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Two-Stage Classification of Breast Tumor Biomarkers for Iraqi Women
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Objective: Breast cancer is regarded as a deadly disease in women causing lots of mortalities. Early diagnosis of breast cancer with appropriate tumor biomarkers may facilitate early treatment of the disease, thus reducing the mortality rate. The purpose of the current study is to improve early diagnosis of breast by proposing a two-stage classification of breast tumor biomarkers fora sample of Iraqi women.

Methods: In this study, a two-stage classification system is proposed and tested with four machine learning classifiers. In the first stage, breast features (demographic, blood and salivary-based attributes) are classified into normal or abnormal cases, while in the second stage the abnormal breast cases are further classified into either malignant or benign. The collected 20 breast cancer features are utilized to test the performance of the proposed classification system with Leave-One-Out (LOO) cross validation and Synthetic Minority Over-Sampling Technique (SMOTE) to balance the classes. Furthermore, correlation-based feature selection (CFS) was employed in an exploratory analysis to find the best features for the 2-stage classification system.

Results: Classification accuracy of 94% for stage-1 and 100% for stage-2was achieved with a Naïve Bayesclassifier which outperformed other three methods. In addition, CFS selected small subset of features as being the best five features out of the all 20 features for both stage-1 and stage-2.

Conclusion: We achieved a high classification accuracy which is promising to help improve the early diagnosis of breast tumor. The outcome of this study also shows the importance of CA15-3protein in saliva and blood as well as carcinoembryonic antigen level and total protein in blood, and Estrogen hormone level in saliva, for predicting breast tumors.

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Publication Date
Thu Dec 23 2021
Journal Name
Iraqi Journal Of Science
Noise Reduction, Enhancement and Classification for Sonar Images
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    Ultrasound imaging has some problems with image properties output. These affects the specialist decision. Ultrasound noise type is the speckle noise which has a grainy pattern depending on the signal. There are two parts of this study. The first part is the enhancing of images with adaptive Weiner, Lee, Gamma and Frost filters with 3x3, 5x5, and 7x7 sliding windows. The evaluated process was achieved using signal to noise ratio (SNR), peak signal to noise ratio (PSNR), mean square error (MSE), and maximum difference (MD) criteria. The second part consists of simulating noise in a standard image (Lina image) by adding different percentage of speckle noise from 0.01 to 0.06. The supervised classification based minimum di

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Publication Date
Tue Mar 30 2021
Journal Name
Iraqi Journal Of Science
Weighted k-Nearest Neighbour for Image Spam Classification
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E-mail is an efficient and reliable data exchange service. Spams are undesired e-mail messages which are randomly sent in bulk usually for commercial aims. Obfuscated image spamming is one of the new tricks to bypass text-based and Optical Character Recognition (OCR)-based spam filters. Image spam detection based on image visual features has the advantage of efficiency in terms of reducing the computational cost and improving the performance. In this paper, an image spam detection schema is presented. Suitable image processing techniques were used to capture the image features that can differentiate spam images from non-spam ones. Weighted k-nearest neighbor, which is a simple, yet powerful, machine learning algorithm, was used as a clas

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Publication Date
Fri Apr 30 2021
Journal Name
Iraqi Journal Of Science
Enhanced Supervised Principal Component Analysis for Cancer Classification
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In this paper, a new hybridization of supervised principal component analysis (SPCA) and stochastic gradient descent techniques is proposed, and called as SGD-SPCA, for real large datasets that have a small number of samples in high dimensional space. SGD-SPCA is proposed to become an important tool that can be used to diagnose and treat cancer accurately. When we have large datasets that require many parameters, SGD-SPCA is an excellent method, and it can easily update the parameters when a new observation shows up. Two cancer datasets are used, the first is for Leukemia and the second is for small round blue cell tumors. Also, simulation datasets are used to compare principal component analysis (PCA), SPCA, and SGD-SPCA. The results sh

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Publication Date
Mon Jan 01 2024
Journal Name
Baghdad Science Journal
Acute Toxicity of Chlorpyrifos on the Freshwater Bivalves (Unio Tigridis) and Effects on Bioindicators
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A freshwater bivalve plays a crucial function in aquatic habitats as the filtered water and burrowing mussels mix the sediment, thus increasing oxygen content and making the ecosystem healthier. The aim of the study is to see how chlorpyrifos affects biochemical markers in freshwater mussel Unio tigridis. About 180 individuals per taxon and water samples were collected from the Qandil water resource on the Greater Zab River, Erbil Province, Iraq. Once arrived at the lab, the individuals were kept in aquaria with river water and an air-conditioned room Temperature: 25±2 and Light: 12h/12h and acclimatized to laboratory conditions for seven days in aged tap water. The mussel's identification molecularly and the DNA sequence of t

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Publication Date
Mon Jan 30 2023
Journal Name
Iraqi Journal Of Science
Histological Estimation of Ovaries Cystic Lesions in Iraqi Patients’ Women
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      Ovarian cystic lesions are one of the most common pathologic disorders in gynecology and a common reason for surgery. The purpose of the study was to determine the histopathologic characteristics of benign cystic ovarian lesions and their correlation to age, type, laterality, locularity, and size of ovarian cystic lesions. This is a retrospective study carried out on 100 cases from the archive in the Imam Kadhimian medical city and the educational laboratories of Baghdad medical city, out of 100 patients, the most common age group that underwent cystectomy was 20-40 years old. The vast majority of the cysts were non-neoplastic (67%) while the neoplastic cysts occupy 33% of all cysts. The most common non-neoplastic cyst was cor

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Publication Date
Sun Dec 29 2019
Journal Name
Iraqi Journal Of Science
Prevalence of hyperandrogenism in Iraqi women with polycystic ovary syndrome
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Polycystic ovary syndrome (PCOS) is a mainly common endocrine disorder. Hyperandrogenism is the major standard in the diagnosisof PCOS development.Eighty women diagnosed with PCOS and twenty healthy women(aged 20-40 years)were enrolled in this study which was conducted at the infertility clinic of Kamal AL-Samaraay Hospital/ Baghdad. The diagnosis of PCOS was made according to the Rotterdam criteria. Body mass index (BMI, Kg/m2)was calculated by a specific formula. History of menstrual irregularity, hirsutism, acne, and alopecia was taken. Hormone levels in serum, namely luteinizing hormone (LH), follicle stimulating hormone (FSH), and testosterone were measured in all patients and control subjects.There was a statistically si

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Publication Date
Tue Jan 30 2024
Journal Name
Iraqi Journal Of Science
Clinical and Histopathological Features of Breast Cancer in Iraqi Patients between 2018-2021
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     Breast cancer (BC) is the most common malignancy in women worldwide and a major cause of cancer-related deaths for women in Iraq. This assignment was created to investigate the characteristics of BC diagnosed in Baghdad from 2018 to 2021. A total of eighty-nine of paraffin embedded tissue blocks of different breast tissue tumors (71 females and 18 males) with their data, were collected from archive of Histopathology Department, Teaching Laboratories of Medical City, Al-Yarmouk Teaching Hospital, and a private laboratory in Baghdad-Iraq. The clinical information regarding age, gender, tumor size, tumor stage and grade, lymph nodes metastasis, in addition to the findings of estrogen receptor (ER), progesterone receptor (PR), human

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Publication Date
Mon Apr 01 2019
Journal Name
Biochemical And Cellular Archives
Association Of Human Cytomegalovirus With Her2 Protooncogene Overexpression In Iraqi Breast Cancer Patients
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Human cytomegalovirus (HCMV) has a worldwide distribution and common infections. The presence of HCMV genome and antigens has been detected in many kinds of human cancers. The proto-oncogene Her2/neu is overexpressed in 25% to 30% of human breast cancers and frequently associated with tumor aggressiveness and worse prognosis. Examination was applied to detect different HCMV antigens and to demonstrate their correlation with Her2/neu overexpression in breast cancer. The present study includes samples from 70 women of 60 breast cancer patients and 10 normal breast tissues. Formalin-fixed paraffin embedded tissue blocks were obtained from each woman according to ethical approval. Human cytomegalovirus early antigen expression was detected in 5

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Publication Date
Mon Jun 01 2020
Journal Name
P J M H S
The influence of Breast Cancer Molecular Subtypes on Metastatic pattern in Iraqi patients
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Publication Date
Fri Jan 06 2023
Journal Name
Journal Of Advanced Biotechnology And Experimental Therapeutics
Evaluation of oxidative stress activity and the levels of homocysteine, vitamin B12, and DNA methylation among women with breast cancer
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Breast cancer (BC) is the most common malignant tumor in women and the leading cause of cancer deaths worldwide. This work was conducted to estimate the roles of oxidative stress, vitamin B12, homocysteine (HCY), and DNA methylation in BC disease progression. Sixty BC patients (age range 33–80 years) and 30 healthy controls were recruited for this study. Patients with BC were split to group 1 consisted of stage II BC women (low level), and group 2 consisted of patients in stages III and IV (high level). Malondialdehyde (MDA), glutathione peroxidase 3 (GPX3), HCY, and vitamin B12 levels in the study groups were measured. Also, the 5-methylcytosine (5mC) global DNA methylation levels were evaluated. The results showed a significant

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