Publications & Works

Published journal articles indexed by SCI, SSCI, and AHCI

Artificial Intelligence as Accelerator for Genomic Medicine and Planetary Health

OMICS-A JOURNAL OF INTEGRATIVE BIOLOGY, vol.25, pp.745-749, 2021 (Peer-Reviewed Journal) Sustainable Development identifier identifier identifier

Systems-level biomarkers identification and drug repositioning in colorectal cancer

WORLD JOURNAL OF GASTROINTESTINAL ONCOLOGY, vol.13, no.7, pp.638-661, 2021 (Peer-Reviewed Journal) Sustainable Development identifier identifier identifier

Recent Developments in Cancer Systems Biology: Lessons Learned and Future Directions

JOURNAL OF PERSONALIZED MEDICINE, vol.11, no.4, 2021 (Peer-Reviewed Journal) Sustainable Development identifier identifier identifier

The Repertoire of Glycan Alterations and Glycoproteins in Human Cancers.

Omics : a journal of integrative biology, vol.25, no.3, pp.139-168, 2021 (Peer-Reviewed Journal) Sustainable Development identifier identifier identifier

Pathways involved in viral oncogenesis: New perspectives from virus-host protein interactomics

BIOCHIMICA ET BIOPHYSICA ACTA-MOLECULAR BASIS OF DISEASE, vol.1866, no.10, 2020 (Peer-Reviewed Journal) Sustainable Development identifier identifier identifier

COVID-19 and the Futures of Machine Learning

OMICS-A JOURNAL OF INTEGRATIVE BIOLOGY, vol.24, no.9, pp.512-514, 2020 (Peer-Reviewed Journal) Sustainable Development identifier identifier

Omics-Driven Biomarkers of Psoriasis: Recent Insights, Current Challenges, and Future Prospects

CLINICAL COSMETIC AND INVESTIGATIONAL DERMATOLOGY, vol.13, pp.611-625, 2020 (Peer-Reviewed Journal) identifier identifier identifier

Interview with Prof. K. Yalçın Arga: A Pioneer of Multi-Omics Science and Health Care Innovation.

Omics : a journal of integrative biology, vol.23, pp.460-462, 2019 (Peer-Reviewed Journal) identifier identifier

Transcriptomic-Guided Drug Repositioning Supported by a New Bioinformatics Search Tool: geneXpharma

OMICS-A JOURNAL OF INTEGRATIVE BIOLOGY, vol.21, no.10, pp.584-591, 2017 (Peer-Reviewed Journal) Sustainable Development identifier identifier identifier

Hypothesis: Are There Molecular Signatures of Yoga Practice in Peripheral Blood Mononuclear Cells?

OMICS-A JOURNAL OF INTEGRATIVE BIOLOGY, vol.21, no.7, pp.426-428, 2017 (Peer-Reviewed Journal) identifier identifier identifier

RNA-based ovarian cancer research from 'a gene to systems biomedicine' perspective

SYSTEMS BIOLOGY IN REPRODUCTIVE MEDICINE, vol.63, no.4, pp.219-238, 2017 (Peer-Reviewed Journal) Sustainable Development identifier

Molecular signatures of ovarian diseases: Insights from network medicine perspective

SYSTEMS BIOLOGY IN REPRODUCTIVE MEDICINE, vol.62, no.4, pp.266-282, 2016 (Peer-Reviewed Journal) Sustainable Development identifier

Computational Systems Biology of Psoriasis: Are We Ready for the Age of Omics and Systems Biomarkers?

OMICS-A JOURNAL OF INTEGRATIVE BIOLOGY, vol.19, no.11, pp.669-687, 2015 (Peer-Reviewed Journal) Sustainable Development identifier identifier identifier

Systems biology solutions to challenges in marine biotechnology

FRONTIERS IN MARINE SCIENCE, vol.1, 2014 (Peer-Reviewed Journal) Creative Commons License Sustainable Development identifier

Assessment of high-confidence protein-protein interactome in yeast

COMPUTATIONAL BIOLOGY AND CHEMISTRY, vol.45, pp.1-8, 2013 (Peer-Reviewed Journal) identifier identifier identifier

Draft Genome Sequence of Halomonas smyrnensis AAD6(T)

JOURNAL OF BACTERIOLOGY, vol.194, no.20, pp.5690-5691, 2012 (Peer-Reviewed Journal) Creative Commons License identifier

Drug targets for tumorigenesis: Insights from structural analysis of EGFR signaling network

JOURNAL OF BIOMEDICAL INFORMATICS, vol.42, no.2, pp.228-236, 2009 (Peer-Reviewed Journal) Sustainable Development identifier

Understanding signaling in yeast: Insights from network analysis

BIOTECHNOLOGY AND BIOENGINEERING, vol.97, no.5, pp.1246-1258, 2007 (Peer-Reviewed Journal) identifier identifier identifier

Articles Published in Other Journals

Systems Biomedicine Acts as a Driver for the Evolution of Pharmacology

Annals of Pharmacology and Pharmaceutics, vol.2, pp.1087-1088, 2017 (Peer-Reviewed Journal)

The role of protein interaction networks in systems biomedicine

Computational and Structural Biotechnology Journal, vol.11, pp.22-27, 2014 (Peer-Reviewed Journal) identifier identifier

DECIPHERING THE CROSS-TALK BETWEEN SPHINGOLIPID MECHANISM AND SIGNALING PATHWAYS IN BAKER'S YEAST

SIGMA JOURNAL OF ENGINEERING AND NATURAL SCIENCES-SIGMA MUHENDISLIK VE FEN BILIMLERI DERGISI, vol.26, no.3, pp.162-174, 2008 (Peer-Reviewed Journal) identifier

Refereed Congress / Symposium Publications in Proceedings

Drug Respositioning in Colorectal Cancer by using Co-expression Networks of P-glycoprotein

13th The International Symposium on Health Informatics and Bioinformatics, Turkey, 22 - 23 October 2020 Sustainable Development

Review of the Occupational Health and Safety in the Metal Sector in Turkey

8. International Vocational Schools Symposium, Sinop, Turkey, 11 - 13 June 2019

112 Ambulans ve Acil Komuta Merkezi Çalışanlarında İş Sağlığı ve Güvenliği

3rd INTERNATIONAL OCCUPATIONAL ANDENVIRONMENTAL DISEASES CONGRESS, 3 - 07 March 2019

Prostat kanserinin diferansiyel protein etkileşim ağı haritasındaki yeri.

19. Uluslararası Katılımlı Biyoteknoloji Kongresi, Eskişehir, Turkey, 30 November - 03 December 2018 Sustainable Development

Systems Biomarkers in Cancer Diagnosis, Prognosis and Therapy

2nd International Cell Death Research Congress, 1 - 04 November 2018 Sustainable Development

Prostate cancer-specific metabolic model as a tool for drug repositioning

International Conference on Applied Mathematics, Modeling and Life Sciences, 3 - 05 October 2018 Sustainable Development

Model driven discovery of drug targets for effective treatment of prostate cancer

Conference on Intelligent Systems for Molecular Biolog (ISMB2018), Chicago, United States Of America, 6 - 10 July 2018 Sustainable Development

Model driven discovery of drug targets for effective treatment of prostate cancer (Poster)

Conference on Intelligent Systems for Molecular Biolog (ISMB2018), Chicago, United States Of America, 6 - 10 July 2018 Sustainable Development

Comparative Analysis Of Human Cancers Through Molecular Signatures

Applied Bioinformatics in Life Sciences, Leuven, Belgium, 8 March - 09 August 2018 Sustainable Development

Integrated analysis of transcriptome and protein interactome in colorectal cancer

International Conference on Biotechnology in Health and Agriculture 2017, Dhaka, Bangladesh, 29 - 30 December 2017 Sustainable Development

Protein-protein interaction analysis of differentially expressed genes in head and neck cancer

International Conference on Biotechnology in Health and Agriculture 2017, Dhaka, Bangladesh, 29 - 30 December 2017 Sustainable Development

Biyoinformatik: Temel kavramlar ve klinik uygulamaları

Klinisyenler için Moleküler Biyoloji ve Genetik Temel Kavramlar, İstanbul, Turkey, 25 November 2017

Transkriptom: Temel kavramlar ve klinik uygulamaları

Klinisyenler için Moleküler Biyoloji ve Genetik Temel Kavramlar Sempozyumu, İstanbul, Turkey, 25 November 2017

Comprehensive mapping of differential protein interactome in human cancers

Uluslararası Katılımlı XV. Tıbbi Biyoloji ve Genetik Kongresi, 26 - 29 October 2017 Sustainable Development

Transcriptome based systems biomarkers: a novel prognostic gene module in ovarian cancer

Uluslararası Katılımlı XV. Tıbbi Biyoloji ve Genetik Kongresi, 26 - 29 October 2017 Sustainable Development

A glance at smoking effect on preeclamptic placenta with transcriptional regulation approach

41st FEBS Congress on Molecular and Systems Biology for a Better Life, Kusadasi, Turkey, 3 - 08 September 2016, vol.283, pp.77 identifier

Resemblance of human cancer stem cells based on genome-wide expression profiles

41st FEBS Congress on Molecular and Systems Biology for a Better Life, Kusadasi, Turkey, 3 - 08 September 2016, vol.283, pp.300 Sustainable Development identifier

(-)-Roemerine limits carbohydrate uptake which leads to alternative nutrients as acetyl-CoA sources

41st FEBS Congress on Molecular and Systems Biology for a Better Life, Kusadasi, Turkey, 3 - 08 September 2016, vol.283, pp.121-122 identifier

Drug repositioning strategies applied on a group of cancer

41st FEBS Congress on Molecular and Systems Biology for a Better Life, Kusadasi, Turkey, 3 - 08 September 2016, vol.283, pp.140 Sustainable Development identifier

Sistem biyotıp araştırmaları için bütünleştirilmiş biyolojik ağlar yaklaşımı

4. ULUSAL MOLEKÜLER BİYOLOJİ VE BİYOTEKNOLOJİ KONGRESİ, Turkey, 21 - 24 August 2015

Metabolic Variability Analysis Through Human Metabolic Model

3rd International Gen-Arel Molecular Biology and Genetics Student Congress, 24 - 25 April 2015

Genomic and Proteomic Candidate Biomarker Investigation for Personalized Medicine

3rd International Gen-Arel Molecular Biology and Genetics Student Congress, 24 - 25 April 2015

Deciphering triple negative breast cancer driven pathways via multi-omic networks

FEBS EMBO 2014 Conference, Paris, France, 30 August - 04 September 2014, vol.281, pp.452 Sustainable Development identifier

Uncovering the interconnectivity between infertility-associated woman diseases

FEBS EMBO 2014 Conference, Paris, France, 30 August - 04 September 2014, vol.281, pp.276 identifier

Computational association of autoimmune diseases: a case study

FEBS EMBO 2014 Conference, Paris, France, 30 August - 04 September 2014, vol.281, pp.109-110 identifier

Investigation of the fructose uptake system in halophilic bacteria Halomonas smyrnensis AAD6T

38th Congress of the Federation-of-European-Biochemical-Societies (FEBS), Saint Peter, Guernsey And Alderney, 6 - 11 July 2013, vol.280, pp.559 identifier

Characterization of the first extremophilic levansucrase purified from halophilic bacteria Halomonas smyrnensis AAD6T

38th Congress of the Federation-of-European-Biochemical-Societies (FEBS), Saint Peter, Guernsey And Alderney, 6 - 11 July 2013, vol.280, pp.178-179 identifier

Biosensor production for foodborn pathogen salmonella enteritidis

The International Congress on Bioinformatics and Biomics, 18 - 22 May 2011

LEVAN PRODUCTION BY Halomonas sp.

6th International Conference on Polysaccharides-Glycoscience, Prague, Czech Republic, 29 September - 01 October 2010, pp.133-134 identifier

Integrated approach to reconstruct signal transduction networks

12th European Congress on Biotechnology (ECB 12), Copenhagen, Denmark, 21 - 24 August 2005, vol.118 identifier

Structural robustness of protein interaction networks are due to modularity

12th European Congress on Biotechnology (ECB 12), Copenhagen, Denmark, 21 - 24 August 2005, vol.118 identifier

Books & Book Chapters

A comprehensive overview of signaling pathways and their crosstalk in human cancers

in: The Most Recent Studies in Science and Art, Arapgirlioglu H., Atik A., Elliott RL., Turgeon E, Editor, Gece Kitaplığı, pp.771-784, 2018

Overview and new perspectives on human transcriptional regulatory network

in: The Most Recent Studies in Science and Art, Arapgirlioglu H., Atik A., Elliott RL., Turgeon E., Editor, Gece Kitaplığı, pp.733-740, 2018

Systems Biomedicine: From genome scale molecular networks to efficacious biomarkers and therapeutic targets

in: Researches on Science and Art in 21st Century Turkey, Hasan Arapgirlioğlu Atilla Atık Robert L. Elliot Edward Turgeon, Editor, Gece Kitaplığı, Ankara, pp.2380-2388, 2017

Proteins from Halophilic Bacteria: Purification and Their Applications

in: Protein Purification - Principles and Trends, -, Editor, iConcept Press, Victoria-City, pp.1-23, 2016 Creative Commons License