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Journal articles on the topic 'Principal Component Analysis Atlas'

Author: Grafiati

Published: 3 June 2025

Last updated: 31 July 2025

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1

J., Ravi *. M. Praveen Kumar N. Kishore Chandra Dev. "SEGMENTATION OF 3D MR IMAGES OF THE BRAIN USING A PCA ATLAS." INTERNATIONAL JOURNAL OF ENGINEERING SCIENCES & RESEARCH TECHNOLOGY 6, no. 10 (2017): 288–96. https://doi.org/10.5281/zenodo.1012497.

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This Paper represents a method for the automatic segmentation of the brain in magnetic resonance (MR) images of the human head. The method identifies brain areas of interest, including the gyri and other subcortical structures that were manually delineated in a set of labelled training images. Principal components analysis (PCA) is applied to the training ensemble in order to learn a PCA atlas subspace, which is a dimensionality-reduced linear subspace of labelled brain images. We employ this subspace to segment and label previously unseen subject images. This is accomplished by finding the PC

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Meseke, Christopher A., Stephen M. Duray, and Sebastien R. Brillon. "Principal Components Analysis of the Atlas Vertebra." Journal of Manipulative and Physiological Therapeutics 31, no. 3 (2008): 212–16. http://dx.doi.org/10.1016/j.jmpt.2008.02.010.

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Lima, H. P., and J. M. Seixas. "A segmented principal component analysis applied to calorimetry information at ATLAS." Nuclear Instruments and Methods in Physics Research Section A: Accelerators, Spectrometers, Detectors and Associated Equipment 559, no. 1 (2006): 129–33. http://dx.doi.org/10.1016/j.nima.2005.11.131.

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Harada, Nanase, David S. Meier, Sergio Martín, et al. "The ALCHEMI Atlas: Principal Component Analysis Reveals Starburst Evolution in NGC 253." Astrophysical Journal Supplement Series 271, no. 2 (2024): 38. http://dx.doi.org/10.3847/1538-4365/ad1937.

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Abstract Molecular lines are powerful diagnostics of the physical and chemical properties of the interstellar medium (ISM). These ISM properties, which affect future star formation, are expected to differ in starburst galaxies from those of more quiescent galaxies. We investigate the ISM properties in the central molecular zone of the nearby starburst galaxy NGC 253 using the ultrawide millimeter spectral scan survey from the Atacama Large Millimeter/submillimeter Array Large Program ALCHEMI. We present an atlas of velocity-integrated images at a 1.″6 resolution of 148 unblended transitions fr

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Brigitta ersa pancarwani, Maherawati, and Oke Anandika Lestari. "ANALISIS INDIKATOR KETAHANAN PANGAN KABUPATEN MELAWI DENGAN METODE PRINCIPAL COMPONENT ANALYSIS (PCA)." Jurnal Agroindustri Pangan 4, no. 1 (2025): 57–71. https://doi.org/10.47767/agroindustri.v4i1.980.

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Ketahanan pangan merupakan situasi ketika setiap rumah tangga memiliki kapasitas fisik atau ekonomi yang memadai untuk mengakses pangan bagi semua anggota keluarganya. Kabupaten Melawi menjadi salah satu kabupaten di Kalimantan Barat yang mempunyai kecamatan rentan pangan berdasarkan hasil analisis FSVA (Food Security and Vulnerability Atlas) tahun 2022. Tujuan penelitian untuk mendapatkan indikator-indikator penting yang mempengaruhi kondisi ketahanan pangan di Kabupaten Melawi dengan metode analisis PCA. Hasil dari penelitian ini diketahui terdapat lima variabel penting mempengaruhi ketahana

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Asensi Tortajada, Ignacio, André Rummler, George Salukvadze, Carlos Solans Sánchez, and Kendall Reeves. "ATLAS Technical Coordination Expert System." EPJ Web of Conferences 214 (2019): 05035. http://dx.doi.org/10.1051/epjconf/201921405035.

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When planning an intervention on a complex experiment like ATLAS, the detailed knowledge of the system under intervention and of the interconnection with all the other systems is mandatory. In order to improve the understanding of the parties involved in an intervention, a rule-based expert system has been developed. On the one hand this helps to recognise dependencies that are not always evident and on the other hand it facilitates communication between experts with different backgrounds by translating between vocabularies of specific domains. To simulate an event this tool combines informati

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Park, Mira, Doyoen Kim, Kwanyoung Moon, and Taesung Park. "Integrative Analysis of Multi-Omics Data Based on Blockwise Sparse Principal Components." International Journal of Molecular Sciences 21, no. 21 (2020): 8202. http://dx.doi.org/10.3390/ijms21218202.

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The recent development of high-throughput technology has allowed us to accumulate vast amounts of multi-omics data. Because even single omics data have a large number of variables, integrated analysis of multi-omics data suffers from problems such as computational instability and variable redundancy. Most multi-omics data analyses apply single supervised analysis, repeatedly, for dimensional reduction and variable selection. However, these approaches cannot avoid the problems of redundancy and collinearity of variables. In this study, we propose a novel approach using blockwise component analy

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Hanh, Nguyen Hong, Nguyen Thi Ngoc Dinh, Pham Thi Thu Huong, et al. "Variation of morpho-agronomical characteristics and genetic diversity of imported asparagus cultivars in Vietnam." February 2024, no. 18(02):2024 (February 1, 2024): 107–15. http://dx.doi.org/10.21475/ajcs.24.18.02.pne4101.

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Asparagus (Asparagus officinalis L.) is a perennial plant globally known for its unique texture, good flavor, and high nutritional value. This paper aims to provide information on the phenotypic traits, the situation of stem blight disease of the imported asparagus varieties and introduce suitable asparagus cultivars for Vietnam. The evaluation of morpho-agronomical characteristics variability of 13 imported asparagus cultivars in the first growing year was arranged in a Random Complete Block Design (RCBD) with 3 replicates in Hanoi, Vietnam. Genetic diversity was assessed using hierarchical c

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Cosentino, Federica, Giuseppe M. Raffa, Giovanni Gentile, et al. "Statistical Shape Analysis of Ascending Thoracic Aortic Aneurysm: Correlation between Shape and Biomechanical Descriptors." Journal of Personalized Medicine 10, no. 2 (2020): 28. http://dx.doi.org/10.3390/jpm10020028.

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An ascending thoracic aortic aneurysm (ATAA) is a heterogeneous disease showing different patterns of aortic dilatation and valve morphologies, each with distinct clinical course. This study aimed to explore the aortic morphology and the associations between shape and function in a population of ATAA, while further assessing novel risk models of aortic surgery not based on aortic size. Shape variability of n = 106 patients with ATAA and different valve morphologies (i.e., bicuspid versus tricuspid aortic valve) was estimated by statistical shape analysis (SSA) to compute a mean aortic shape an

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Li, Mr Yonghao, Mr Yizhou Wan, and Prof Stephen Price. "INTEGRATING TRANSCRIPTOMICS WITH SPATIAL RADIOGRAPHIC ATLASES FOR GLIOMA ANALYSIS." Neuro-Oncology 26, Supplement_7 (2024): vii10. http://dx.doi.org/10.1093/neuonc/noae158.039.

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Abstract AIMS The localization of gliomas in the brain is a critical prognostic factor, reﬂecting the genetic makeup of their originating cells. Variations in transcriptomic proﬁles across different regions and subtypes may further shed light on the mechanisms driving tumor development. Our research delves into the complex interplay between glioma locations and their transcriptomic signatures, seeking to dissect the spatial and genetic intricacies contributing to glioma diversity. METHOD In this study, we conducted a comprehensive analysis of preoperative anatomical MRI and transcriptomic data

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Tomao, Antonio, Walter Mattioli, David Fanfani, et al. "Economic Downturns and Land-Use Change: A Spatial Analysis of Urban Transformations in Rome (Italy) Using a Geographically Weighted Principal Component Analysis." Sustainability 13, no. 20 (2021): 11293. http://dx.doi.org/10.3390/su132011293.

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Globally, processes that drive urbanization have mostly evolved within economic downturns. Economic crises have been more severe and frequent, particularly in the Mediterranean region. However, studies on the recession effects on urbanization are limited. The present study explores possible differences in spatial direction and intensity of land-use change trajectories at two time intervals (2006–2012, 2012–2018) using high-resolution Copernicus Land Urban Atlas images in the Rome metropolitan area. To this aim, a landscape ecology classical approach based on land-use metric analysis combined w

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Yoshihiro, Kushihara, Syota Tanaka, Erika Yamasawa, et al. "IM-03 IMMUNOLOGICAL SUBTYPES OF GLIOBLASTOMA BASED ON TUMOR INFILTRATING CELLS." Neuro-Oncology Advances 1, Supplement_2 (2019): ii12. http://dx.doi.org/10.1093/noajnl/vdz039.052.

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Abstract To discover novel biological targets in glioblastoma, genomic and immunological analysis were performed using The Cancer Genome Atlas (TCGA) data set. The RNA-seq data of 156 primary glioblastoma cases were subjected to CIBERSORT to detect tumor infiltrating cell fractions. Principal component analysis was performed on this data to detect factors that strongly contribute to the first principal component, and hierarchical clustering was performed. Survival curves were compared for each of the derived clusters. Finally, Gene Set Enrichment Analysis (GSEA) using HALLMARK Gene Set was per

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Sciortino, Vincenza, Salvatore Pasta, Tommaso Ingrassia, and Donatella Cerniglia. "A Population-Based 3D Atlas of the Pathological Lumbar Spine Segment." Bioengineering 9, no. 8 (2022): 408. http://dx.doi.org/10.3390/bioengineering9080408.

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The spine is the load-bearing structure of human beings and may present several disorders, with low back pain the most frequent problem during human life. Signs of a spine disorder or disease vary depending on the location and type of the spine condition. Therefore, we aim to develop a probabilistic atlas of the lumbar spine segment using statistical shape modeling (SSM) and then explore the variability of spine geometry using principal component analysis (PCA). Using computed tomography (CT), the human spine was reconstructed for 24 patients with spine disorders and then the mean shape was de

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Ferre, Claudio L., Jason B. Carmel, Véronique H. Flamand, Andrew M. Gordon, and Kathleen M. Friel. "Anatomical and Functional Characterization in Children With Unilateral Cerebral Palsy: An Atlas-Based Analysis." Neurorehabilitation and Neural Repair 34, no. 2 (2020): 148–58. http://dx.doi.org/10.1177/1545968319899916.

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Background. Variability in hand function among children with unilateral cerebral palsy (UCP) might reflect the type of brain injury and resulting anatomical sequelae. Objective. We used atlas-based analysis of structural images to determine whether children with periventricular (PV) versus middle cerebral artery (MCA) injuries might exhibit unique anatomical characteristics that account for differences in hand function. Methods. Forty children with UCP underwent structural brain imaging using 3-T magnetic resonance imaging. Brain lesions were classified as PV or MCA. A group of 40 typically de

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Abbass, M., G. Gilmore, A. Chalil, et al. "P.124 Subnuclear contact localization within the subthalamic nucleus in deep brain stimulation for Parkinson Disease." Canadian Journal of Neurological Sciences / Journal Canadien des Sciences Neurologiques 49, s1 (2022): S41. http://dx.doi.org/10.1017/cjn.2022.215.

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Background: Therapeutic response from subthalamic nucleus (STN) deep brain stimulation (DBS) for Parkinson disease (PD) has been associated with proximity to an ideal target, commonly in the dorsal sensorimotor STN. Automated registration and atlas-based segmentation has allowed for contact localization within STN subnuclei. We sought to apply these methods to characterize the spatial distribution of our active contact placements. Methods: We conducted a retrospective analysis of 55 patients who underwent bilateral STN DBS for PD. Post-operative CT/MRI scans were non-linearly registered into a

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Idir EL, Konty, Algouti Ahmed, Algouti Abdellah, and Hadach Fatiha. "The contribution of GIS and remote Sensing for mapping fracture networks in the northern border western High Atlas Mafrrakech (Morocco)." Disaster Advances 15, no. 1 (2021): 61–70. http://dx.doi.org/10.25303/1501da6170.

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The main objective of this work is to test the use of Landsat Oli Tirs imagery for structural identification in the region of the Aït Ourir basins (High Western Atlas). Different processing techniques were used (color composites, band ratios, principal component analysis and directional filters) which provide an excellent discrimination between the different lithological formations and helped us to establish lineament mapping. The results were validated with the fieldwork and bibliography that are essential in any study based on remote sensing. Finally, a lithostructural map of the study area

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Choukrad, Jaouad, Abdelkhiar Ait Ali, Hicham Si Mhamdi, et al. "Contribution of Landsat 8 OLI imagery to mapping of lithological series and lineaments: implications for Pb-Zn mineralization exploration in the Boudahar Massif, Eastern High Atlas, Morocco." Estudios Geológicos 79, no. 2 (2023): e159. http://dx.doi.org/10.3989/egeol.45041.1056.

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The Boudahar massif is located in the southern part of the eastern belt of the Moroccan High Atlas and it corresponds to a reef mass of about ten kilometers in length. Jbel Boudahar is a district of lead-zinc-barite mineralization, known by a strong artisanal exploitation of its ores. This district is characterized by its topography with a contrast of altitude and an arid environment, which makes the information acquired more valuable. The processing of Landsat 8 OLI data allowed us to extract a lithological and structural map, aiming to make correlations to understand the distribution of lead

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Fortin, Jean-Philippe, Elana Fertig, and Kasper Hansen. "shinyMethyl: interactive quality control of Illumina 450k DNA methylation arrays in R." F1000Research 3 (September 19, 2014): 175. http://dx.doi.org/10.12688/f1000research.4680.2.

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We present shinyMethyl, a Bioconductor package for interactive quality control of DNA methylation data from Illumina 450k arrays. The package summarizes 450k experiments into small exportable R objects from which an interactive interface is launched. Reactive plots allow fast and intuitive quality control assessment of the samples. In addition, exploration of the phenotypic associations is possible through coloring and principal component analysis. Altogether, the package makes it easy to perform quality assessment of large-scale methylation datasets, such as epigenome-wide association studies

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El Atillah, Abdessamad, Zine El Abidine El Morjani, and Mustapha Souhassou. "Use of the Sentinel-2A Multispectral Image for Litho-Structural and Alteration Mapping in Al Glo’a Map Sheet (1/50,000) (Bou Azzer–El Graara Inlier, Central Anti-Atlas, Morocco)." Artificial Satellites 54, no. 3 (2019): 73–96. http://dx.doi.org/10.2478/arsa-2019-0007.

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Abstract The discovery of natural resources remains the main mission of Earth observation satellites, especially in geographical areas that have a very difficult accessibility as those of the Bou Azzer–El Graara inlier (Central Anti-Atlas, Morocco). This work investigates the use of different satellite data, such as Sentinel-2A’s multispectral imagery, in order to direct the prospection program in an efficient manner, saving both time and cost. The image processing methods of Landsat 7, 8, and “Advanced Spaceborne Thermal Emission and Reflection Radiometer (ASTER)” (30 m/15 m) were used to cre

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Ijaajaane, Abdelhak, Hicham Mhamdi, Mourad Aqnouy, et al. "Remote Sensing Contributions to Lithostructural Mapping Using Sentinel 2A Data: A Case Study of the Errachidia Area (Central High Atlas, Morocco)." Iraqi Geological Journal 58, no. 1C (2025): 125–51. https://doi.org/10.46717/igj.58.1c.11ms-2025-3-26.

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Remote sensing techniques have become a vital resource for geological mapping and analysis. This research focuses on litho-structural mapping in the Northern Errachidia area in the southern Atlas range, Morocco, formed by Jurassic and Cretaceous formations shaped by the Alpine orogeny. This study combines remote sensing with field investigations. The main goals are to expand geological mapping south and east of the Ait Atmane geological map and demonstrate the efficacy of remote sensing in geological mapping. Here, we develop a methodological approach applicable to other areas with the same ch

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Xing, Fangxu, Jiachen Zhuo, Maureen Stone, et al. "Quantifying articulatory variations across phonological environments: An atlas-based approach using dynamic magnetic resonance imaging." Journal of the Acoustical Society of America 156, no. 6 (2024): 4000–4009. https://doi.org/10.1121/10.0034639.

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Identification and quantification of speech variations in velar production across various phonological environments have always been an interesting topic in speech motor control studies. Dynamic magnetic resonance imaging has become a favorable tool for visualizing articulatory deformations and providing quantitative insights into speech activities over time. Based on this modality, it is proposed to employ a workflow of image analysis techniques to uncover potential deformation variations in the human tongue caused by changes in phonological environments by altering the placement of velar con

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Wang, Yangyang, Xiaoguang Gao, and Jihan Wang. "Functional Proteomic Profiling Analysis in Four Major Types of Gastrointestinal Cancers." Biomolecules 13, no. 4 (2023): 701. http://dx.doi.org/10.3390/biom13040701.

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Gastrointestinal (GI) cancer accounts for one in four cancer cases and one in three cancer-related deaths globally. A deeper understanding of cancer development mechanisms can be applied to cancer medicine. Comprehensive sequencing applications have revealed the genomic landscapes of the common types of human cancer, and proteomics technology has identified protein targets and signalling pathways related to cancer growth and progression. This study aimed to explore the functional proteomic profiles of four major types of GI tract cancer based on The Cancer Proteome Atlas (TCPA). We provided an

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El Fakir, Rabia, El Mostafa Mili, Ali Essahlaoui, Mohammed El Hafyani, and Zakaria Ammari. "Physicochemical characterization of the unconfined water-table aquifer of the Fez-Meknes basin." E3S Web of Conferences 314 (2021): 07002. http://dx.doi.org/10.1051/e3sconf/202131407002.

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This paper aims to determine the hydrogeochemical characteristics of the Fez-Meknes free water table thought the monitoring of the physicochemical analyses of nine samples during the year of 2013, 2016, and 2019. This water table, which circulates in the plio-quaternary formations, is generally supplied by rainfall infiltration, irrigation water returns and also the lateral inflow of the unconfined liasic water table of the Middle Atlas Tabular. Analyses were performed for electrical conductivity (EC), potential hydrogen (pH), temperature and major elements: Cl-, NO3-, SO42-, Na+, Mg2+, Ca2+,

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Bouteldjaoui, F., M. Bessenasse, J. D. Taupin, and A. Kettab. "Mineralization mechanisms of groundwater in a semi-arid area in Algeria: statistical and hydrogeochemical approaches." Journal of Water Supply: Research and Technology-Aqua 69, no. 2 (2019): 173–83. http://dx.doi.org/10.2166/aqua.2019.116.

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Abstract The study area of Ain Oussera (3,790 km2) is located in the semi-arid high plains of the Saharian Atlas (200 km south of Algiers). Groundwater investigated in the present study is from the Albian formations which are considered as a major source for drinking and irrigation water. The objective of this study is to identify the different hydrochemical processes controlling the groundwater mineralization. For this purpose, chemical analyses were performed on 31 wells sampled during May 2014. The chemical study (total dissolved solids (TDS), Piper, chemical correlation) allowed the origin

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Mrad, D., S. Dairi, S. Boukhari, and Y. Djebbar. "Applied multivariate analysis on annual rainfall in the northeast of Algeria." Journal of Water and Climate Change 11, no. 4 (2019): 1165–76. http://dx.doi.org/10.2166/wcc.2019.272.

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Abstract In recent times, there has been a growing interest in understanding precipitation variability and its predictability for periods of a few months to several years. Our work consisted of studying climatic changes in the northeastern region of Algeria based on multivariate analysis of the annual rainfall. Variability of annual rainfall was analyzed using principal component analysis (PCA) and non-hierarchical classification (cluster method). For spatial rainfall variability, due to the complexity of the region, we used the method inverse distance weighted cartography modeling. Results in

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Deng, Yanyao, Hai Hu, Le Xiao, et al. "Identification of EMT-Related lncRNAs as Potential Prognostic Biomarkers and Therapeutic Targets for Pancreatic Adenocarcinoma." Journal of Oncology 2022 (April 11, 2022): 1–15. http://dx.doi.org/10.1155/2022/8259951.

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Epithelial-mesenchymal transition (EMT) can promote carcinoma progression by multiple mechanisms; many studies demonstrated the invasiveness of pancreatic adenocarcinoma (PAAD) associated with the EMT, but how it acts through an lncRNA-dependent manner is unknown. Here, we investigated 146 samples from The Cancer Genome Atlas (TCGA) and 92 samples from the International Cancer Genome Consortium (ICGC). By gene set variation analysis (GSVA) and weighted correlation network analysis (WGCNA), we explored the EMT-related long noncoding RNAs (EMTlnc). Then, we performed univariate Cox regression an

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Lauss, Martin, Ilhami Visne, Albert Kriegner, Markus Ringnér, Göran Jönsson, and Mattias Höglund. "Monitoring of Technical Variation in Quantitative High-Throughput Datasets." Cancer Informatics 12 (January 2013): CIN.S12862. http://dx.doi.org/10.4137/cin.s12862.

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High-dimensional datasets can be confounded by variation from technical sources, such as batches. Undetected batch effects can have severe consequences for the validity of a study's conclusion(s). We evaluate high-throughput RNAseq and miRNAseq as well as DNA methylation and gene expression microarray datasets, mainly from the Cancer Genome Atlas (TCGA) project, in respect to technical and biological annotations. We observe technical bias in these datasets and discuss corrective interventions. We then suggest a general procedure to control study design, detect technical bias using linear regre

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Lee, Fang, Chi-Yu Kuo, Chung-Hsin Tsai, and Shih-Ping Cheng. "Propensity Score-Matched Analysis to Identify Pathways Associated with Loss of Sodium Iodide Symporter in Papillary Thyroid Cancer." Current Issues in Molecular Biology 44, no. 4 (2022): 1488–96. http://dx.doi.org/10.3390/cimb44040101.

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Sodium iodide symporter (NIS) expression in thyroid follicular cells plays an important role in normal physiology and radioactive iodine therapy for thyroid cancer. Loss of NIS expression is often seen in thyroid cancers and may lead to radioiodine refractoriness. To explore novel mechanisms of NIS repression beyond oncogenic drivers, clinical and RNA-seq data from the thyroid cancer dataset of The Cancer Genome Atlas were analyzed. Propensity score matching was used to control for various genetic background factors. We found that tumoral NIS expression was negatively correlated with tumor siz

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Tchilibou, Michel, Loren Carrere, Florent Lyard, et al. "Internal tides off the Amazon shelf in the western tropical Atlantic: analysis of SWOT Cal/Val mission data." Ocean Science 21, no. 1 (2025): 325–42. https://doi.org/10.5194/os-21-325-2025.

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Abstract. This study focuses on the internal tides (ITs) off the Amazon shelf in the tropical Atlantic. It is based on 2 km horizontally gridded observations along the swaths of SWOT (Surface Water and Ocean Topography) track 20 during the calibration/validation phase (Cal/Val, 1 d orbit) from late March to early July 2023. We evaluate the amplitude of M2, N2, and S2 frequencies and use the M2 atlas as an internal tide correction model for SWOT observations. Internal tide amplitudes (models or atlases) are first derived by harmonic analysis of the SWOT sea level anomaly (SLA). The estimation i

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Ménard, Nelly, Yann Rantier, Adrien Foulquier, et al. "Impact of human pressure and forest fragmentation on the Endangered Barbary macaque Macaca sylvanus in the Middle Atlas of Morocco." Oryx 48, no. 2 (2013): 276–84. http://dx.doi.org/10.1017/s0030605312000312.

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AbstractOverexploitation of forests by humans can lead to highly fragmented populations of forest-dependent species that have poor dispersal abilities. We tested the influence of habitat quality, landscape structure and human pressure on densities of the Barbary macaque Macaca sylvanus in the largest wild population, in the Middle Atlas of Morocco. We surveyed 14 forest fragments of 5–142 km2 that are separated from each other by an inhospitable matrix. We estimated the habitat quality of these forest patches by analysing the vegetation structure and the intensity of human pressure. We studied

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Zheng, Tianyu, Xindong Wang, Peipei Yue, et al. "Prognostic Inflammasome-Related Signature Construction in Kidney Renal Clear Cell Carcinoma Based on a Pan-Cancer Landscape." Evidence-Based Complementary and Alternative Medicine 2020 (April 3, 2020): 1–13. http://dx.doi.org/10.1155/2020/3259795.

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Objective. To investigate the expression patterns and prognostic characteristics of inflammasome-related genes (IRGs) across cancer types and develop a robust biomarker for the prognosis of KIRC. Methods. The differentially expressed IRGs and prognostic genes among 10 cancers were analyzed based on The Cancer Genome Atlas (TCGA) dataset. Subsequently, an IRGs risk signature was developed in KIRC. Its prognostic accuracy was evaluated by receiver operating characteristic (ROC) analysis. The independent predictive capacity was identified by stratification survival and multivariate Cox analyses.

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Luo, Guoxian, Caiying Bo, and Jianqi Li. "Identification and validation of hub genes in uterine corpus endometrioid carcinoma: An observational study from TCGA and GEO." Medicine 104, no. 18 (2025): e42338. https://doi.org/10.1097/md.0000000000042338.

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Uterine corpus endometrioid carcinoma (UCEC) is a prevalent malignant tumor of the female reproductive system. Despite advancements in molecular biology and treatment strategies, the underlying molecular mechanisms of UCEC tumorigenesis remain incompletely understood. This study aimed to identify differentially expressed genes (DEGs) associated with UCEC pathogenesis, and to determine potential prognostic biomarkers and immunotherapy targets for UCEC. RNA expression datasets and clinical data from UCEC patients were collected from the UCSC Xena database and The Cancer Genome Atlas database. Pr

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Elamine, Youssef, Hamada Imtara, Maria Graça Miguel, et al. "Antibacterial Activity of Moroccan Zantaz Honey and the Influence of Its Physicochemical Parameters Using Chemometric Tools." Applied Sciences 11, no. 10 (2021): 4675. http://dx.doi.org/10.3390/app11104675.

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The emergence of multidrug-resistant bacteria has prompted the development of alternative therapies, including the use of natural products with antibacterial properties. The antibacterial properties of Zantaz honey produced in the Moroccan Atlas Mountains against Escherichia coli, Pseudomonas aeruginosa, and Staphylococcus aureus was evaluated and analyzed using chemometric tools. Minimum inhibitory concentration (MIC) and Minimum bactericidal concentration (MBC) against S. aureus were the lowest (112.5 ± 54.5 mg/mL), revealing that this species was most sensitive to Zantaz honey. P. aeruginos

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Azar, Jimmy C., Martin Simonsson, Ewert Bengtsson, and Anders Hast. "Image Segmentation and Identification of Paired Antibodies in Breast Tissue." Computational and Mathematical Methods in Medicine 2014 (2014): 1–11. http://dx.doi.org/10.1155/2014/647273.

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Comparing staining patterns of paired antibodies designed towards a specific protein but toward different epitopes of the protein provides quality control over the binding and the antibodies’ ability to identify the target protein correctly and exclusively. We present a method for automated quantification of immunostaining patterns for antibodies in breast tissue using the Human Protein Atlas database. In such tissue, dark brown dye 3,3′-diaminobenzidine is used as an antibody-specific stain whereas the blue dye hematoxylin is used as a counterstain. The proposed method is based on clustering

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Larobina, Michele, Loredana Murino, Amedeo Cervo, and Bruno Alfano. "Self-Trained Supervised Segmentation of Subcortical Brain Structures Using Multispectral Magnetic Resonance Images." BioMed Research International 2015 (2015): 1–9. http://dx.doi.org/10.1155/2015/764383.

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The aim of this paper is investigate the feasibility of automatically training supervised methods, such ask-nearest neighbor (kNN) and principal component discriminant analysis (PCDA), and to segment the four subcortical brain structures: caudate, thalamus, pallidum, and putamen. The adoption of supervised classification methods so far has been limited by the need to define a representative training dataset, operation that usually requires the intervention of an operator. In this work the selection of the training data was performed on the subject to be segmented in a fully automated manner by

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Abd-dada, Hassane, Said Bouda, Youssef Aitbella, and Abdelmajid Haddioui. "Phenotypic diversity of natural populations of an endemic Moroccan plant (Euphorbia resinifera O. Berg)." Hacquetia 22, no. 1 (2023): 81–90. http://dx.doi.org/10.2478/hacq-2022-0015.

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Abstract The Euphorbia resinifera is melliferous and medicinal plant and one of the endemic species of Moroccan Atlas Mountains. It is very well known for its honey of high nutritional and therapeutic quality. The objective of our study is to characterize and evaluate the phenotypic variation of this spontaneous species. Seventeen qualitative and quantitative morphological characters related to the bush, stem, spine, flower, and fruit of the plant were used to assess the morphological variability of twelve natural populations collected from its geographical range in Morocco. The results of the

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Brinster, Regina, Dominique Scherer, and Justo Lorenzo Bermejo. "Optimal selection of genetic variants for adjustment of population stratification in European association studies." Briefings in Bioinformatics 21, no. 3 (2019): 753–61. http://dx.doi.org/10.1093/bib/bbz023.

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Abstract Population stratification is usually corrected relying on principal component analysis (PCA) of genome-wide genotype data, even in populations considered genetically homogeneous, such as Europeans. The need to genotype only a small number of genetic variants that show large differences in allele frequency among subpopulations—so-called ancestry-informative markers (AIMs)—instead of the whole genome for stratification adjustment could represent an advantage for replication studies and candidate gene/pathway studies. Here we compare the correction performance of classical and robust pri

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Sapena, M., L. A. Ruiz, and F. J. Goerlich. "ANALYSING RELATIONSHIPS BETWEEN URBAN LAND USE FRAGMENTATION METRICS AND SOCIO-ECONOMIC VARIABLES." ISPRS - International Archives of the Photogrammetry, Remote Sensing and Spatial Information Sciences XLI-B8 (June 24, 2016): 1029–36. http://dx.doi.org/10.5194/isprs-archives-xli-b8-1029-2016.

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Analysing urban regions is essential for their correct monitoring and planning. This is mainly accounted for the sharp increase of people living in urban areas, and consequently, the need to manage them. At the same time there has been a rise in the use of spatial and statistical datasets, such as the Urban Atlas, which offers high-resolution urban land use maps obtained from satellite imagery, and the Urban Audit, which provides statistics of European cities and their surroundings. In this study, we analyse the relations between urban fragmentation metrics derived from Land Use and Land Cover

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Sapena, M., L. A. Ruiz, and F. J. Goerlich. "ANALYSING RELATIONSHIPS BETWEEN URBAN LAND USE FRAGMENTATION METRICS AND SOCIO-ECONOMIC VARIABLES." ISPRS - International Archives of the Photogrammetry, Remote Sensing and Spatial Information Sciences XLI-B8 (June 24, 2016): 1029–36. http://dx.doi.org/10.5194/isprsarchives-xli-b8-1029-2016.

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Analysing urban regions is essential for their correct monitoring and planning. This is mainly accounted for the sharp increase of people living in urban areas, and consequently, the need to manage them. At the same time there has been a rise in the use of spatial and statistical datasets, such as the Urban Atlas, which offers high-resolution urban land use maps obtained from satellite imagery, and the Urban Audit, which provides statistics of European cities and their surroundings. In this study, we analyse the relations between urban fragmentation metrics derived from Land Use and Land Cover

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Al-Khatib, Sohaib M., Ayah N. Al-Bzour, Mohammad N. Al-Majali, et al. "Exploring Genetic Determinants: A Comprehensive Analysis of Serpin B Family SNPs and Prognosis in Glioblastoma Multiforme Patients." Cancers 16, no. 6 (2024): 1112. http://dx.doi.org/10.3390/cancers16061112.

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Serpins are serine proteinase inhibitors, with several serpins being overexpressed in cancer cells. Thus, we aim to analyze the single-nucleotide polymorphism (SNP) of Serpinb11 and its association with GBM survival. A cohort of 63 GBM patients recruited from King Abdullah University Hospital in Jordan underwent polymorphism analysis and overall survival (OS) assessments. The Cancer Genome Atlas (GBM) cohort was useful for validation. We constructed a risk score using the principal component analysis for the following Serpin genes: Serpinb3, Serpinb5, Serpinb6, Serpinb11, and Serpinb12, and pa

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Ourhzif, Z., A. Algouti, A. Algouti, and F. Hadach. "LITHOLOGICAL MAPPING USING LANDSAT 8 OLI AND ASTER MULTISPECTRAL DATA IN IMINI-OUNILLA DISTRICT SOUTH HIGH ATLAS OF MARRAKECH." ISPRS - International Archives of the Photogrammetry, Remote Sensing and Spatial Information Sciences XLII-2/W13 (June 5, 2019): 1255–62. http://dx.doi.org/10.5194/isprs-archives-xlii-2-w13-1255-2019.

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<p><strong>Abstract.</strong> This study exploited the multispectral Advanced Spaceborne Thermal Emission and Reflection Radiometer (ASTER) and Landsat 8 Operational Land Imager (OLI) data in order to map lithological units and structural map in the south High Atlas of Marrakech. The method of analysis was used by principal component analysis (PCA), band ratios (BR), Minimum noise fraction (MNF) transformation. We performed a Support Vector Machine (SVM) classification method to allow the joint use of geomorphic features, textures and multispectral data of the Advanced Space-

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Wang, Jue, Zongrui Jin, Guolin Wu, et al. "Bioinformatics Analysis for Constructing a Six-Immune-Related Long Noncoding RNA Signature as a Prognostic Model of Hepatocellular Carcinoma." BioMed Research International 2022 (July 7, 2022): 1–15. http://dx.doi.org/10.1155/2022/2093437.

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The present study was aimed at identifying the potential prognostic biomarkers of the immune-related long noncoding RNA (IRL) signature for patients with hepatocellular carcinoma (HCC). RNA-sequencing data and clinical information about HCC were obtained from The Cancer Genome Atlas. The IRLs were determined with regard to the coexpression of immune-related genes and differentially expressed lncRNAs. The survival IRLs were obtained using the univariate Cox analysis. Subsequently, the prognosis model was constructed via the multivariate Cox analysis. Subsequently, functional annotation was cond

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Ge, Xian, Fei Ge, Longqin Xiao, and Anting Su. "A Golgi apparatus-related signature for predicting prognosis and evaluating the tumor immune microenvironment of uveal melanoma." Medicine 104, no. 25 (2025): e42909. https://doi.org/10.1097/md.0000000000042909.

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Uveal melanoma (UVM), a highly invasive and metastatic primary eye cancer with poor prognosis, contributes significantly to melanoma-related deaths despite being less common. Despite advances in therapy, the mortality rate remains unchanged due to frequent liver metastases and limited effective prognostic biomarkers. This study employed gene expression data from The Cancer Genome Atlas and Gene Expression Omnibus databases to investigate Golgi apparatus-related gene sets (GGRGs) in UVM. Survival analysis, consensus clustering, and principal component analysis were conducted to identify GGRGs a

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Chen, Ying, and Jia Zhao. "Identification of an Immune Gene Signature Based on Tumor Microenvironment Characteristics in Colon Adenocarcinoma." Cell Transplantation 30 (January 1, 2021): 096368972110013. http://dx.doi.org/10.1177/09636897211001314.

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Tumor microenvironment (TME) changes are related to the occurrence and development of colon adenocarcinoma (COAD). This study aimed to analyze the characteristics of the immune microenvironment in CC, as well as the microenvironment’s relationship with the clinical features of CC. Based on The Cancer Genome Atlas (TCGA) and GSE39582 cohorts, the scores of 22 tumor infiltrating lymphocytes (TILs) were calculated using CIBERSORT. ConsensusClusterPlus was used for unsupervised clustering. Three TME subtypes (TMEC1, TMEC2, and TME3) were identified based on TIL scores. TMEC2 was associated with th

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RABEHI, Sami Ahmed, Mohamed A. REZZAZ, Louardi KHERROUR, and Khalil SOUIHER. "TOWARDS THE DEVELOPMENT OF ECOTOURISM IN THE OULED-NAIL MOUNTAINS: A CASE STUDY OF THE DJELFA MUNICIPALITY IN ALGERIA." GeoJournal of Tourism and Geosites 50, no. 4 (2023): 1411–29. http://dx.doi.org/10.30892/gtg.50422-1140.

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Algeria's tourism sector plays a critical role in its economy, especially as the country faces an economic crisis due to its reliance on fossil fuels. However, despite its potential, the tourism industry has remained limited to coastal and desert tourism in the north and south, respectively. Therefore, diversifying the tourism product by exploring inland regions is necessary to restore regional balance and create geographical homogeneity. Djelfa, a city located in the central highlands of the Atlas Mountains, offers unique natural resources and cultural heritage, making it an ideal destination

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Tan, Hua, Valer Gotea, Sushil K. Jaiswal, et al. "iSoMAs: Finding isoform expression and somatic mutation associations in human cancers." PLOS Computational Biology 21, no. 3 (2025): e1012847. https://doi.org/10.1371/journal.pcbi.1012847.

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Aberrant alternative splicing, prevalent in cancer, impacts various cancer hallmarks involving proliferation, angiogenesis, and invasion. Splicing disruption often results from somatic point mutations rewiring functional pathways to support cancer cell survival. We introduce iSoMAs (iSoform expression and somatic Mutation Association), an efficient computational pipeline leveraging principal component analysis technique, to explore how somatic mutations influence transcriptome-wide gene expression at the isoform level. Applying iSoMAs to 33 cancer types comprising 9,738 tumor samples in The Ca

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Liu, Shuguang, Chao Zeng, Huaisheng Lv, Yan Zhang, Hong Xiong, and Hongping Tang. "A Novel Defined Pyroptosis-Related Gene Signature for Predicting the Prognosis of Endometrial Cancer." Disease Markers 2022 (December 16, 2022): 1–17. http://dx.doi.org/10.1155/2022/7570494.

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Endometrial carcinoma (EC) is the second major female genital malignancy. Genetic signatures may be an improved choice to predict the prognosis of EC patients. The relationship between pyroptosis and tumours has attracted much attention in recent years. Here, we constructed a new pyroptosis-related gene (PRG) signature for predicting the prognosis of EC. In this study, gene data and clinical information of EC patients were obtained from The Cancer Genome Atlas (TCGA). Following the identification of PRGs correlated with EC prognosis, we further investigate the bioinformatics functions of these

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Dai, Yifei, Xiantao Chen, Xin Sui, et al. "Development and experimental verification of a prognosis model for hypoxia- and lactate metabolism-associated genes in HNSCC." Medicine 104, no. 24 (2025): e42665. https://doi.org/10.1097/md.0000000000042665.

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Hypoxia and lactate metabolism are both distinctive characteristics of cancerous cells. Head and neck squamous cell carcinoma (HNSCC) is one of the most prevalent forms of cancer. The objective of this study was to construct a prognostic model of genes related to hypoxia and lactate metabolism in order to facilitate the study of the prognosis, tumor immune microenvironment and therapeutic response of patients with HNSCC. The RNA-seq and clinical data for HNSCC were obtained from The Cancer Genome Atlas database and gene expression omnibus. The hypoxia- and lactate metabolism-related genes were

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Kroon, Dirk-jan, Erik van Oort, and Kees Slump. "Multiple Sclerosis Detection in Multispectral Magnetic Resonance Images with Principal Components Analysis." MIDAS Journal, July 12, 2008. http://dx.doi.org/10.54294/nbrfiw.

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This paper presents a local feature vector based method for automated Multiple Sclerosis (MS) lesion segmentation of multi spectral MRI data. Twenty datasets from MS patients with FLAIR, T1,T2, MD and FA data with expert annotations are available as training set from the MICCAI 2008 challenge on MS, and 24 test datasets. Our local feature vector method contains neighbourhood voxel intensities, histogram and MS probability atlas information. Principal Component Analysis(PCA) with log-likelihood ratio is used to classify each voxel. MRI suffers from intensity inhomogenities. We try to correct th

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Kandoussi, Asmae, Bouabid Badaoui, Ismaïl Boujenane, Mohammed Piro, and Daniel Petit. "How have sheep breeds differentiated from each other in Morocco? Genetic structure and geographical distribution patterns." Genetics Selection Evolution 53, no. 1 (2021). http://dx.doi.org/10.1186/s12711-021-00679-2.

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Abstract Background Based on the relatively homogeneous origin of the sheep breeds in Morocco that originate mainly from Iberia, it is highly relevant to address the question of how these very diverse sheep populations differentiated from each other. The Mountains of the High Atlas and Middle Atlas are expected to constitute North–South and West–East geographical barriers, respectively, which could have shaped the history of the differentiation of sheep breeds. The aim of this study was to test this hypothesis by considering the genetic structure and the spatial distribution of five major bree

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