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Shortest Path Analyses in the Protein-Protein Interaction Network of NGAL (Neutrophil Gelatinase-associated Lipocalin) Overexpression in Esophageal Squamous Cell Carcinoma

  • Du, Ze-Peng;Wu, Bing-Li;Wang, Shao-Hong;Shen, Jin-Hui;Lin, Xuan-Hao;Zheng, Chun-Peng;Wu, Zhi-Yong;Qiu, Xiao-Yang;Zhan, Xiao-Fen;Xu, Li-Yan;Li, En-Min
    • Asian Pacific Journal of Cancer Prevention
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    • v.15 no.16
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    • pp.6899-6904
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    • 2014
  • NGAL (neutrophil gelatinase-associated lipocalin) is a novel cancer-related protein involves multiple functions in many cancers and other diseases. We previously overexpressed NGAL to analyze its role in esophageal squamous cell carcinoma (ESCC). In this study, a protein-protein interaction (PPI) was constructed and the shortest paths from NGAL to transcription factors in the network were analyzed. We found 28 shortest paths from NGAL to RELA, most of them obeying the principle of extracellular to cytoplasm, then nucleus. These shortest paths were also prioritized according to their normalized intensity from the microarray by the order of interaction cascades. A systems approach was developed in this study by linking differentially expressed genes with publicly available PPI data, Gene Ontology and subcellular localizaton for the integrated analyses. These shortest paths from NGAL to DEG transcription factors or other transcription factors in the PPI network provide important clues for future experimental identification of new pathways.

Statistical Analysis of rCBF Positron Emission Tomography Images for the Functional Mapping of Human Memory

  • Lee, J.S.;Lee, D.S.;Park, K.S.;Kwark, C.;Lee, S.K.;Chung, J.K.;Lee, M.C.;Koh, C.S.
    • Proceedings of the KOSOMBE Conference
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    • v.1997 no.05
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    • pp.92-94
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    • 1997
  • By measuring the increase of regional cerebral blood flow (rCBF) during the activation tasks, we can describe the brain regions that participate in certain specific functions. In this study, we composed the functional maps of verbal and nonverbal memory by performing the rCBF positron emission tomography (PET) activation studies and analyzing the differences between control and each activation state. Successive four tasks, which consist of one control state and three different activation tasks, were performed on 6 normal volunteers. All images were spatially normalized on standard atlas and the differences between control and activation states were statistically analyzed. The verbal memory activated predominantly left-sided structures, especially left superior temporal cortex, and the nonverbal short-term memory activated the right frontal cortex. Also, some regions ,where is thought to be related with short-term memory system, such as cingulate gyrus and hippocampus were activated. We conclude that biological validity of the brain regions for verbal and nonverbal memory could be tested using rCBF PET imaging technique and statistical analysis.

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Effects of Temperature and Heavy Metals on Extractable Lipofuscin in the Blue Crab, Callinectes sapidus

  • Ju, Se-Jong;Harvey, H.R.
    • Journal of the korean society of oceanography
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    • v.37 no.4
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    • pp.232-241
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    • 2002
  • The potential role of environmental factors on extractable lipofuscin accumulation rate in the blue crab was studied by examining the effect of temperature on laboratory reared blue crabs and the effect of trace metals from samples collected at impacted sites (Baltimore Harbor) and a relatively pristine site (outdoor ponds at Horn Point Laboratory, Cambridge, MD, USA). Lipofuscin levels did not significantly related with sampling sites or heavy metal concentrations in the crab tissue. Heavy metal body burden was highly variable among sampling sites and tissue types but significantly higher for both impacted areas (Curtis Creek and Inner Harbor) in comparison to the reference site. Among tissue types, gills showed the highest metal concentrations with the exception of Hg, which was highest in muscle tissue. For two groups of crabs that were held at either ambient (4 to 1$0^{\circ}C$) or heated seawater (19$^{\circ}C$) for two months, normalized-lipofuscin levels were significantly different (P-0.001). Results suggest that temperature may affect lipofuscin accumulation (=0.25ng-lipofuscin/mg-protein/temperature-degree day). Therefore, temperature should be considered for accurate age calibration of crab populations using lipofuscin.

Noise Estimation based on Standard Deviation and Sigmoid Function Using a Posteriori Signal to Noise Ratio in Nonstationary Noisy Environments

  • Lee, Soo-Jeong;Kim, Soon-Hyob
    • International Journal of Control, Automation, and Systems
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    • v.6 no.6
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    • pp.818-827
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    • 2008
  • In this paper, we propose a new noise estimation and reduction algorithm for stationary and nonstationary noisy environments. This approach uses an algorithm that classifies the speech and noise signal contributions in time-frequency bins. It relies on the ratio of the normalized standard deviation of the noisy power spectrum in time-frequency bins to its average. If the ratio is greater than an adaptive estimator, speech is considered to be present. The propose method uses an auto control parameter for an adaptive estimator to work well in highly nonstationary noisy environments. The auto control parameter is controlled by a linear function using a posteriori signal to noise ratio(SNR) according to the increase or the decrease of the noise level. The estimated clean speech power spectrum is obtained by a modified gain function and the updated noisy power spectrum of the time-frequency bin. This new algorithm has the advantages of much more simplicity and light computational load for estimating the stationary and nonstationary noise environments. The proposed algorithm is superior to conventional methods. To evaluate the algorithm's performance, we test it using the NOIZEUS database, and use the segment signal-to-noise ratio(SNR) and ITU-T P.835 as evaluation criteria.

A Study on Strength Characteristics of Dredged Soft Clay (준설 연약 점토의 전단강도 특성에 관한 연구)

  • Lee, Song;Yun, Don-Kyu;Paik, Young-Shik
    • Geotechnical Engineering
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    • v.10 no.4
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    • pp.153-166
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    • 1994
  • In this paper, the experimental study on the behavior of the dredged clay was performed by introducing the consolidation teat method using continuous loading. Also a new testing method was examined and the strength of the dredged clay using thin plate was evaluated. The rheological characteristics of the dredged clay are described by the gingham model. The static and rheologic thin plate penetration test is proposed for the shear strength testing method. It is found that both of testing methods are reasonable and have a practicability. Especially, the strength increases for a water content which is less than two times of liquid limit in case of silty soil and clayey soil. About plasticity index, the strength increases rapidly for a value less than 10 for silt, 5 for clay which a water content is normalized by plasticity index of silty soil rather than clayey soil.

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Characteristics of Undrained Shear Strength of Yangsan Clay (양산지역 점토의 비배수 전단강도 특성)

  • 김길수;임형덕;이우진
    • Proceedings of the Korean Geotechical Society Conference
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    • 2000.02a
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    • pp.71-78
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    • 2000
  • SHANSEP method involves the consolidation to stresses in excess of the preconsolidation pressure in order to overcome sample disturbance effect. The concept of SHANSEP is based on an approach to laboratory test which attempts to reproduce the in-situ conditions more closely than is possible in routine tests and evaluates normalized strength parameters for the soil as a function of OCR. But SHANSEP method can be applied only to fairly uniform clay deposits, and is unsuitable for a random deposit. In this study, CK/sub o/U triaxial compression test and incremental loading consolidation test were performed for the application of SHANSEP method on Yangsan clay. During the K/sub o/-consolidation, triaxial specimens were consolidated to stress equal to two times the in-situ vertical effective stress. And for overconsolidated condition, the specimens were swelled to a known vertical effective stress in order to have the desired OCR. With the results of CK/sub o/U triaxial compression test using the block samples, the relationship between c/sub u//σ/sub vc/' and OCR on Yangsan clay was established. For evaluating the undrained shear strength of Yangsan clay with depth, CK/sub o/U triaxial compression test was performed using the piston samples taken from Yangsan site. And also undrained shear strength was analyzed from the in-situ test such as Cone Penetration Test(CPT), Dilatometer Test(DMT), and Field Vane Test(FVT) and was compared with that of CK/sub o/U triaxial compression test.

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Experiments for Side Wall Effects of a Perforated Structure Under Oblique Incident Waves (경사입사파 조건에서 유공구조물의 격벽효과에 대한 실험)

  • Lee, Jong-In;Kim, Sun Ou;Kim, Kyoung Ho
    • KSCE Journal of Civil and Environmental Engineering Research
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    • v.33 no.6
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    • pp.2343-2350
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    • 2013
  • The wave height distributions in front of a vertically perforated wall structures for obliquely incident uni-directional irregular waves are mainly investigated by using 3D hydraulic experiments. The difference and similarity of wave propagation along the plain and perforated wall structures are investigated and particularly the effects of side walls in chamber and relative chamber width are analyzed. This study shows that the wave height distribution patterns for normalized wave heights in front of structure is significantly different between the plain and perforated wall structures, and the side wall in the chamber suppresses the growth of waves.

Design of Shielded Encircling Send-Receive Type Pulsed Eddy Current Probe Using Numerical Analysis Method

  • Shin, Young-Kil
    • Journal of the Korean Society for Nondestructive Testing
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    • v.33 no.6
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    • pp.505-510
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    • 2013
  • An encircling send-receive type pulsed eddy current (PEC) probe is designed for use in aluminum tube inspection. When bare receive coils located away from the exciter were used, the peak time of the signal did not change although the distance from the exciter increased. This is because the magnetic flux from the exciter coil directly affects the receive coil signal. Therefore, in this work, both the exciter and the sensor coils were shielded in order to reduce the influence of direct flux from the exciter coil. Numerical simulation with the designed shielded encircling PEC probe showed the corresponding increase of the peak time as the sensor distance increased. Ferrite and carbon steel shields were compared and results of the ferrite shielding showed a slightly stronger peak value and a quicker peak time than those of the carbon steel shielding. Simulation results showed that the peak value increased as the defect size (such as depth and length) increased regardless of the sensor location. To decide a proper sensor location, the sensitivity of the peak value to defect size variation was investigated and found that the normalized peak value was more sensitive to defect size variation when the sensor was located closer to the exciter.

Inspection method of BGA Ball Using 5-step Ring Illumination (5층 링 조명에 의한 BGA 볼의 검사 방법)

  • Kim, Jong Hyeong;Nguyen, Chanh D.Tr.
    • Journal of Institute of Control, Robotics and Systems
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    • v.21 no.12
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    • pp.1115-1121
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    • 2015
  • Fast inspection of solder ball bumps in ball grid array (BGA) is an important issue in the flip chip bonding technology. Particularly, semiconductor industry has required faster and more accurate inspection of micron-size solder bumps in flip chip bonding, as the density of balls increase dramatically. In this paper, we describe an inspection approach of BGA balls by using 5-step ring illumination device and normalized cross-correlation (NCC) method. The images of BGA ball by the illumination device show unique and distinguishable characteristic contours by their 3-D shapes, which are called as "iso-slope contours". Template images of reference ball samples can be produced artificially by the hybrid reflectance model and 3D data of balls. NCC values between test and template samples are very robust and reliable under well-structured condition. The 200 samples on real wafer are tested and show good practical feasibility of the proposed method.

Segmentation of Words from the Lines of Unconstrained Handwritten Text using Neural Networks (신경회로망을 이용한 제약 없이 쓰여진 필기체 문자열로부터 단어 분리 방법)

  • Kim, Gyeong-Hwan
    • Journal of the Korean Institute of Telematics and Electronics C
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    • v.36C no.7
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    • pp.27-35
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    • 1999
  • Researches on the recognition of handwritten script have been conducted under the assumption that the isolated recognition units are provided as inputs. However, in practical recognition system designs, providing the isolated recognition unit is an challenge due to various writing syles. This paper proposes an approach for segmenting words from lines of unconstrained handwritten text, without help of recognition. In contrast to the conventional approaches which are based on physical gaps between connected components, clues that reflect the author's writing style, in terms of spacing, are extracted and utilized for the segmentation using a simple neural network. The clues are from character segments and include normalized heights and intervals of the segments. Effectiveness of the proposed approach compared with the conventional connected component based approaches in terms of word segmentation performance was evaluated by experiments.

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