relapse. Collectively, these results suggest inhibition of the IL-36–IM axis as a potential strategy for improving AML treatment.

Background and aims Although adjuvant transcatheter arterial chemoembolization (TACE) for resected hepatocellular carcinoma (HCC) may improve survival for some patients, identifying which patients can benefit remains challenging. The present study aimed to construct a survival prediction calculator for individualized estimating the net survival benefit of adjuvant TACE for patients with resected HCC. Methods From a multicenter database, consecutive patients undergoing curative resection for HCC were enrolled and divided into the developing and validation cohorts. Using the independent survival predictors in the developing cohort, two nomogram models were constructed for patients with and without adjuvant TACE, respectively, which predictive performance was validated internally and externally by measuring concordance index (C-index) and calibration. The difference between two estimates of the prediction models was the expected survival benefit of adjuvant TACE. Results A total of 2514 patients met the inclusion criteria for the study. The nomogram prediction models for patients with and without adjuvant TACE were, respectively, built by incorporating the same eight independent survival predictors, including portal hypertension, Child–Pugh score, alpha-fetoprotein level, tumor size and number, macrovascular and microvascular invasion, and resection margin. These two prediction models demonstrated good calibration and discrimination, with all the C-indexes of greater than 0.75 in the developing and validation cohorts. A browser-based calculator was generated for individualized estimating the net survival benefit of adjuvant TACE. Conclusions Based on large-scale real-world data, an easy-to-use online calculator can be adopted as a decision aid to predict which patients with resected HCC can benefit from adjuvant TACE.

The surgical management of left-sided malignant large bowel obstruction (MLBO) is associated with high morbidity and mortality. Recently, self-expandable metallic colonic stent (SEMS) and transanal decompression tube (TDT) used as a 'bridge to surgery' (BTS) have been widely used. This study aims to compare the clinical outcomes and oncological safety of SEMS and TDT as BTS to transform MLBO into elective surgery.Between February 2013 and March 2019, 62 patients with MLBO received SEMS (n = 32) or TDT (n = 30), and elective one-stage surgery later. We evaluated decompression efficiency and oncological safety in selective operation in TDT and SEMS groups, including preoperative preparation time, surgical approach, number of lymphatic dissection and vascular invasion, ulcer formation and histopathological findings of resected specimens.The preoperative preparation time in the SEMS group was shorter than that of the TDT group (P 0.05). However, there was no significant difference between the groups in postoperative length of hospital stay (P 0.05). The number of vascular invasions in the TDT group was less than that in the SEMS group (P 0.05). Furthermore, the risk of wound abscess and ulcer formation in the TDT group was significantly lower than that in the SEMS group (P 0.05).Our findings suggest that SEMS is associated with a relatively poor oncological outcome and the placement of TDT as BTS in MLBO patients may be a better alternation.

Simple Summary Circulating tumor cell (CTC) detection is a non-invasive and easy way to collect and separate single cells to use as tumor biomarkers. In this article, we show the feasibility and clinical value of RNA sequencing of CTCs at the single-cell level by exploiting CTC-FIND with SMART-Seq v4 technologies in patients with metastatic colorectal cancer (mCRC). CTCs were classified by epithelial, epithelial-mesenchymal transition (EMT), and stem cell-related gene expression. A patient who had EMT gene expressing CTCs showed significantly shorter PFS and OS regardless of epithelial CTCs presence. Therefore, the presence of CTCs expressing EMT-related genes at the single-cell level may be ofprognostic value and a potential biomarker for risk stratification in patients with refractory mCRC who are considered to have highly heterogeneous features. Abstract Background: Circulating tumor cells (CTCs) are a prognostic marker in patients with metastatic colorectal cancer (mCRC). However, little is known about the characterization of CTCs in mCRC at the single-cell level using RNA sequencing. The purpose of this study was to validate the capability to detect and isolate single CTCs for single-cell RNA sequencing (scRNA-seq) and to identify clinical significance at a single CTC level. Methods: Single CTCs from 27 mCRC patients were collected by CTC-FIND, which is comprised of filter separation and immunomagnetic depletion to collect ultra-pure CTC samples. To address tumor heterogeneity, CTCs were collected without relying on any traditional CTC markers, such as epithelial and mesenchymal cell antigens, and were undertaken by scRNA-seq using SMART-Seq v4. Results: We identified 59 single CTCs which were classified into four groups by epithelial, epithelial-mesenchymal transition (EMT) and stem cell-related gene expression. Patients receiving second or later-line treatment who had EMT gene expressing CTCs had a significantly shorter PFS and OS. Conclusions: Exploiting CTC-FIND with SMART-Seq v4 showed that scRNA-seq of CTCs may shed new insight into tumor heterogeneity of mCRC and that the presence of CTCs expressing EMT-related genes at the single-cell level could have prognostic value in mCRC patients.

Background:. Psoriatic arthritis (PsA) is an inflammatory arthropathy characterized by psoriasis and bone erosion on radiology. Dickkopf-1 (Dkk-1) is considered to be the main inhibitor of the Wnt signaling pathway and results in reduced osteoblast proliferation. The aim of this study was to investigate the serum level of Dkk-1 and its association with bone erosion in PsA patients. Methods:. Serum Dkk-1 levels were measured by enzyme-linked immunosorbent assay (ELISA) in 69 patients with PsA and 60 controls, including 39 rheumatoid arthritis (RA) patients, and 21 healthy controls (HCs). Rheumatoid factor and anti-cyclic citrullinated peptide levels were also determined by ELISA. The association of Dkk-1 level with clinical and laboratory features of PsA was analyzed. Logistic regression analysis was used to analyze the risk factors for bone erosion in PsA. Results:. Dkk-1 was elevated in 68.1% (47/69) of the patients with PsA, 46.2% (18/39) of RA patients, and 9.5% (2/21) of HCs. Serum Dkk-1 concentration was significantly higher in PsA patients compared with that in HCs. The level of serum Dkk-1 was correlated with a swollen joint count, and levels of complement components 3 and 4. Elevated Dkk-1 level (odds ratio = 4.440, 95% confidence interval: 1.246–15.817, P = 0.021) was identified as the risk factor for bone erosion in PsA. Conclusions:. The serum level of Dkk-1 is abnormally elevated in PsA patients. The elevation of Dkk-1 might be involved in the mechanism of bone erosion in patients with PsA.

BackgroundHepatocellular carcinoma (HCC) is one of the most serious consequences of chronic hepatitis B virus (HBV) or hepatitis C virus (HCV) infection. This study sought to investigate long-term outcomes after liver resection for HCC among patients with HBV/HCV co-infection (HBV/HCV-HCC) compared with patients with HBV infection (HBV-HCC).MethodsPatients who underwent curative-intent liver resection for HCC were identified from a multicenter Chinese database. Using propensity score matching (PSM), patients with HBV/HCV-HCC were matched one-to-one to patients with HBV-HCC. Overall survival (OS) and recurrence-free survival (RFS) were compared between the two groups before and after PSM.ResultsAmong 2,467 patients identified, 93 (3.8%) and 2,374 (96.2%) patients had HBV/HCV-HCC and HBV-HCC, respectively. Compared with patients with HBV-HCC, patients with HBV/HCV-HCC were older, have poorer liver-related characteristics but better tumor-related characteristics. PSM created 88 pairs of patients with comparable liver- and tumor-related characteristics (all P > 0.2). In the PSM cohort, the 3- and 5-year RFS rates in patients with HBV/HCV-HCC were 48.3% and 38.9%, which were significantly poorer than patients with HBV-HCC (61.8% and 49.2%, P = 0.037). Meanwhile, the 3- and 5-year OS rates in patients with HBV/HCV-HCC were also poorer than patients with HBV-HCC (65.4% and 51.1% vs. 73.7% and 63.0%), with a difference close to be significant between them (P = 0.081).ConclusionComparing to patients with HBV-HCC, liver resection resulted in relatively poorer long-term surgical outcomes in patients with HBV/HCV-HCC.

Many experiment results show that long non-coding RNAs (lncRNAs) play crucial roles in many biological processes, implementing their functions through interaction with RNA-binding proteins (RBPs). Considering that the experimental identification of lncRNA–protein interactions is expensive and time-consuming, many computational methods are proposed to uncover the potential lncRNA–protein interactions. In this study, we develop a novel computational method (namely LPI-BLS) to predict the lncRNA–protein interactions by using the broad learning system and building a stacked ensemble classifier with a logistical regression model. LPI-BLS first adopts the broad learning system to predict the lncRNA–protein interactions. Broad learning system is an alternative way of learning in deep structure and a flat network with few parameters. Then, the results of multiple individual broad learning systems are fed into the stacked ensemble classifier built with a logistical regression to further improve the predictive performance. Compared with other state-of-the-art methods in 5-fold cross-validation test, LPI-BLS has the best performance with the accuracy of 0.902 on RPI488 dataset, the average accuracy of 0.927 on RPI7317 dataset. The results in the independent test also show that our LPI-BLS can effectively predict the lncRNA–protein interactions. The source code can be freely downloaded from https://github.com/NWPU-903PR/LPI_BLS .

A simple method based on an integrated polarization-division multiplexing Mach–Zehnder modulator (PDM-MZM) to produce a carrier-frequency-doubled vector signal is presented and experimentally demonstrated. In this structure, the upper sub-MZM is driven by I/Q signals and biased at the quadrature point to modulate a baseband vector signal on the optical carrier. The lower sub-MZM is driven by a LO signal and is biased at the maximum transmission point (MATP) to generate the optical carrier and second-order sidebands. By filtering the negative second-order sideband via an optical bandpass filter (OBPF) and suppressing the optical carrier via polarization controller (PC), a carrier-frequency-doubled vector signal is generated at the photodetector. Due to the adoption of LO frequency-doubled technique, the system’s requirement of a high-frequency LO is relaxed. In a proof-of-concept experiment, 300 MSym/s QPSK signal with a carrier frequency of 16 GHz is obtained by 8 GHz LO signal. Besides, 25-km fiber transmission of the generated QPSK signal is demonstrated. When the optical power obtained after fiber transmission is higher than -4 dBm, the BER after demodulation is less than 8 × 10−10. Moreover, generation of vector signal with other formats is verified.

Dendritic cell-specific intercellular adhesion molecule-grabbing non-integrin-related protein (DC-SIGNR) is a transmembrane receptor primarily involved in pathogen recognition by the innate immune system, with particular importance for viral recognition. DC-SIGNR may also be associated with tumorigenesis. The aim of the present study was to investigate the association between DC-SIGNR expression, development of hepatocellular carcinoma (HCC), and clinicopathological features. Immunohistochemistry was used to assess DC-SIGNR protein expression in HCC and paired non-cancerous tissue samples. DC-SIGNR expression was lower in HCC tissues compared with adjacent non-tumor tissue samples. The expression of DC-SIGNR was associated with small tumor size, low Edmondson grade and high patient long term survival rates. Bioinformatics analyses were performed on several datasets to assess the potential function of DC-SIGNR and related genes; the data revealed that DC-SIGNR mRNA expression was lower in HCC tissues compared with non-cancerous controls, and analyses of ten-year survival rates indicated patients with low DC-SIGNR expression exhibited shorter average survival times. In conclusion, decreased DC-SIGNR expression in HCC tissues may be a relevant predictive biomarker of clinical prognosis, in addition to being a viable therapeutic target for HCC treatment.

Motivation Large amounts of information generated by genomic technologies are accompanied by statistical and computational challenges due to redundancy, badly behaved data and noise. Dimensionality reduction (DR) methods have been developed to mitigate these challenges. However, many approaches are not scalable to large dimensions or result in excessive information loss. Results The proposed approach partitions data into subsets of related features and summarizes each into one and only one new feature, thus defining a surjective mapping. A constraint on information loss determines the size of the reduced dataset. Simulation studies demonstrate that when multiple related features are associated with a response, this approach can substantially increase the number of true associations detected as compared to principal components analysis, non-negative matrix factorization or no DR. This increase in true discoveries is explained both by a reduced multiple-testing challenge and a reduction in extraneous noise. In an application to real data collected from metastatic colorectal cancer tumors, more associations between gene expression features and progression free survival and response to treatment were detected in the reduced than in the full untransformed dataset. Availability and implementation Freely available R package from CRAN, https://cran.r-project.org/package=partition. Supplementary information Supplementary data are available at Bioinformatics online.

Economic development drives industrialization, which increased the value of the extracted natural resources. Excessive usage of natural resources, through agriculture, deforestation, and mining can affect the environment. In this regard, the present study investigates the effects of natural resources' abundance on carbon dioxide (CO2) emissions. The study uses annual panel data spanning from 1990 to 2015 in BRICS countries. The augmented mean group (AMG) panel algorithm, robust to crosssectional dependence and heterogeneity, infers the heterogeneous effect of natural resources on CO2 emissions among BRICS countries. Abundance of natural resources mitigates CO2 emission in Russia, but contributes to pollution in South Africa. In addition to this, natural resources help to form Environmental Kuznets Curve (EKC) hypothesis in Brazil, China, Russia, and South Africa. Finally, causality analysis suggested feedback hypothesis between natural resources and CO2 emissions.

Multi-relation embedding is a popular approach to knowledge base completion that learns embedding representations of entities and relations to compute the plausibility of missing triplet. The effectiveness of embedding approach depends on the sparsity of KB and falls for infrequent entities that only appeared a few times. This paper addresses this issue by proposing a new model exploiting the entity-independent transitive relation patterns, namely Transitive Relation Embedding (TRE). The TRE model alleviates the sparsity problem for predicting on infrequent entities while enjoys the generalisation power of embedding. Experiments on three public datasets against seven baselines showed the merits of TRE in terms of knowledge base completion accuracy as well as computational complexity.

Background:Revealing the subcellular location of a newly discovered protein can bring insight into their function and guide research at the cellular level. The experimental methods currently used to identify the protein subcellular locations are both time-consuming and expensive. Thus, it is highly desired to develop computational methods for efficiently and effectively identifying the protein subcellular locations. Especially, the rapidly increasing number of protein sequences entering the genome databases has called for the development of automated analysis methods.Methods:In this review, we will describe the recent advances in predicting the protein subcellular locations with machine learning from the following aspects: i) Protein subcellular location benchmark dataset construction, ii) Protein feature representation and feature descriptors, iii) Common machine learning algorithms, iv) Cross-validation test methods and assessment metrics, v) Web servers.Result & Conclusion:Concomitant with a large number of protein sequences generated by highthroughput technologies, four future directions for predicting protein subcellular locations with machine learning should be paid attention. One direction is the selection of novel and effective features (e.g., statistics, physical-chemical, evolutional) from the sequences and structures of proteins. Another is the feature fusion strategy. The third is the design of a powerful predictor and the fourth one is the protein multiple location sites prediction.