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Usuzaki, T.

Publications and source records attributed to Usuzaki, T..

2 recordsLinked to original sources

Exponentiating pixel values for data augmentation to improve deep learning image classification in chest X-rays

A previous study reported that exponentiating pixel values of a medical can be used for DA through enhancing contrast of the image. However, it is still unclear whether exponentiating pixel values of CXR images can be used for DA with CNN. The aim of this study is to evaluate the effectiveness of exponentiating pixel values for DA using CNN in the task of classifying normal and abnormal CXR images. In constructing an image for DA, each pixel value of the original images was exponentiated by the exponent ranging from 1 to 10, incrementing by 0.5. We call this image as exponentiated image (EI). For each exponent (1.0, 1.5, 1.5, 2.0,..., 10.0), the CNN model was trained using the original training dataset and EI for 40 epochs. Test accuracy was calculated at the end of each epoch using the test dataset. The maximum test accuracy (MTA) among the 40 test accuracies was saved for statistical analysis. This process was repeated 50 times for each exponent (1.0, 1.5, 1.5, 2.0,..., 10.0). The mean MTA for each exponent (1.5, 1.5, 2.0,..., 10.0) was compared using Students t-test, to that of 1.0. The mean MTA when the exponent was 1.0 was 0.749 (reference). The mean MTA was higher than the reference at exponent values 4.5(MTA=0.762, p-value=0.014), 5.0(0.762, 0.019), 5.5(0.772, 2.9 x 10-5), and 6.5(0.763, 0.010). Exponentiating pixel values can be used for DA with CNN to classify normal and abnormal CXR images.

bioinformatics↗

Clustering by phenotype and genome-wide association study in autism

BackgroundAutism spectrum disorder (ASD) has phenotypically and genetically heterogeneous characteristics. A simulation study demonstrated that attempts to categorize patients with a complex disease into more homogeneous subgroups could have more power to elucidate hidden heritability. MethodsWe conducted cluster analyses using the k-means algorithm with a cluster number of 15 based on phenotypic variables from the Simons Simplex Collection (SSC). As a preliminary study, we conducted a conventional genome-wide association study (GWAS) with a dataset of 597 ASD cases and 370 controls. In the second step, we divided cases based on the clustering results and conducted GWAS in each of the subgroups vs controls (cluster-based GWAS). We also conducted cluster-based GWAS on another SSC dataset of 712 probands and 354 controls in the replication stage. ResultsIn the preliminary study, we observed no significant associations. In the second step of cluster-based GWASs, we identified 65 chromosomal loci, which included 30 intragenic loci located in 21 genes and 35 intergenic loci that satisfied the threshold of P<5.0x10-8. Some of these loci were located within or near previously reported candidate genes for ASD: CDH5, CNTN5, CNTNAP5, DNAH17, DPP10, DSCAM, FOXK1, GABBR2, GRIN2A5, ITPR1, NTM, SDK1, SNCA and SRRM4. Of these 65 significant chromosomal loci, rs11064685 located within the SRRM4 gene had a significantly different distribution in the cases vs. controls in the replication cohort. ConclusionsThese findings suggest that clustering may successfully identify subgroups with relatively homogeneous disease etiologies. Further cluster validation and replication studies are warranted in larger cohorts.

neuroscience↗