Article
Biochemistry & Molecular Biology
Trishna Saha Detroja, Rajesh Detroja, Sumit Mukherjee, Abraham O. Samson
Summary: Breast cancer is a major cause of illness and death in women worldwide. This study aimed to identify the key genes associated with neoadjuvant chemotherapy resistance in breast cancer and explore potential FDA-approved drugs for overcoming drug resistance.
INTERNATIONAL JOURNAL OF MOLECULAR SCIENCES
(2022)
Article
Immunology
Md. Parvez Mosharaf, Md. Kaderi Kibria, Md. Bayazid Hossen, Md. Ariful Islam, Md. Selim Reza, Rashidul Alam Mahumud, Khorshed Alam, Jeff Gow, Md. Nurul Haque Mollah
Summary: The goal of this study was to examine more representative Hub-DEGs from published studies through hHub-DEGs and associated potential candidate drugs. A review of 41 articles on transcriptomic data analysis of SARS-CoV-2 revealed 370 unique hub genes. The study selected 14 representative hub genes as hHub-DEGs and identified nine candidate drug agents for the treatment of SARS-CoV-2 infections through molecular docking and cross-validation.
Article
Oncology
Sicheng Liu, Yaguang Zhang, Su Zhang, Lei Qiu, Bo Zhang, Junhong Han
Summary: By analyzing integrated-multiple expression profiles, we found that cell adhesion molecules and peroxisome proliferator-activated receptor (PPAR) signaling pathway were significantly enriched. We also identified a subnetwork enriching metastasis-associated hub genes including ALB, APOE, CDH2, and ORM1. In addition, key transcription factors regulating hub genes such as ESR2, FOXO3, and SRY were determined, and potential therapeutic drugs such as ADH-1 and epigallocatechin were predicted.
FRONTIERS IN ONCOLOGY
(2021)
Article
Computer Science, Interdisciplinary Applications
Rui Zhang, Dimitar Hristovski, Dalton Schutte, Andrej Kastrin, Marcelo Fiszman, Halil Kilicoglu
Summary: This study utilized literature-derived knowledge and knowledge graph completion methods to identify potential drug candidates for COVID-19. The accuracy classifier based on PubMedBERT performed the best in identifying accurate semantic predications, and the TransE model outperformed others in predicting drug repurposing candidates. Several known drugs linked to COVID-19 were identified, as well as novel drugs that have not been studied yet.
JOURNAL OF BIOMEDICAL INFORMATICS
(2021)
Article
Cell Biology
Federica Torricelli, Elisabetta Sauta, Veronica Manicardi, Vincenzo Dario Mandato, Andrea Palicelli, Alessia Ciarrocchi, Gloria Manzotti
Summary: This study identified potential drug candidates for high-risk endometrial cancer using a computational drug repurposing approach.
Review
Multidisciplinary Sciences
Ningna Weng, Zhe Zhang, Yunhan Tan, Xiaoyue Zhang, Xiawei Wei, Qing Zhu
Summary: This article summarizes the background, aim, and key scientific concepts of repurposing antifungal drugs for cancer therapy, and discusses the challenges and perspectives for their future development and clinical applications.
JOURNAL OF ADVANCED RESEARCH
(2023)
Article
Computer Science, Artificial Intelligence
Milad Allahgholi, Hossein Rahmani, Delaram Javdani, Zahra Sadeghi-Adl, Andreas Bender, Dezso Modos, Gerhard Weiss
Summary: This paper presents a general-purpose method called DDREL, which utilizes deep learning to automatically extract a graph of relationships among drugs from scientific literature. By comparing with existing methods and random networks, DDREL demonstrates superior performance in measuring the similarities of drugs and reveals deficiencies in the ATC codes across different drug groups.
INTELLIGENT DATA ANALYSIS
(2022)
Article
Mathematical & Computational Biology
Peng Gu, Dongrong Yang, Jin Zhu, Minhao Zhang, Xiaoliang He
Summary: The study identified key genes related to the development and metastasis of prostate cancer through microarray data analysis, indicating the importance of these genes in prostate cancer research.
MATHEMATICAL BIOSCIENCES AND ENGINEERING
(2021)
Article
Oncology
Lan Luo, Weijie Zheng, Chuang Chen, Shengrong Sun
Summary: This study identified 221 common genes associated with both breast cancer and periodontitis, and discovered 12 candidate drugs with potential therapeutic effects targeting these genes. SERPINA1 and TF were identified as essential genes related to both diseases, and 12 drugs were identified for potential use in expanding drug indications.
Article
Endocrinology & Metabolism
Zitong Zhao, Haoran Yang, Guangling Ji, Shanshan Su, Yuqi Fan, Minghao Wang, Shengli Gu
Summary: This study identified two hub genes, SERPING1 and GIMAP4, that may play a crucial role in the early detection of bone metastasis in breast cancer, potentially affecting bone homeostasis in the bone microenvironment.
FRONTIERS IN ENDOCRINOLOGY
(2022)
Article
Chemistry, Multidisciplinary
Dana Meron Azagury, Ben Friedmann Gluck, Yuval Harris, Yulia Avrutin, Danna Niezni, Hagit Sason, Yosi Shamay
Summary: Combination therapy is widely used in cancer medicine for its benefits, but developing multi-drug loaded nanoparticles is complex and unpredictable. A machine learning model based on decision trees was developed to predict the self-assembly outcome of any drug pair. The discovery of a novel meta-synergistic pair, bortezomib-cabozantinib, showed improved efficacy and reduced toxicity in an in vivo model of head and neck cancer.
JOURNAL OF CONTROLLED RELEASE
(2023)
Article
Immunology
Ulku Unal, Betul Comertpay, Talip Yasir Demirtas, Esra Gov
Summary: In this study, transcriptomic data from different tissues of rheumatoid arthritis patients were analyzed using bioinformatics approaches to identify repurposing drug candidates for the treatment of rheumatoid arthritis. Several drugs were identified as potential candidates, and further validation and preclinical studies are needed to explore their effectiveness.
Article
Biochemistry & Molecular Biology
Li-Rong Yan, Ang Wang, Zhi Lv, Yuan Yuan, Qian Xu
Summary: Mitochondria-nuclear cross-talk and mitochondrial retrograde regulation play crucial roles in the genesis and development of breast cancer. This study identified and validated differentially expressed genes related to mitochondria in BC cell lines and tissues, and constructed a regulatory network involving transcription factors, microRNAs, and hub genes. The findings suggest that hub genes such as FN1 and DDR2 may serve as novel biomarkers and therapeutic targets for BC.
BIOSCIENCE REPORTS
(2021)
Article
Multidisciplinary Sciences
Jinbao Yin, Chen Lin, Meng Jiang, Xinbin Tang, Danlin Xie, Jingwen Chen, Rongqin Ke
Summary: In this study, key genes including EZH2, CENPL, ISG20L2, LSM4, and MRPL3 were identified and validated in breast cancer. These genes were found to be up-regulated in tumor tissues and associated with cancer progression, potentially serving as diagnostic and prognostic biomarkers for breast cancer. Further in-depth studies are needed to fully understand the functional mechanisms of these newly identified hub genes in breast cancer development.
SCIENTIFIC REPORTS
(2021)
Article
Oncology
Chao Dong, Fujuan Luan, Wenyan Tian, Kaipeng Duan, Tao Chen, Jiayu Ren, Weikang Li, Dongbao Li, Qiaoming Zhi, Jin Zhou
Summary: Through RNA sequencing and analysis, we identified lnc-RFNG-1, lnc-TRIM28-14, CD93, COL3A1, and COL4A1 as key players in gastric cancer peritoneal metastasis, suggesting their potential as novel tumor biomarkers and therapeutic targets.
Article
Cell Biology
Jonathan Solomon, Magdalena Raskova, Daniel Rosel, Jan Brabek, Hava Gil-Henn
Summary: Metastasis is a significant factor in the mortality rates of solid tumor cancer patients, yet research has traditionally focused on characteristics that make tumor cells proliferative and different from normal cells, neglecting the importance of metastasis. Metastasis-free survival has been approved as a primary endpoint in clinical trials, shifting the focus towards evaluating the prognosis of nonmetastatic cancer patients.
Article
Medicine, General & Internal
Rachel Weitzman, Ortal Calfon-Peretz, Trishna Saha, Naamah Bloch, Karin Ben Zaken, Avi Rosenfeld, Moshe Amitay, Abraham O. Samson
Summary: Malaria is a prevalent parasitic disease that kills between one and two million people, mostly children, every year. Most antimalarial drugs exhibit cyclic resistance patterns, supporting the use of combination therapy with multiple antimalarial drugs.
JOURNAL OF CLINICAL MEDICINE
(2022)
Article
Biochemistry & Molecular Biology
Bisan Saleh, Kolluru D. Srikanth, Tal Sneh, Lambert Yue, Steven Pelech, Evan Elliott, Hava Gil-Henn
Summary: This study reveals the in vivo role of focal adhesion kinase (FAK) in Alzheimer's disease (AD) pathology. The overexpression of FAK leads to a decrease in learning and memory capabilities and an increase in amyloid beta (Aβ) load. In addition, the overexpression of FAK alters neuronal morphology. Proteomics analysis shows that FAK controls AD-like phenotypes by inhibiting cytoskeletal remodeling, increasing Tau hyperphosphorylation, and blocking astrocyte differentiation. FAK also activates cell cycle re-entry, cell death, and downregulates insulin signaling, leading to insulin resistance and oxidative stress. This study highlights FAK as a novel therapeutic target for treating AD.
INTERNATIONAL JOURNAL OF MOLECULAR SCIENCES
(2022)
Article
Biochemistry & Molecular Biology
Trishna Saha Detroja, Abraham O. Samson
Summary: Arginases are overexpressed in human diseases, making them important targets for developing anti-aging and antineoplastic drugs. In this study, a virtual screening of 2115 FDA-approved drug molecules was conducted to identify potential arginase ligands. The results showed that half of the top 30 potential drugs are already used clinically for various conditions, validating the virtual screening approach. The three identified categories of potential arginase ligands greatly expand the selectivity of arginase inhibition.
Article
Medicine, General & Internal
Naama Vilk Ayalon, Lior Segev, Abraham O. Samson, Simcha Yagel, Sarah M. Cohen, Tamar Green, Hila Hochler
Summary: This study found that adding 5 mg of norethisterone acetate to progesterone-only pills can significantly reduce the frequency and quantity of bleeding and spotting associated with contraception.
JOURNAL OF CLINICAL MEDICINE
(2022)
Article
Medicine, General & Internal
Hadas Samuels, Malki Malov, Trishna Saha Detroja, Karin Ben Zaken, Naamah Bloch, Meital Gal-Tanamy, Orly Avni, Baruh Polis, Abraham O. Samson
Summary: This study predicts the comorbidity of autoimmune diseases (AIDs) and classifies them based on their co-citation in PubMed. The results can assist healthcare workers in diagnosing comorbidity and researchers in identifying common genetic, environmental, and autoimmune mechanisms.
JOURNAL OF CLINICAL MEDICINE
(2022)
Article
Biochemistry & Molecular Biology
Trishna Saha Detroja, Rajesh Detroja, Sumit Mukherjee, Abraham O. Samson
Summary: Breast cancer is a major cause of illness and death in women worldwide. This study aimed to identify the key genes associated with neoadjuvant chemotherapy resistance in breast cancer and explore potential FDA-approved drugs for overcoming drug resistance.
INTERNATIONAL JOURNAL OF MOLECULAR SCIENCES
(2022)
Article
Medicine, General & Internal
Joshua Guedalia, Michal Lipschuetz, Asnat Walfisch, Sarah M. Cohen, Eyal Sheiner, Abraham O. Samson, Joshua Rosenbloom, Doron Kabiri, Hila Hochler
Summary: This study aimed to construct a normal labor curve for grand-multiparous women and compare it to the partogram of multiparous women. The findings revealed that cervical dilation progress was similar in grand-multiparous and multiparous women during the active phase of labor, while the second stage of labor was shorter in grand-multiparous women. These findings suggest that the standard partogram can be used for the care of grand-multiparous women during labor.
JOURNAL OF CLINICAL MEDICINE
(2023)
