Article
Oncology
Laura Rey-Vargas, Lina Maria Bejarano-Rivera, Juan Carlos Mejia-Henao, Luz F. Sua, Jhon Faustino Bastidas-Andrade, Carlos Andres Ossa, Luz Dary Gutierrez-Castaneda, Laura Fejerman, Maria Carolina Sanabria-Salas, Silvia J. Serrano-Gomez
Summary: This study finds that Colombian patients with higher Indigenous American ancestry and lower European ancestry are more likely to have ER+/HER2+/GRB7- breast tumors. However, this association is not associated with patients' overall survival or recurrence-free survival.
FRONTIERS IN ONCOLOGY
(2022)
Article
Oncology
Junhan Zhou, Yichi Xu, Xin Chen, Fengyun Chen, Jianan Zhang, Xueqiong Zhu
Summary: TTYH3 is a potential predictor for poor clinical outcome in OC patients, particularly in patients with serous, late-stage, poorly differentiated, TP53-mutation or the patients treated with chemotherapy regimens (platin, taxol, or platin + taxol).
Article
Oncology
K. T. Shreya Parthasarathi, Susmita Mandal, Smrita Singh, Seetaramanjaneyulu Gundimeda, Mohit Kumar Jolly, Akhilesh Pandey, Jyoti Sharma
Summary: The alterations in ion channels and their interactions with EMT-related genes play a crucial role in breast cancer development and prognosis.
Article
Biochemistry & Molecular Biology
Malgorzata Gorniak-Walas, Karolina Nizinska, Katarzyna Lukasiuk
Summary: The study identified a 592 bp rat Ttyh1 promoter sequence and found that Ascl1, Sp1, and responsive cis-regulatory elements may be involved in the transcriptional regulation of Ttyh1 expression in rat dissociated hippocampal neurons in vitro, providing novel information about Ttyh1 gene regulation in neurons.
NEUROCHEMICAL RESEARCH
(2021)
Article
Genetics & Heredity
Saeideh Jafarinejad-Farsangi, Maryam Moazzam-Jazi, Zari Naderi Ghale-noie, Nahid Askari, Zahra Miri Karam, Samaneh Mollazadeh, Morteza Hadizadeh
Summary: This study combines multiple microarray studies to identify genes and pathways specific to each subtype of breast cancer. Through the analysis of differentially expressed genes (DEGs), critical genes and pathways associated with BC subtypes were identified. The results were validated using an independent breast cancer RNA-sequencing dataset, showing high concordance in specific genes related to certain subtypes.
Article
Genetics & Heredity
Shan Wang, Pei Shang, Guangyu Yao, Changsheng Ye, Lujia Chen, Xiaolei Hu
Summary: This study delved into the molecular mechanisms of breast cancer at the genomic and transcriptomic levels in different subtypes, aiming to provide a theoretical basis for personalized treatments and precision medicine. It was found that carcinogenesis and development of triple-negative breast cancer were the most important and complex processes, and the luminal A subtype exhibited a different pathogenesis compared to the other subtypes. Additionally, 16 hub genes related to good prognosis in triple-negative breast cancer were identified, and new transcription factors and microRNAs were introduced, offering novel perspectives for breast cancer research and treatment.
FRONTIERS IN GENETICS
(2022)
Review
Oncology
Marina K. Ibragimova, Matvey M. Tsyganov, Nikolai V. Litviakov
Summary: Breast cancer is a genetically heterogeneous disease with different molecular biological and clinical characteristics, impacting drug treatment and prognosis. Understanding the genetic phenotype of breast cancer allows for personalized treatment and prognostic prediction.
Article
Pharmacology & Pharmacy
Girish Meravanige Basavarajappa, Abdur Rehman, Predeepkumar Narayanappa Shiroorkar, Nagaraja Sreeharsha, Md. Khalid Anwer, Bandar Aloufi
Summary: Breast cancer is a silent killer disorder among women and a serious economic burden. Despite advances in research and treatment, rates of breast cancer continue to rise. This study combines data mining, network pharmacology, and docking analysis to explore the potential of Crataegus monogyna in treating breast cancer.
FRONTIERS IN PHARMACOLOGY
(2023)
Article
Health Care Sciences & Services
Rassanee Bissanum, Sitthichok Chaichulee, Rawikant Kamolphiwong, Raphatphorn Navakanitworakul, Kanyanatt Kanokwiroon
Summary: TNBC lacks well-defined molecular targets and is highly heterogeneous, making treatment challenging. This study attempted to define gene signatures for each TNBC subtype and develop a classification method using machine learning. SVM algorithm achieved the highest accuracy in classifying TNBC into four subtypes, but some samples could not be classified.
JOURNAL OF PERSONALIZED MEDICINE
(2021)
Review
Multidisciplinary Sciences
Nursabillilah Mohd Ali, Rosli Besar, Nor Azlina Ab Aziz
Summary: Breast cancer is the most dominant cancer among women worldwide. Gene expression microarray is employed for accurate classification and prognosis, but suffers from limitations such as large number of features, limited sample size, and irrelevant features, making it difficult to determine the actual features contributing to cancer classification. Therefore, feature selection methods are needed to identify relevant and discriminant feature subsets.
Article
Biochemistry & Molecular Biology
Wataru Sato, Kazuhiro Ikeda, Noriko Gotoh, Satoshi Inoue, Kuniko Horie
Summary: Efp plays a tumor-promotive role in TNBC and may serve as a potential therapeutic target for this aggressive disease.
BIOCHEMICAL AND BIOPHYSICAL RESEARCH COMMUNICATIONS
(2022)
Article
Oncology
Rita Aoun, Christopher El Hadi, Roula Tahtouh, Rita El Habre, George Hilal
Summary: This study investigates the differentially expressed genes in breast cancer cells under glucose deprivation conditions. The results demonstrate distinct biological functions influenced by glucose deprivation, such as cellular stress response, cell cycle inhibition, induction of apoptosis and inhibition of DNA replication. The study finds that glucose starvation has the greatest effect on breast cancer cells.
CANCER CELL INTERNATIONAL
(2022)
Article
Computer Science, Interdisciplinary Applications
Muhammed Abd-Elnaby, Marco Alfonse, Mohamed Roushdy
Summary: Researchers reviewed and studied feature selection and classification techniques in order to improve cancer classification based on microarray data.
JOURNAL OF BIOMEDICAL INFORMATICS
(2021)
Article
Oncology
Qian-xin Chen, Yuan-zhong Yang, Zhuo-zhi Liang, Jia-li Chen, Yue-lin Li, Zi-yi Huang, Zi-jin Weng, Xiao-fang Zhang, Jie-xia Guan, Lu-ying Tang, Jing-ping Yun, Ze-fang Ren
Summary: The study revealed a time-varying effect of FOXA1 on breast cancer prognosis, with the impact of FOXA1 expression levels on prognosis changing over time. Patients with higher FOXA1 expression levels had a higher risk of death compared to those with lower levels, with a crossover point around 36 months.
BREAST CANCER RESEARCH AND TREATMENT
(2021)
Article
Oncology
Zheng Fang, Hong-yu Shen, Qi Xu, Hong-lei Zhou, Lei Li, Si-Yuan Yang, Zhen Zhu, Jin-hai Tang
Summary: Breast cancer patients with high expression of PUS1 have poor prognosis and shorter survival time. Knockdown of PUS1 suppresses the proliferation, colony formation, and invasion abilities of breast cancer cells. PUS1 may serve as a promising biomarker and treatment target for breast cancer.
FRONTIERS IN ONCOLOGY
(2022)
Article
Oncology
Ramy Gadalla, Hebatallah Hassan, Sherif Abdelaziz Ibrahim, Mahmoud Salah Abdullah, Ahmed Gaballah, Burkhard Greve, Somaya El-Deeb, Mohamed El-Shinawi, Mona Mostafa Mohamed
BREAST CANCER RESEARCH AND TREATMENT
(2019)
Review
Pharmacology & Pharmacy
Fouzia Radouani, Lyndon Zass, Yosr Hamdi, Jorge da Rocha, Reem Sallam, Sonia Abdelhak, Samah Ahmed, Maryame Azzouzi, Ichrak Benamri, Alia Benkahla, Balkiss Bouhaouala-Zahar, Melek Chaouch, Haifa Jmel, Rym Kefi, Ayoub Ksouri, Judit Kumuthini, Phumlani Masilela, Collen Masimirembwa, Houcemeddine Othman, Sumir Panji, Lilia Romdhane, Chaimae Samtal, Rania Sibira, Kais Ghedira, Faisal Fadlelmola, Samar Kamal Kassim, Nicola Mulder
PERSONALIZED MEDICINE
(2020)
Article
Oncology
Hesham Elghazaly, Hope S. Rugo, Hamdy A. Azim, Sandra M. Swain, Banu Arun, Matti Aapro, Edith A. Perez, Benjamin O. Anderson, Frederique Penault-Llorca, Pierfranco Conte, Nagi S. El Saghir, Cheng-Har Yip, Marwan Ghosn, Philip Poortmans, Mohamed A. Shehata, Armando E. Giuliano, Jessica W. T. Leung, Valentina Guarneri, Joseph Gligorov, Bahadir M. Gulluoglu, Hany Abdel Aziz, Mona Frolova, Mohamed Sabry, Charles M. Balch, Roberto Orecchia, Heba M. El-Zawahry, Sana Al-Sukhun, Khaled Abdel Karim, Alaa Kandil, Ruslan M. Paltuev, Meteb Foheidi, Mohamed El-Shinawi, Manal ElMahdy, Omalkhair Abulkhair, Wentao Yang, Adel T. Aref, Joaira Bakkach, Nermean Bahie Eldin, Hagar Elghazawy
Summary: During the TNBC consensus recommendations session at the 12th BGICC in Egypt 2020, a panel of 35 breast cancer experts from 13 countries reached a consensus on clinical management of TNBC, covering all aspects from defining TNBC to managing metastatic disease and highlighting the rapidly evolving landscape in the field.
Article
Computer Science, Artificial Intelligence
Eman K. Elsayed, Ahmed Sharaf Eldin Ahmed, Hebatullah Rashed Younes
Summary: This research aims to enhance the detection and resolution time of conflicts that may arise while integrating new systems into System of Systems (SoS). The k-means clustering technique is adopted to partition SoS into clusters for quicker conflict resolution. The proposed Smart Semantic Belief Function Clustered System of Systems (SSBFCSoS) effectively detects and resolves conflicts, achieving higher conflict-solving rates and improved system integration.
PEERJ COMPUTER SCIENCE
(2021)
Editorial Material
Biochemical Research Methods
Shaun Aron, C. Victor Jongeneel, Paballo Abel Chauke, Melek Chaouch, Judit Kumuthini, Lyndon Zass, Fouzia Radouani, Samar Kamal Kassim, Faisal M. Fadlelmola, Nicola Mulder
PLOS COMPUTATIONAL BIOLOGY
(2021)
Article
Health Care Sciences & Services
Houcemeddine Othman, Lyndon Zass, Jorge E. B. da Rocha, Fouzia Radouani, Chaimae Samtal, Ichrak Benamri, Judit Kumuthini, Yasmina J. Fakim, Yosr Hamdi, Nessrine Mezzi, Maroua Boujemaa, Chiamaka Jessica Okeke, Maureen B. Tendwa, Kholoud Sanak, Melek Chaouch, Sumir Panji, Rym Kefi, Reem M. Sallam, Anisah W. Ghoorah, Lilia Romdhane, Anmol Kiran, Ayton P. Meintjes, Perceval Maturure, Haifa Jmel, Ayoub Ksouri, Maryame Azzouzi, Mohammed A. Farahat, Samah Ahmed, Rania Sibira, Michael E. E. Turkson, Alfred Ssekagiri, Ziyaad Parker, Faisal M. Fadlelmola, Kais Ghedira, Nicola Mulder, Samar Kamal Kassim
Summary: Despite the increasing rate of genomic data production, there is still a significant lack of genomic information on African-ancestry populations compared to European and Asian populations. To address this issue, the African Genomic Medicine Portal (AGMP) was developed, providing a dedicated resource for accessing African-specific information on genomics as applied to health research.
JOURNAL OF PERSONALIZED MEDICINE
(2022)
Article
Computer Science, Artificial Intelligence
Ahmed Bahaa Farid, Enas Mohamed Fathy, Ahmed Sharaf Eldin, Laila A. Abd-Elmegid
Summary: The study introduces a novel software defect prediction model CBIL, which extracts Abstract Syntax Tree tokens as vectors from source code and utilizes deep learning techniques to enhance the accuracy of software defect prediction, showing significant improvements compared to traditional models.
PEERJ COMPUTER SCIENCE
(2021)
Review
Genetics & Heredity
Judit Kumuthini, Brittany Zick, Angeliki Balasopoulou, Constantina Chalikiopoulou, Collet Dandara, Ghada El-Kamah, Laura Findley, Theodora Katsila, Rongling Li, Ebner Bon Maceda, Henrietta Monye, Gabriel Rada, Meow-Keong Thong, Thilina Wanigasekera, Hannah Kennel, Veeramani Marimuthu, Marc S. Williams, Fahd Al-Mulla, Marc Abramowicz
Summary: Genomic medicine aims to improve health using individual genomic data, but its clinical utility in polygenic traits is less evident. Although polygenic risk scores have potential clinical application, further research is needed.
Article
Medicine, General & Internal
Alshaimaa Tarek, Hossam Taha Mohamed, Aya Ali El-Sharkawy, Shrouk Khalaf El-Sayed, Jon Mark Hirshon, Wendy A. Woodward, Mohamed El-Shinawi, Mona Mostafa Mohamed
Summary: By comparing the gene expression profiles of matrisome and adhesome in non-IBC and IBC tissues, as well as the secretory inflammatory mediators in patient-derived explants, we found that these genes and cytokines play a significant role in the metastasis of inflammatory breast cancer.
QJM-AN INTERNATIONAL JOURNAL OF MEDICINE
(2023)
Article
Mathematical & Computational Biology
Faisal M. Fadlelmola, Kais Ghedira, Yosr Hamdi, Mariem Hanachi, Fouzia Radouani, Imane Allali, Anmol Kiran, Lyndon Zass, Nihad Alsayed, Meriem Fassatoui, Chaimae Samtal, Samah Ahmed, Jorge Da Rocha, Souad Chaqsare, Reem M. Sallam, Melek Chaouch, Mohammed Farahat, Alfred Ssekagiri, Ziyaad Parker, Mai Adil, Michael Turkson, Aymen Benchaalia, Alia Benkahla, Sumir Panji, Samar Kassim, Oussema Souiai, Nicola Mulder
Summary: African genomic medicine and microbiome datasets lack clear origin information, prompting the need for data portals development. The H3ABioNet network organized a hackathon to address this issue, resulting in significant progress on designing two portals. The participants worked collaboratively and highlighted the friendly atmosphere and diverse expertise within the teams.
DATABASE-THE JOURNAL OF BIOLOGICAL DATABASES AND CURATION
(2021)
Article
Computer Science, Information Systems
Sarah Saad Eldin, Ammar Mohammed, Hesham Hefny, Ahmed Sharaf Eldin Ahmed
Summary: This paper presents an enhanced opinion retrieval approach based on explicit feature opinion mining, which extends product requirements through extended heuristics and Arabic linguistic patterns of opinions. Experimental results demonstrate its capability to automatically extract more innovative features.
JOURNAL OF KING SAUD UNIVERSITY-COMPUTER AND INFORMATION SCIENCES
(2021)
Article
Biotechnology & Applied Microbiology
Yosr Hamdi, Lyndon Zass, Houcemeddine Othman, Fouzia Radouani, Imane Allali, Mariem Hanachi, Chiamaka Jessica Okeke, Melek Chaouch, Maureen Bilinga Tendwa, Chaimae Samtal, Reem Mohamed Sallam, Nihad Alsayed, Michael Turkson, Samah Ahmed, Alia Benkahla, Lilia Romdhane, Oussema Souiai, Ozlem Tastan Bishop, Kais Ghedira, Faisal Mohamed Fadlelmola, Nicola Mulder, Samar Kamal Kassim
Summary: After the publication of the first human genome, OMICs research has been growing, revealing complex genetic diversity among human populations. Africa, known as the cradle of modern humans, has rich genetic diversity but lacks representative OMICs tools and databases, creating gaps in biomedical research. African scientists are key contributors to OMICs systems science, and it is recommended to address multidisciplinary research challenges, enhance research collaborations and knowledge transfer, and strengthen the influence of African researchers in shaping research agendas.
OMICS-A JOURNAL OF INTEGRATIVE BIOLOGY
(2021)
Article
Computer Science, Artificial Intelligence
Sarah Saad Eldin, Ammar Mohammed, Ahmed Sharaf Eldin, Hesham Hefny
Summary: With the increasing number of product reviews, customer sentiment analysis has become a cumbersome task. Feature-based opinion retrieval systems have emerged as an effective tool for analyzing and expressing customer sentiments towards services. The proposed enhanced retrieval approach in this study showed improved ranking results by extracting more features, both implicit and explicit, compared to other methods such as conditional random field and association rule mining.
JOURNAL OF INTELLIGENT INFORMATION SYSTEMS
(2021)
Article
Computer Science, Theory & Methods
Esraa A. Afify, Ahmed Sharaf Eldin, Ayman E. Khedr
INTERNATIONAL JOURNAL OF ADVANCED COMPUTER SCIENCE AND APPLICATIONS
(2020)
Article
Multidisciplinary Sciences
Ananyo Choudhury, Shaun Aron, Laura R. Botigue, Dhriti Sengupta, Gerrit Botha, Taoufik Bensellak, Gordon Wells, Judit Kumuthini, Daniel Shriner, Yasmina J. Fakim, Anisah W. Ghoorah, Eileen Dareng, Trust Odia, Oluwadamilare Falola, Ezekiel Adebiyi, Scott Hazelhurst, Gaston Mazandu, Oscar A. Nyangiri, Mamana Mbiyavanga, Alia Benkahla, Samar K. Kassim, Nicola Mulder, Sally N. Adebamowo, Emile R. Chimusa, Donna Muzny, Ginger Metcalf, Richard A. Gibbs, Charles Rotimi, Michele Ramsay, Adebowale A. Adeyemo, Zane Lombard, Neil A. Hanchard, Enock Matovu, Bruno Bucheton, Christiane Hertz-Fowler, Mathurin Koffi, Annette Macleod, Dieudonne Mumba-Ngoyi, Harry Noyes, Gustave Simo, Martin Simuunza, Laura Botigue, Judit Kumuthini, Sally N. Adebamowo, Clement Adebamowo, Godfred Agongo, Romuald P. Boua, Abraham Oduro, Hermann Sorgho, Guida Landoure, Lassana Cisse, Salimata Diarra, Oumar Samassekou, Gabriel Anabwani, Mogomotsi Matshaba, Moses Joloba, Adeodata Kekitiinwa, Graeme Mardon, Sununguko W. Mpoloka, Samuel Kyobe, Busisiwe Mlotshwa, Savannah Mwesigwa, Gaone Retshabile, Lesedi Williams, Ambroise Wonkam, Ahmed Moussa, Dwomoa Adu, Akinlolu Ojo, David Burke, Babatunde O. Salako, Enock Matovu, Philip Awadalla, Vanessa Bruat, Elias Gbeha
