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HCV, Epithelial Ovarian Cancer, Bioinformatics, Formal Concept Analysis
Egypt

Biography

Upon completion of her doctorate in Medical Biochemistry & Molecular Biology [Thesis titled “Biochemical Studies Based on Signal Transduction by C-erbB-2 gene Product”, Laboratory of Breast and Ovarian Cancer Biology, Duke University Medical Center, Durham, NC, USA.], Dr. Samar Kamal Kassim at Ain Shams Faculty of Medicine directed research in basic cancer research. This led to the publication of many articles in cancer diagnosis and follow up (Eissa et al, 2011, Eissa et al, 2005, Kassim et al, 2004, Eissa et al, 2003 etc.) where she helped establishing detection systems for many epithelial cancers using tumor and genetic markers. At 2002, she joined Glasgow Caledonian University where she identified the differences between breast and ovarian cancers in the Androgen receptor gene methylation and exon one CAG repeat length (Kassim et al, 2004-2). Dr. Kassim also joined important research in molecular events accompanying hepatitis C viral infections among Egyptian patients, which led to the publications of many articles as (Hassan et al, 2007, and Hassan et al, 2002 etc.) She directed Bioinformatics research of breast cancer for the development of an Association system for breast cancer microarray (Darweesh et al, 2014). She also directed the presentation of An Ensemble Feature Extraction Classifier for the Analysis of Integrated Data of HCV-HCC Related DNA Microarray (Eid et al, 2014). This feature enables the prediction of hepatocellular carcinoma among chronic HCV infected patients. She published a large longitudinal study in the American Journal of Gastroenterology about the Host and viral determinants of the outcome of exposure to HCV infection genotype 4 (Kamal et al, 2014). Dr. Kassim helped the development of Bioinformatics Master and undergraduate programs in Helwan and Ain Shams Universities. She is the Co-PI of the Egyptian node of the H3ABioNet granted by the NIH through which published in Science Magazine (H3Africa consortium, 2014)”, Genome research (Mulder et al, 2015), and Global Heart (Mulder et al, 2017). She was the Co-Chair of the ECTWG of A3Africa since May 2016 till March 2018. ECTWG published their experience in designing and successfully delivering the eGenomic Medicine for African Medical and Paramedical professionals in Front Genet., 2019 (Nembaware V et al, 2019). Dr. Kassim contributed in the development of recommended Bioinformatics curricula by H3ABioNet. She Currently leads the Precision Medicine Portal Working group of H3ABioNet through which they published their first review article about Pharmacogenetics in African in Precision Medicine (Radouani et al, 2020). And lastly she contributed in Nature publication studying human migration in Africa (Choudhury A et al, 2020). Dr. Kassim currently leads the Computational Biology Team At MASRI Research Center of Ain Shams University and published with team two Science articles about Covid-19 in Africa.

Activities

Employment (1)

Ain Shams University Faculty of Medicine: Cairo, EG

2005-03-20 to present | Professor (Medical Biochemistry & Molecular Biology)
Employment
Source: Self-asserted source
Kassim Samar K

Education and qualifications (1)

Ain Shams University Faculty of Medicine: Cairo, EG

2005-03-20 to present | Professor (Medical Biochemistry & Molecular Biology)
Education
Source: Self-asserted source
Kassim Samar K

Funding (2)

H3ABioNet: a sustainable African Bioinformatics Network for H3Africa

2012-08 to 2017-07 | Grant
NIH Office of the Director (MD, MD, US)
GRANT_NUMBER:

1U41HG006941-01 REVISED

Source: Self-asserted source
Kassim Samar K

H3ABioNet: informatics solutions for H3Africa

Grant
National Human Genome Research Institute (Md., Md., US)
GRANT_NUMBER:

5U24HG006941-08

Source: Self-asserted source
Kassim Samar K

Works (50 of 66)

Items per page:
Page 1 of 2

Genomics data sharing

Genomic Data Sharing
2023 | Book chapter
Part of ISBN: 9780128198032
Contributors: Judit Kumuthini; Lyndon Zass; Melek Chaouch; Faisal M. Fadlelmola; Nicola Mulder; Fouzia Radouani; Verena Ras; Chaimae Samtal; Milaine S. S. Tchamga; Dassen Sathan et al.
Source: Self-asserted source
Kassim Samar K

A Systematic Literature Review of DNA-Based Steganography Techniques: Research Trends, Data Sets, Methods, and Frameworks

2022 | Book chapter
Contributors: Mohammed A. Farahat; A. Abdo; Samar K. Kassim
Source: check_circle
Crossref

The clinical utility of polygenic risk scores in genomic medicine practices: a systematic review

Human Genetics
2022-04-30 | Journal article
Part of ISSN: 0340-6717
Part of ISSN: 1432-1203
Source: Self-asserted source
Kassim Samar K
grade
Preferred source (of 2)‎

African Genomic Medicine Portal: A Web Portal for Biomedical Applications

Journal of Personalized Medicine
2022-02 | Journal article | Author
Contributors: Houcemeddine Othman; Lyndon Zass; Jorge Batista da Rocha; Fouzia Radouani; Chaimae Samtal; Ichrak BENAMRI; Judit Kumuthini; Yasmina Jaufeerally-Fakim; Yosr Hamdi; Nessrine Mezzi et al.
Source: check_circle
Multidisciplinary Digital Publishing Institute

A Hybrid Approach for Protecting Clinical and Genomic Data Using Lossless Stego-DNA Compression

2021 | Book chapter
Contributors: Mohammed A. Farahat; A. Abdo; Samar K. Kassim
Source: check_circle
Crossref

Ten simple rules for developing bioinformatics capacity at an academic institution

PLOS Computational Biology
2021-12-09 | Journal article
Contributors: Shaun Aron; C. Victor Jongeneel; Paballo Abel Chauke; Melek Chaouch; Judit Kumuthini; Lyndon Zass; Fouzia Radouani; Samar Kamal Kassim; Faisal M. Fadlelmola; Nicola Mulder
Source: check_circle
Crossref

A year of genomic surveillance reveals how the SARS-CoV-2 pandemic unfolded in Africa.

Science (New York, N.Y.)
2021-09-09 | Journal article
Source: Self-asserted source
Kassim Samar K

H3ABioNet genomic medicine and microbiome data portals hackathon proceedings.

Database : the journal of biological databases and curation
2021-04-01 | Journal article
Source: Self-asserted source
Kassim Samar K

Human OMICs and Computational Biology Research in Africa: Current Challenges and Prospects.

Omics : a journal of integrative biology
2021-04-01 | Journal article
Source: Self-asserted source
Kassim Samar K

High-depth African genomes inform human migration and health.

Nature
2020-10-28 | Journal article
Source: Self-asserted source
Kassim Samar K

A review of clinical pharmacogenetics Studies in African populations.

Personalized medicine
2020-03-03 | Journal article
Source: Self-asserted source
Kassim Samar K
grade
Preferred source (of 2)‎

The African Genomic Medicine Training Initiative (AGMT): Showcasing a Community and Framework Driven Genomic Medicine Training for Nurses in Africa.

Frontiers in genetics
2019-12-20 | Journal article
Source: Self-asserted source
Kassim Samar K

Evaluation of the diagnostic and therapeutic roles of non-coding RNA and cell proliferation related gene association in hepatocellular carcinoma.

Gene
2019-04-26 | Journal article
Source: Self-asserted source
Kassim Samar K
grade
Preferred source (of 2)‎

Association of MTHFR C677T and ABCA1 G656A polymorphisms with obesity among Egyptian children

Gene Reports
2018 | Journal article
EID:

2-s2.0-85044170016

Contributors: Borai, I.H.; Soliman, A.F.; Ahmed, H.M.; Ahmed, G.F.; Kassim, S.K.
Source: Self-asserted source
Kassim Samar K via Scopus - Elsevier

Biochemical studies of hippocampal gene expression of brain-derived neurotropic factor and toll-like receptor-4 in diabetic rats exposed to chronic stress: Effects of antidepressant drugs

Asian Journal of Pharmaceutical and Clinical Research
2018 | Journal article
EID:

2-s2.0-85039872640

Contributors: Aboul-Fotouh, S.; Hassan, D.M.; Habib, M.Z.E.; Amin, A.I.; Kassim, S.K.; Mohamed, A.S.
Source: Self-asserted source
Kassim Samar K via Scopus - Elsevier

Evaluation of leptin and MMP2 genes methylation in childhood obesity

Gene Reports
2018 | Journal article
EID:

2-s2.0-85042674256

Contributors: El Sayed, S.; Khairy, E.; Basheer, A.R.; Zaki, W.S.; Ahmad, G.F.; Kassim, S.K.
Source: Self-asserted source
Kassim Samar K via Scopus - Elsevier

Behavioral effects of toll-like receptor-4 antagonist 'eritoran' in an experimental model of depression: role of prefrontal and hippocampal neurogenesis and γ-aminobutyric acid/glutamate balance.

Behavioural pharmacology
2018-08-01 | Journal article
Source: Self-asserted source
Kassim Samar K
grade
Preferred source (of 2)‎

Ghrelin gene polymorphism as a genetic biomarker for prediction of therapy induced clearance in Egyptian chronic HCV patients.

Gene
2018-01-31 | Journal article
Source: Self-asserted source
Kassim Samar K
grade
Preferred source (of 2)‎

Laboratory validation of formal concept analysis of the methylation status of microarray-detected genes in primary breast cancer.

Tumour biology : the journal of the International Society for Oncodevelopmental Biology and Medicine
2017-06-01 | Journal article
Source: Self-asserted source
Kassim Samar K
grade
Preferred source (of 2)‎

H3ABioNet: Developing Sustainable Bioinformatics Capacity in Africa

EMBnet.journal
2017-05-17 | Journal article
Part of ISSN: 2226-6089
Source: Self-asserted source
Kassim Samar K

Development of Bioinformatics Infrastructure for Genomics Research.

Global heart
2017-03-13 | Journal article
Source: Self-asserted source
Kassim Samar K
grade
Preferred source (of 3)‎

H3ABioNet, a sustainable pan-African bioinformatics network for human heredity and health in Africa

Genome Research
2016-02 | Journal article
Part of ISSN: 1088-9051
Part of ISSN: 1549-5469
Contributors: Kassim Samar K; Nicola J. Mulder; Ezekiel Adebiyi; Raouf Alami; Alia Benkahla; James Brandful; Seydou Doumbia; Dean Everett; Faisal M. Fadlelmola; Fatima Gaboun et al.
Source: Self-asserted source
Kassim Samar K
grade
Preferred source (of 2)‎

The accuracy and cost-effectiveness of hepatitis C core antigen assay in the monitoring of anti-viral therapy in patients with chronic hepatitis C genotype 4

Alimentary Pharmacology and Therapeutics
2015 | Journal article
EID:

2-s2.0-84936845881

Contributors: Kamal, S.M.; Kassim, S.; El Gohary, E.; Fouad, A.; Nabegh, L.; Hafez, T.; Bahnasy, K.; Hassan, H.; Ghoraba, D.
Source: Self-asserted source
Kassim Samar K via Scopus - Elsevier

Host and viral determinants of the outcome of exposure to HCV infection genotype 4: A large longitudinal study

American Journal of Gastroenterology
2014 | Journal article
EID:

2-s2.0-84893813393

Contributors: Kamal, S.M.; Kassim, S.K.; Ahmed, A.I.; Mahmoud, S.; Bahnasy, K.A.; Hafez, T.A.; Aziz, I.A.; Fathelbab, I.F.; Mansour, H.M.
Source: Self-asserted source
Kassim Samar K via Scopus - Elsevier

Visualizing and Identifying the DNA Methylation Markers in Breast Cancer Tumor Subtypes

Advances in Intelligent Systems and Computing
2014 | Book
EID:

2-s2.0-84906716921

Contributors: Amin, I.I.; Hassanien, A.E.; Hefny, H.A.; Kassim, S.K.
Source: Self-asserted source
Kassim Samar K via Scopus - Elsevier

Validation of analytical breast cancer microarray analysis in medical laboratory

Medical Oncology
2014-10 | Journal article
Part of ISSN: 1357-0560
Part of ISSN: 1559-131X
Contributors: Kassim Samar K; Amal Said Darweesh; Manal Louis Louka; Maha Hana; Shaymaa Rashad; Mohamed El-Shinawi; Ahmed Sharaf-Eldin; Samar Kamal Kassim
Source: Self-asserted source
Kassim Samar K
grade
Preferred source (of 2)‎

Lipopolysaccharide repeated challenge followed by chronic mild stress protocol introduces a combined model of depression in rats: reversibility by imipramine and pentoxifylline.

Pharmacology, biochemistry, and behavior
2014-09-28 | Journal article
Source: Self-asserted source
Kassim Samar K
grade
Preferred source (of 3)‎

Enabling the genomic revolution in Africa

Science
2014-06-20 | Journal article
Part of ISSN: 0036-8075
Part of ISSN: 1095-9203
Contributors: Kassim Samar K; The H3Africa Consortium; Enock Matovu; Bruno Bucheton; John Chisi; John Enyaru; Christiane Hertz-Fowler; Mathurin Koffi; Annette Macleod; Dieuodonne Mumba et al.
Source: Self-asserted source
Kassim Samar K
grade
Preferred source (of 2)‎

Applying formal concept analysis for visualizing DNA methylation status in breast cancer tumor subtypes

2013 9th International Computer Engineering Conference: Today Information Society What's Next?, ICENCO 2013
2013 | Conference paper
EID:

2-s2.0-84896786374

Contributors: Amin, I.I.; Kassim, S.K.; Hassanien, A.E.; Hefny, H.A.
Source: Self-asserted source
Kassim Samar K via Scopus - Elsevier

Epidermal growth factor, its receptor and transforming growth factor-β1 in the diagnosis of HCV-induced hepatocellular carcinoma

Medical Oncology
2013 | Journal article
EID:

2-s2.0-84880816977

Contributors: Shehata, F.; Monem, N.A.; Sakr, M.; Kasem, S.; Balbaa, M.
Source: Self-asserted source
Kassim Samar K via Scopus - Elsevier

New crossing minimization technique for cancer datasets biclustering

3rd International Conference on Digital Information Processing and Communications, ICDIPC 2013
2013 | Conference paper
EID:

2-s2.0-84978643582

Contributors: Eldein, A.S.; Kassim, S.; Mohamed, T.
Source: Self-asserted source
Kassim Samar K via Scopus - Elsevier

Using formal concept analysis for mining hyomethylated genes among breast cancer tumors subtypes

Proceedings of the 2013 International Conference on Advances in Computing, Communications and Informatics, ICACCI 2013
2013 | Conference paper
EID:

2-s2.0-84891931144

Contributors: Amin, I.I.; Kassim, S.K.; Hassanien, A.E.; Hefny, H.A.
Source: Self-asserted source
Kassim Samar K via Scopus - Elsevier

Model Based Framework for Estimating Mutation Rate of Hepatitis C Virus in Egypt

International Journal of Computer Science and Information Security
2013-05-30 | Journal article
Source: Self-asserted source
Kassim Samar K

Information Gain based Methodology to Predict the Effect of Conformational Change on the Existence of f10 Epitope on the Surface of Human H5N1 Virus Hemagglutinin Protein

INTERNATIONAL JOURNAL OF COMPUTER APPLICATION
2013-04-17 | Journal article
Source: Self-asserted source
Kassim Samar K

An ensemble feature extraction classifier for the analysis of integrated data of HCV-HCC related DNA microarray

2012 IEEE-EMBS Conference on Biomedical Engineering and Sciences, IECBES 2012
2012 | Conference paper
EID:

2-s2.0-84876771946

Contributors: Eid, S.; Youssif, A.; Kassim, S.; Fakhr, W.
Source: Self-asserted source
Kassim Samar K via Scopus - Elsevier

Formal concept analysis for mining hypermethylated genes in breast cancer tumor subtypes

International Conference on Intelligent Systems Design and Applications, ISDA
2012 | Conference paper
EID:

2-s2.0-84874371063

Contributors: Amin, I.I.; Kassim, S.K.; Hassanien, A.E.; Hefny, H.A.
Source: Self-asserted source
Kassim Samar K via Scopus - Elsevier

Human papillomavirus-16 (HPV-16) infection association with CIAP-2 expression in head and neck cancer

Medical Oncology
2012 | Journal article
EID:

2-s2.0-84867983098

Contributors: Mansour, A.; Ali, M.; Helmy, H.; Kassim, S.
Source: Self-asserted source
Kassim Samar K via Scopus - Elsevier

Aberrant methylation of RARβ<inf>2</inf>and APC genes in voided urine as molecular markers for early detection of bilharzial and nonbilharzial bladder cancer

Cancer Epidemiology Biomarkers and Prevention
2011 | Journal article
EID:

2-s2.0-79961238006

Contributors: Eissa, S.; Swellam, M.; El-Khouly, I.M.; Kassim, S.K.; Shehata, H.; Mansour, A.; Esmat, M.; Nossier, A.I.; Hamdy, M.A.; Awad, N.M. et al.
Source: Self-asserted source
Kassim Samar K via Scopus - Elsevier

A comparative study of protein sequence clustering algorithms

Innovations in Computing Sciences and Software Engineering
2010 | Conference paper
EID:

2-s2.0-84878902324

Contributors: Sharaf Eldin, A.; AbdelGaber, S.; Soliman, T.; Kassim, S.; Abdo, A.
Source: Self-asserted source
Kassim Samar K via Scopus - Elsevier

Antiproliferative effect of hepatitis C virus on mitogen-stimulated peripheral blood mononuclear cells: Potential role in viral persistence in Egyptian patients

Clinical Biochemistry
2007 | Journal article
EID:

2-s2.0-35348861549

Contributors: Hassan, M.I.; Kassim, S.K.; Ahmad, M.I.; Fawzy, S.
Source: Self-asserted source
Kassim Samar K via Scopus - Elsevier

Detection of bladder carcinoma by combined testing of urine for hyaluronidase and cytokeratin 20 RNAs

Cancer
2005 | Journal article
EID:

2-s2.0-15744379983

Contributors: Eissa, S.; Kassim, S.K.; Labib, R.A.; El-Khouly, I.M.; Ghaffer, T.M.; Sadek, M.; Razek, O.A.; El-Ahmady, O.
Source: Self-asserted source
Kassim Samar K via Scopus - Elsevier

The Cell Cycle Regulators <i>P16<sup>INK4a</sup>, P15<sup>INK4b</sup></i> and Cyclin D1: Relationship to Clinicopathological Parameters and Disease-free Survival in Laryngeal Carcinoma Patients.

Cancer genomics & proteomics
2005-07-01 | Journal article
Contributors: Kassim Samar K; El-Salahy E; Abou-Ghalia AH; Adli A; Kassim SK
Source: Self-asserted source
Kassim Samar K

Androgen receptor gene methylation and exon one CAG repeat length in ovarian cancer: Differences from breast cancer

IUBMB Life
2004 | Journal article
EID:

2-s2.0-9444243845

Contributors: Kassim, S.K.; Zoheiry, N.M.; Hamed, W.M.; Going, J.J.; Craft, J.A.
Source: Self-asserted source
Kassim Samar K via Scopus - Elsevier

Vascular endothelial growth factor and interleukin-8 are associated with poor prognosis in epithelial ovarian cancer patients

Clinical Biochemistry
2004 | Journal article
EID:

2-s2.0-1842850792

Contributors: Kassim, S.K.; El-Salahy, E.M.; Fayed, S.T.; Helal, S.A.; Helal, T.; Azzam, E.E.-D.; Khalifa, A.
Source: Self-asserted source
Kassim Samar K via Scopus - Elsevier

Prognostic Significance of Ets-1 and the Matrix Metalloproteinase-2 to Tissue Inhibitor of Matrix Metalloproteinase-2 Ratio in Egyptian Epithelial Ovarian Cancer Patients.

Cancer genomics & proteomics
2004-05-01 | Journal article
Contributors: Kassim Samar K; Kassim SK; Fayed ST; Ali-Labib R; Seada L
Source: Self-asserted source
Kassim Samar K

Human Papillomavirus High-risk Genotypes: Relationship to Apoptosis and p53 Expression in Egyptian Patients with Laryngeal Carcinoma.

Cancer genomics & proteomics
2004-03-01 | Journal article
Contributors: Kassim Samar K; Kassim SK; Seada L; Ibrahim S
Source: Self-asserted source
Kassim Samar K

Detection of bladder tumours: Role of cytology, morphology-based assays, biochemical and molecular markers

Current Opinion in Obstetrics and Gynecology
2003 | Journal article
EID:

2-s2.0-0142154038

Contributors: Eissa, S.; Kassim, S.; El-Ahmady, O.
Source: Self-asserted source
Kassim Samar K via Scopus - Elsevier

The role of interleukin-12 and tissue antioxidants in chronic sinusitis

International Congress Series
2003 | Book
EID:

2-s2.0-85023122287

Contributors: Nassar, M.; El-Begermy, M.; Kassim, S.K.; Khalil, R.; Nasr, G.F.
Source: Self-asserted source
Kassim Samar K via Scopus - Elsevier

Evaluation of Nitric Oxide (NO) Levels in Hepatitis C Virus (HCV) Infection: Relationship to Schistosomiasis and Liver Cirrhosis among Egyptian Patients

Disease Markers
2002 | Journal article
Part of ISSN: 0278-0240
Part of ISSN: 1875-8630
Contributors: Kassim Samar K; Mahmoud Ismail Hassan; Samar Kamal Kassim; Hebatalla Said Ali; El-Dieb Abd ElSattar Sayed; Ali Khalifa
Source: Self-asserted source
Kassim Samar K

Serum nitrates and vasoactive intestinal peptide in patients with gastroesophageal reflux disease

Clinical Biochemistry
2002 | Journal article
EID:

2-s2.0-0036868036

Contributors: Kassim, S.K.; El Touny, M.; El Guinaidy, M.; El Moghni, M.A.; El Mohsen, A.A.
Source: Self-asserted source
Kassim Samar K via Scopus - Elsevier
Items per page:
Page 1 of 2

Peer review (7 reviews for 4 publications/grants)

Review activity for ["Journal of Genetic Engineering and Biotechnology.","مجلة المركز القومي للبحوث للتكنولوجيا الحيوية"] (3)
Review activity for Bulletin of the National Research Centre. (1)
Review activity for Medical oncology. (2)
Review activity for Molecular biology reports. (1)