scholarly journals Identifying Cancer genes by combining two-rounds RWR based on multiple biological data

2019 ◽  
Vol 20 (S18) ◽  
Author(s):  
Wenxiang Zhang ◽  
Xiujuan Lei (IEEE member) ◽  
Chen Bian
Keyword(s):  
Random Walk ◽  
Heterogeneous Network ◽  
Protein Complexes ◽  
Characteristic Curve ◽  
Biological Data ◽  
Cancer Genes ◽  
Similarity Network ◽  
Pathway Network ◽  
The Relationship ◽  
Potential Cancer

Abstract Background It’s a very urgent task to identify cancer genes that enables us to understand the mechanisms of biochemical processes at a biomolecular level and facilitates the development of bioinformatics. Although a large number of methods have been proposed to identify cancer genes at recent times, the biological data utilized by most of these methods is still quite less, which reflects an insufficient consideration of the relationship between genes and diseases from a variety of factors. Results In this paper, we propose a two-rounds random walk algorithm to identify cancer genes based on multiple biological data (TRWR-MB), including protein-protein interaction (PPI) network, pathway network, microRNA similarity network, lncRNA similarity network, cancer similarity network and protein complexes. In the first-round random walk, all cancer nodes, cancer-related genes, cancer-related microRNAs and cancer-related lncRNAs, being associated with all the cancer, are used as seed nodes, and then a random walker walks on a quadruple layer heterogeneous network constructed by multiple biological data. The first-round random walk aims to select the top score k of potential cancer genes. Then in the second-round random walk, genes, microRNAs and lncRNAs, being associated with a certain special cancer in corresponding cancer class, are regarded as seed nodes, and then the walker walks on a new quadruple layer heterogeneous network constructed by lncRNAs, microRNAs, cancer and selected potential cancer genes. After the above walks finish, we combine the results of two-rounds RWR as ranking score for experimental analysis. As a result, a higher value of area under the receiver operating characteristic curve (AUC) is obtained. Besides, cases studies for identifying new cancer genes are performed in corresponding section. Conclusion In summary, TRWR-MB integrates multiple biological data to identify cancer genes by analyzing the relationship between genes and cancer from a variety of biological molecular perspective.

scholarly journals Relationship between Plasma Trimethylamine N-Oxide Levels and Renal Dysfunction in Patients with Hypertension

2021 ◽  
pp. 1-12
Author(s):  
Jia Zhou ◽  
Dingkun Wang ◽  
Bingong Li ◽  
Xuelian Li ◽  
Xingjun Lai ◽  
...  
Keyword(s):  
Blood Pressure ◽  
Kidney Disease ◽  
Renal Dysfunction ◽  
High Performance ◽  
Characteristic Curve ◽  
Area Under The Curve ◽  
Hypertensive Patients ◽  
Ckd Stage ◽  
Liquid Chromatography Tandem Mass ◽  
The Relationship

<b><i>Introduction:</i></b> Trimethylamine N-oxide (TMAO) is a metabolite produced by gut bacteria. Although increased TMAO levels have been linked to hypertension (HTN) and chronic kidney disease (CKD) with poor prognosis, no clinical studies have directly addressed the relationship between them. In this study, we investigated the relationship between TMAO and renal dysfunction in hypertensive patients. <b><i>Methods:</i></b> We included healthy controls (<i>n</i> = 50), hypertensive patients (<i>n</i> = 46), and hypertensive patients with renal dysfunction (<i>n</i> = 143). Their blood pressure values were taken as the highest measured blood pressure. Renal function was evaluated using the estimated glomerular filtration rate. Plasma TMAO levels were measured using high-performance liquid chromatography tandem mass spectrometry. <b><i>Results:</i></b> We found significant differences in plasma TMAO levels among the 3 groups (<i>p</i> &#x3c; 0.01). The plasma TMAO of patients with HTN was significantly higher than that of healthy people, and the plasma TMAO of patients with HTN complicated by renal dysfunction was significantly higher than either of the other groups. Patients in the highest TMAO quartile were at a higher risk of developing CKD stage 5 than those in the lowest quartile. In the receiver operating characteristic curve, the area under the curve of TMAO combined with β 2-macroglobulin for predicting renal dysfunction in patients with HTN was 0.85 (95% confidence interval 0.80–0.90). <b><i>Conclusion:</i></b> An elevated TMAO level reflects higher levels of HTN and more severe renal dysfunction. TMAO, combined with β 2-macroglobulin levels, may assist in diagnosing CKD in hypertensive patients. Plasma TMAO has predictive value for early kidney disease in hypertensive patients.

Study on the Prediction Method of Tunnel Surrounding Rock Pressure Based on the Theory of Progressive Destruction

2012 ◽  
Vol 446-449 ◽  
pp. 1432-1436
Author(s):  
Suo Wang
Keyword(s):  
Rock Pressure ◽  
Characteristic Curve ◽  
Prediction Method ◽  
Surrounding Rock ◽  
Progressive Damage ◽  
Tunnel Excavation ◽  
Practical Engineering ◽  
Surrounding Rock Pressure ◽  
The Relationship ◽  
Rock Parameters

In order to predict tunnel surrounding rock pressure, this paper puts forward a series of dynamic numerical simulative model on the tunnel excavation. According to the change of rock damage in the construction program, it adjusts dynamically the mechanical material parameters of surrounding rock. So the model achieves the purpose which is controlling and simulating the process of tunnel progressive damage. In accordance with the numerical simulative results, it analyzes the relationship between the rock parameters with the plastic strain, radial displacement. Then this paper proposes a prediction method of tunnel surrounding rock pressure based on the theory of the progressive damage and method of characteristic curve. Finally, it compares the pressure on the numerical simulative models with on the site date, and it proves that the prediction method has practical engineering value.

scholarly journals The serum homocysteine level in patients with acute ischemic stroke (AIS) after thrombolysis and its relationship with clinical outcomes

2018 ◽  
Vol 64 (5) ◽  
pp. 438-442 ◽  
Author(s):  
Ling-Cong ◽  
Hong-Zhao ◽  
Yu-Wang ◽  
Yu-Li ◽  
Xin-Sui
Keyword(s):  
Clinical Outcomes ◽  
Operating Characteristic ◽  
Characteristic Curve ◽  
Thrombolytic Treatment ◽  
Neurological Outcomes ◽  
High Level Group ◽  
Serum Homocysteine ◽  
High Level ◽  
The Relationship ◽  
Level Group

SUMMARY OBJECTIVE The present study aims to investigate whether hyperhomocysteinemia (HHcy) affects the outcomes of the thrombolytic treatment for patients with AIS. METHODS A sample of 120 AIS patients were recruited and grouped according to their serum homocysteine (Hcy) levels. The National Institute of Health Stroke Scale (NIHSS) was obtained before treatment and 7 days after it to evaluate neurological outcomes; modified Rankin Scale (mRS) was obtained 12 weeks later to assess functional outcomes. Receiver operating characteristic curve (ROC) was used to demonstrate the relationship between serum Hcy level and the outcomes after tPA treatment. RESULTS The serum Hcy level of 120 patients was of 27.57±20.17μmol/L. The NIHSS scores of the patients in the low Hcy level group were remarkably lower compared to those in the high-level group (p<0.05), after 7 days of treatment. In addition, the mRS scores of the patients in the low Hcy level group, after 12 weeks, were remarkably lower compared to those in the high-level group (p<0.01). ROC demonstrated that the serum Hcy level is related to the clinical outcomes of thrombolytic treatment with moderate specificity (80.3%) and sensitivity (58.2%). CONCLUSION In conclusion, higher serum Hcy levels can indicate poorer clinical outcomes of thrombolytic treatment in patients with AIS.

Prediction of drug–target interaction by label propagation with mutual interaction information derived from heterogeneous network

2016 ◽  
Vol 12 (2) ◽  
pp. 520-531 ◽  
Author(s):  
Xiao-Ying Yan ◽  
Shao-Wu Zhang ◽  
Song-Yao Zhang
Keyword(s):  
Heterogeneous Network ◽  
Drug Target ◽  
Label Propagation ◽  
Mutual Interaction ◽  
Potential Drug Target ◽  
Potential Drug ◽  
Similarity Network ◽  
Target Interaction ◽  
Interaction Information

By implementing label propagation on drug/target similarity network with mutual interaction information derived from drug–target heterogeneous network, LPMIHN algorithm identifies potential drug–target interactions.

scholarly journals The photographic action of β-rays

1927 ◽  
Vol 114 (767) ◽  
pp. 266-276 ◽  
Keyword(s):  
Direct Method ◽  
Photographic Plate ◽  
Characteristic Curve ◽  
Total Charge ◽  
X Rays ◽  
Reciprocity Law ◽  
Ordinary Light ◽  
General Experience ◽  
High Degree ◽  
The Relationship

The study of β-ray spectra has now advanced to that stage at which, for the majority of radioactive substances, the velocities of the homogeneous electrons forming the “lines” have been measured with a fair accuracy. The relative intensities of the “lines” have in the past been obtained by visual estimation of the photographic blackening of the plates on which they have been recorded, and it has become important to obtain more precise information on this subject. The most direct method of determining the relative intensities would be to count the number of, or measure the total charge carried by, the particles forming the lines. This is not practicable, to any high degree of accuracy, because of the small effects which are obtainable, and it is obvious that the photographic plate, in giving quite intense and sharp lines, in addition to a permanent record, presents many advantages. The use of this method, however, necessitates the calibration of the plate both for the variation of the blackening with exposure and also with velocity of the rays. The corresponding calibrations for ordinary light have now become a matter of routine, but since there has, as yet, been little systematic work on the behaviour of the photographic plate to β-rays, we have thought it best to record in this paper such experiments as we have found necessary before undertaking the main intensity problem. It is the dependence of blackening on exposure which is mainly treated in this paper, although we have in addition obtained some interesting results on the effect of β-particles of different velocities. In an investigation on the relationship between blackening and exposure i. e ., the characteristic curve of a type of plate, it is first necessary to find the dependence of the blackening D on the time of exposure t , when the product of intensity I and time of exposure t is kept constant. If D is independent of t , when I. t is constant, then the Reciprocity Law of Bunsen and Roscoe is said to be valid for the plate. This law, although it has to be slightly modified for luminous radiation, has been shown to be true in the case of X-rays and also for heterogeneous β-rays. In all previous work on the photographic action of β-rays the particles were of heterogeneous velocities, but in view of the ultimate object of this investigation it was thought unsatisfactory to employ heterogeneous particles, and although the procedure was thereby made rather more laborious, beams of practically homogeneous particles, taken from the continuous β-ray spectrum, were used. It is in general important, when dealing with an unknown type of plate, after investigating the validity of the Reciprocity Law, to determine the variation of the characteristic curve with time of development, and thereby find the optimum value. Our general experience in photographing β-ray spectra had led us to employ a particular type of plate and method of development, and the main value of our experiments on the variation of the characteristic curve with time of development was that it indicated the error introduced into the value of the density for a given uncertainty in the time of development.

Soil Water Characteristic Curve and its Applications in Tunnel

2011 ◽  
Vol 261-263 ◽  
pp. 1039-1043
Author(s):  
Yu You Yang ◽  
Qin Xi Zhang ◽  
Gui He Wang ◽  
Jia Xing Yu
Keyword(s):  
Water Content ◽  
Soil Water ◽  
Land Subsidence ◽  
Unsaturated Soil ◽  
Characteristic Curve ◽  
Tunnel Construction ◽  
Coupling Theory ◽  
Engineering Analysis ◽  
Soil Water Characteristic Curve ◽  
The Relationship

A soil water characteristic curve (SWCC) can describe the relationship between unsaturated soil matric suction and water content. By analyzing and researching the test data of the soil water characteristic curve researchers can initially establish the SWCC equation and apply this equation to the actual engineering analysis. In another words, this article is based on the fluid-solid coupling theory of unsaturated soil used to analyze and study the problem of land subsidence caused by tunnel construction. Numerical calculations show that the coupling results agree well with the measured curve works.

scholarly journals Urine CA-2 as a biomarker for diagnosis urinary stone and prediction of its complications

2020 ◽  
Author(s):  
Yuan-jing Leng ◽  
Hai-bin Zhou ◽  
Jiang-ling Fu ◽  
Wen-juan Wang
Keyword(s):  
Healthy Subjects ◽  
Characteristic Curve ◽  
Urinary Stone ◽  
Urinary Stones ◽  
Enzyme Linked Immunosorbent Assay ◽  
Control Group ◽  
Healthy Control ◽  
The Mean ◽  
The Difference ◽  
The Relationship

Abstract PURPOSECarbonic anhydrase-2 (CA-2) plays a role in mineralization and calcification in organism. Strong evidence suggests that CA-2 is associated with urolithiasis. However, the relationship between CA-2 and urinary stone remains unclear. The study aimed to assess the association of urine CA-2 (uCA-2) level and the potential risk of urinary stone.METHODSFrom March 2017 to November 2019, a prospective cohort study was conducted on patients with urinary stones and healthy subjects to determine the pretreatment uCA-2 level detection by Enzyme linked immunosorbent assay (ELISA). The difference of uCA-2 level between patients with urinary stones and healthy subjects was compared. Then comparison between stone patients with complications and without complications was carried out as well as correlation analysis to detect factors associated with biomarker expression.RESULTS118 patients with urinary stones were into urinary stones group and 42 healthy subjects were into healthy control group. The mean pretreatment uCA-2 level was significantly higher in patients with urinary stones group than healthy controls group (P=0.028). Furthermore, The uCA-2 level was positive correlation with urinary stones complications (R=0.379, P=0.000), especially pain complications (R=0.524, P=0.000) and hematuria complications (R=0.374, P=0.000). Receiver operating characteristic curve (ROC) analysis that a uCA-2 level threshold of 10.94 ng/mL had 83.67% sensitivity and 68.12% specificity for predicting urinary stones complications. CONCLUSIONSExcessive uCA-2 excretion is a major risk factor for urinary stone. Our findings suggested that uCA-2 may be used as an unappreciated biomarker for the diagnosis urinary stone in patients and to predict its complications.

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