Refaat M Gabre

Prof. Dr. Refaat M Gabre

orcid

Research Focus & Metrics

Academic Career Length

2Years (2025-Present)

(Calculated once Scilit publication data is synced: current year − year of first publication + 1)

Representative Publications

View All Publications
4 September 2025 in Cells
Verified
Journal Article
Open access
PDF file
SASultan Qalet Alhumrani
Sultan Qalet Alhumrani
GBGraham Roy Ball
Graham Roy Ball
AEAhmed Abdo El-Sherif
Ahmed Abdo El-Sherif
SHShaza Ahmed Habib
Shaza Ahmed Habib
NMNahla Mousa
Nahla Mousa
RGRefaat M Gabre
Refaat M Gabre
Artificial Intelligence and machine learning are increasingly used to interrogate complex biological data. This systematic review evaluates their application to multi-omics for the molecular characterization of hematological malignancies, an area with unmet clinical need. We searched PubMed, Embase, Institute of Electrical and Electronics Engineers Xplore, and Web of Science from January 2015 to December 2024. Two reviewers screened records, extracted data, and used a modified appraisal emphasizing explainability, performance, reproducibility, and ethics. From 2847 records, 89 studies met inclusion criteria. Studies focused on acute myeloid leukemia (34), acute lymphoblastic leukemia (23), and multiple myeloma (18). Other hematological diseases were less frequently studied. Methods included Support Vector Machines, Random Forests, and deep learning (28, 25, and 24 studies). Multi-omics integration was reported in 23 studies. External validation occurred in 31 studies, and explainability in 19. The median diagnostic area under the curve was 0.87 (interquartile range 0.81 to 0.94); deep learning reached 0.91 but offered the least explainability. Artificial Intelligence and machine learning show promise for molecular characterization, yet gaps in validation, interpretability, and standardization remain. Priorities include external validation, interpretable modeling, harmonized evaluation, and standardized reporting with shared benchmarks to enable safe, reproducible clinical translation.

11 March 2025 in Inflammation
Verified
Journal Article
Open access
PDF file
MHMostafa D. Hassen
Mostafa D. Hassen
NMNahla O. Mousa
Nahla O. Mousa
SRSara M. Radwan
Sara M. Radwan
RGRefaat M Gabre
Refaat M Gabre
Doxorubicin (DOX) is used as a chemotherapeutic drug for treating cancer. Nevertheless, it causes damage to the heart by activating inflammatory pathways, resulting in cardiotoxicity. Imbalance in cytokine production is a crucial component that might trigger the initiation of inflammatory processes. Inflammatory cytokines could be targeted therapies against cardiovascular diseases (CVDs). Interleukin-17A (IL-17A) is a cytokine that promotes inflammation and stimulates harmful immunological reactions. The objective of the study was to determine the efficacy of secukinumab (SEC), a completely human monoclonal IgG1/κ antibody that targets IL-17A, in ameliorating DOX-induced cardiotoxicity (DIC). We administered 2.5 mg/kg of DOX intraperitoneally to male Wistar rats three times a week for 2 weeks and simultaneously administered 0.9 mg/kg of SEC along with 2.5 mg/kg of DOX injection three times a week for a duration of two weeks. The findings indicated that DOX induced damage to the heart tissue, resulting in a significant rise in indicators of cardiotoxicity (P < 0.001), as well as oxidative stress and inflammation. DIC may have arisen from DOX's activation of the Pyrin domain containing 3 (NLRP3) inflammasome and the nuclear factor kappa beta (NF-κB) pathway. The co-administration of SEC successfully reversed all DOX-induced abnormalities by restoring cardiac functions to their baseline levels, decreasing levels of inflammatory mediators such as IL-17A and interleukin-1β (IL-1β), and improving oxidative stress by reducing levels of malondialdehyde (MDA) and increasing levels of reduced glutathione (GSH). Furthermore, it mitigated the heightened activation of the NF-κB/NLRP3 pathway caused by DOX. This study shows that IL-17A neutralization can prevent DIC by regulating the NF-κB/NLRP3/Caspase-1/IL-1β pathway to be used as potential therapeutic target for CVDs.

13 October 2025 in Viruses
Verified
Journal Article
Open access
PDF file
MKMina Nabil Kamel
Mina Nabil Kamel
YMYassmin Moatasim
Yassmin Moatasim
BABasma Aboulhoda
Basma Aboulhoda
MGMokhtar Gomaa
Mokhtar Gomaa
ATAhmed El Taweel
Ahmed El Taweel
Rabeh El-SheshenyRabeh El-Shesheny
Rabeh El-Shesheny
Highly pathogenic avian influenza (HPAI) viruses have recently had a substantial impact on global poultry production and public health. In Egypt, clade 2.3.4.4b HPAI H5N1 viruses were first isolated from wild birds in 2021 and then became dominant in domestic poultry. In this study, we aimed to genetically characterize the H5N1 viruses isolated in Egypt during 2021–2023 and examine the pathogenicity and transmissibility of two H5N1 strains isolated from wild and domestic poultry in chickens. We collected 7588 specimens from live bird markets including poultry, wild birds, and environmental samples. Influenza A viruses were detected in 20.94% (484/2311) of tested samples, and 17 isolates were identified as H5N1 through complete genome sequencing. Phylogenetic analysis revealed that all H5N1 viruses were closely related to Eurasian viruses and classified into three distinct genetic groups, suggesting multiple introductions likely linked to migratory birds. Experimental infections of chickens with two H5N1 isolates, A/Pintail/Egypt/RA19853OP/2021 and A/duck/Egypt/BA20361C/2022, showed efficient replication, systemic infection, and transmission by direct contact. These findings underscore the need for continued surveillance of H5N1 at the poultry-wild bird interface to identify circulating strains, evaluate their biological characteristics, and assess their zoonotic potential.

13 April 2026 in BMC Infectious Diseases
Verified
Journal Article
Open access
AAAbir Ben Ashur
Abir Ben Ashur
AGAisha Gashout
Aisha Gashout
KAKhaled Abou-Aisha
Khaled Abou-Aisha
ASAbeer M. Salem
Abeer M. Salem
RGRefaat M Gabre
Refaat M Gabre
Asymptomatic bacteriuria (ASB) is more widespread in postmenopausal women, especially among diabetic women. Nevertheless, a comprehensive definition of independent predictors of ASB in the general postmenopausal population and in the high-risk diabetic subgroup remains critical for management strategies. The study was a cross-sectional examination of the prevalence of ASB and risk factors among 400 postmenopausal women (251 with diabetes, 149 without diabetes). Quantitative culture on midstream urine samples was done according to the standard microbiological practices. Structured questionnaires and medical records were used to get clinical and demographic data. Multivariate logistic regression was employed to determine independent factors associated with ASB. The general prevalence of ASB was 22.0% (n = 88), with a significantly higher rate in diabetic women compared to the control group (27.9% vs. 12.1%; p < 0.001). In the overall population, diabetes status (OR = 8.59; 95% CI: 1.99–37.0), HbA1c (OR = 2.52), and prior UTI history (OR = 3.98) were strong independent predictors. Within the diabetic subgroup, HbA1c (OR = 2.61; p < 0.001), history of UTIs (OR = 3.68), and age (OR = 1.13) remained the most significant predictors. Notably, the duration of diabetes was not a significant factor in this cohort. ASB is highly prevalent in diabetic postmenopausal women and strongly linked to poor glycaemic control, increased age, prior UTI, and exposure to antibiotics. These results highlight the importance of more focused prevention strategies and glycaemic control instead of general screening of ASB among this high-risk group. Not applicable. The online version contains supplementary material available at 10.1186/s12879-026-13124-w.

3 July 2026 in Scientific Reports
Verified
Journal Article
Open access
AAAbdalrahman E. Afifi
Abdalrahman E. Afifi
RGRefaat M Gabre
Refaat M Gabre
AAAreej A. Al-Khalaf
Areej A. Al-Khalaf
ASAbeer M. Salem
Abeer M. Salem
FSFadila Al Salameen
Fadila Al Salameen
MNMohamed G. Nasser
Mohamed G. Nasser
The online version contains supplementary material available at 10.1038/s41598-026-55413-z.

10 July 2026 in Scientific Reports
Verified
Journal Article
Open access
BHBassant Hossam
Bassant Hossam
RGRefaat M Gabre
Refaat M Gabre
DADina Amr
Dina Amr
HSHazem H. Saleh
Hazem H. Saleh
Polymicrobial infections with Acinetobacter baumannii (A. baumannii) and Candida albicans ( C. albicans ) are increasingly frequent in urinary tract infections (UTIs). However, experimental data describing their interactions in clinical isolates under co-culture conditions remain limited. In this study, three clinical isolates of both A. baumannii and C. albicans were co-isolated from urine samples with UTIs, then mono-cultured and co-cultured at 24, 48, and 72 h for biofilm quantification by crystal violet assay. The expression levels of bacterial ( ompA, bap, abaI ) and fungal ( ALS3, HWP1, ERG11 ) virulence genes were evaluated by RT-qPCR at 24 and 48 h. Co-culture conditions resulted in increased biofilm biomass compared to monoculture for the tested isolates. In A. baumannii, the virulence genes of bap, abaI, and ompA showed statistically significant increase in expression in co-culture compared to mono-culture after 24 h. In C. albicans , HWP1 is the only virulence gene that shows a statistically significant increase in expression in co-culture compared to monoculture after 48 h. Gene expression patterns varied in patient isolates, suggesting strain heterogeneity. This is an exploratory study that provides evidence of changes in biofilm formation and virulence gene expression in co-culture conditions among clinical isolates of A. baumannii and C. albicans . These findings suggest potential for microbial interactions under polymicrobial conditions, which might affect the diagnosis and treatment of patients with UTIs. Future studies with a larger number of isolates and functional assays are required to clarify the mechanistic regulation and biological relevance of these observations in UTIs.