Atabey Lab. on Cancer Biology and Signaling

Overview

Atabey Lab. has been working in the field of Cancer Biology and Signaling. The scientific goal of our group is to fill the gaps in the fundamental biological mechanisms underlying the development and progression of cancer. Over the past two decades, our group has been working on to develop deeper understanding the role of signal transduction cascade in cancer development and progression and using this molecular knowledge to improve the diagnosis and treatment of cancer.

Specific Goals

1) Identification of the potential reciprocal crosstalk between c-Met receptor and other signaling molecules and their cooperative interaction in drug resistance in HCC
2) Investigating HGF/c-Met axis in tumor microenvironment and metastasis formation in the liver
3) Identification of the potential reciprocal crosstalk between HGF/c-Met signaling and glucose metabolism in HCC using various in vitro and in vivo models and further use this knowledge for developing strategies to prevent HCC
4) Identification of the roles of non-coding RNAs in the regulation of c-Met signaling in HCC
5) Deciphering signaling pathways in clinical samples for precision medicine using omics technologies
6) The use of omics data obtaining by our group and by the literature to investigate signaling mechanisms in metastasis and cancer by using in silico methods
7) Fabrication and validation of Lab-on-a-chip (LOC) system to predict metastatic and invasive ability to circulating tumor cells
8) Application of LOC in the early stage of anti-metastatic drug discovery focusing on gene expressions, receptor signaling and susceptibility

Our Team

Peyda Korhan, Research Associate

BSc (1998-2002); Thrace University, Biology

MSc (2003-2005); University of Wolverhampton UK, Biomedical Science

PhD (2007- 2014); Dokuz Eylül University, Medical Biology and Genetics

Afsoon Sadeghi Azadi, Post-Doctoral Researcher

BSc (2010); Ferdowsi University, Cell and Molecular Biology

MSc (2012); Uppsala University, Cell and Molecular Biology

PhD (2018); University of Exeter, Cell and Molecular Biology

Yasemin Öztemur Islakoğlu, Post-Doctoral Researcher

BSc (2007-2011); Hacettepe University, Biology

MSc (2011-2013); Ankara University Biotechnology Institute, Basic Biotechnology

PhD (2014-2018); Ankara University Biotechnology Institute, Basic Biotechnology

Yeliz Yılmaz, PhD Candidate

BSc (2004-2008); Boğaziçi University, Molecular Biology and Genetics

MSc (2008-2011); Boğaziçi University, Molecular Biology and Genetics

Ezgi Bağırsakçı, PhD Candidate

BSc (2009 – 2014); İhsan Doğramacı Bilkent University, Molecular Biology and Genetics

MSc (2015-2017); Dokuz Eylül University, Medical Biology and Genetics

Dehan Çömez, PhD Candidate

BSc (2010-2014); İstanbul University, Molecular Biology and Genetics

MSc (2016-2019); Dokuz Eylül University, Izmir International Biomedicine and Genome Institute, Molecular Biology and Genetics

Gülsün Bağcı, PhD Candidate

BSc (2012-2016); Izmir Institute of Technology (IZTECH), Molecular Biology and Genetics

MSc (2016-2019); Dokuz Eylül University, Izmir International Biomedicine and Genome Institute, Molecular Biology and Genetics

Alumni

Ayşim Güneş, PhD

Thesis: The Role of Signaling Pathways Associated with Oxidative Stress in the Progression of Hepatocellular Carcinoma

Current Position: Post-Doctoral Researcher, Montreal Clinical Research Institute (IRCM), McGill University

Erkan Kahraman, PhD

Thesis: Investigation of the Role of Sestrin 2 in Progression of Hepatocellular Carcinoma

Current Position: Assistant Professor, Atatürk Health Care Vocational School, Ege University

Hande Topel, PhD

Thesis: Investigation of the Relationship of c-Met Signalization and lncRNA HOTAIR in Epithelial-to-Mesenchymal
Transition Process of Hepatocellular Carcinoma

Current Position: Post-Doctoral Researcher, University of Southern Denmark (SDU)

Group Members

Atabey Lab. on Cancer Biology and Signaling

Research Group Leader

Neşe ATABEY
nese.atabey@ibg.edu.tr
+90 232 299 41 00 (5221)
+9 0232 299 41 72

Ezgi BAĞIRSAKÇI TEPE PhD Student  ezgi.bagirsakci@ibg.edu.tr


Yasemin ÖZTEMUR ISLAKOĞLU Post-Doc Researcher  yasemin.oztemur@ibg.edu.tr


Bahriye KARAKAŞ KÖSE Visiting Researcher  bahriye.karakas@ibg.edu.tr


Yeliz YILMAZ Post-Doc Researcher  yeliz.yilmaz@ibg.edu.tr


Gülhas SOLMAZ Visiting Researcher  gulhas.solmaz@ibg.edu.tr


Işıl KILIÇGÜN MSc Student  isil.kilicgun@ibg.edu.tr


Tutku GÜLER MSc Student  tutku.guler@ibg.edu.tr


Barış KELEŞ MSc Student  baris.keles@ibg.edu.tr


Peyda KORHAN Visiting Researcher  peyda.korhan@ibg.edu.tr


Former Members

Hande TOPEL Research Assistant  hande.topel@ibg.edu.tr


Yeliz YILMAZ Research Assistant  yeliz.yilmaz@ibg.edu.tr


Yeliz YILMAZ Research Assistant  yeliz.yilmaz@ibg.edu.tr


Gülsün BAĞCI PhD Student  gulsun.bagci@ibg.edu.tr


Dehan ÇÖMEZ PhD Student  dehan.comez@msfr.ibg.edu.tr


Peyda KORHAN Researcher  peyda.korhan@ibg.edu.tr


Afsoon Sadeghi AZADI Post-Doc Researcher  afsoon.azadi@msfr.ibg.edu.tr
+90 232 299 41 00 (-)

Yeliz YILMAZ Post-Doc Researcher  yeliz.yilmaz@ibg.edu.tr


Fatıma Gülşen ÖZKAN KARAGÖZ Undergraduate Student  fatima.karagoz@msfr.ibg.edu.tr


Doğuş ALTINTAŞ Visiting Researcher  dogus.altintas@msfr.ibg.edu.tr


Zehranaz CAN Undergraduate Student  zehranaz.can@msfr.ibg.edu.tr


Gökçe CAN Undergraduate Student  gokce.can@msfr.ibg.edu.tr


Emre Can BULUZ Undergraduate Student  emrecan.buluz@msfr.ibg.edu.tr


Gizem BATI AYAZ Post-Doc Researcher  gizem.ayaz@ibg.edu.tr


Burçin BARAN Visiting Researcher  burcin.baran@msfr.ibg.edu.tr


Feyza SAKIN Undergraduate Student  feyza.sakin@ibg.edu.tr


Zeynep AVCİL Post-Doc Researcher  zeynep.avcil@msfr.ibg.edu.tr


Seyhan İÇİER MSc Student  seyhan.icier@ibg.edu.tr


BURCU SARIKAYA Post-Doc Researcher  None


Işıl KILIÇGÜN MSc Student  isil.kilicgun@ibg.edu.tr


Halil ÇAVDAR Undergraduate Student  halil.cavdar@ibg.edu.tr


Ali ALCAN Undergraduate Student  ali.alcan@ibg.edu.tr


News

Please follow us on @atabeylab instagram and twitter accounts :)


Selected Publications

Bagci G, Comez D, Topel H, Yilmaz Y, Bagirsakci E, Gunes A, Batı Ayaz G, Tahmaz I, Bilgen M, Solmaz G, Pesen Okvur D, Atabey N. c-Met activation promotes extravasation of hepatocellular carcinoma cells into 3D-cultured hepatocyte cells in lab-on-a-chip device.. Biochimica et biophysica acta. Molecular cell research. 2023 December ; 1870 (8) : 119557. doi:10.1016/j.bbamcr.2023.119557. Download

Demir AB, Baris E, Kaner UB, Alotaibi H, Atabey N, Koc A. Toll-interacting protein may affect doxorubicin resistance in hepatocellular carcinoma cell lines.. Molecular biology reports. 2023 August . doi:10.1007/s11033-023-08737-2. Download

Tüncel Ö, Kahraman E, Bağci G, Atabey N, Özçelik S. Engineered silica nanoparticles are biologically safe vehicles to deliver drugs or genes to liver cells.. Materials science & engineering. C, Materials for biological applications. 2021 February ; 119 : 111585. doi:10.1016/j.msec.2020.111585. Download

Akbari S, Kunter İ, Azbazdar Y, Ozhan G, Atabey N, Karagonlar ZF, Erdal E. LGR5/R-Spo1/Wnt3a axis promotes stemness and aggressive phenotype in hepatoblast-like hepatocellular carcinoma cell lines.. Cellular signalling. 2021 June : 109972. doi:10.1016/j.cellsig.2021.109972. Download

Topel H, Bağırsakçı E, Yılmaz Y, Güneş A, Bağcı G, Çömez D, Kahraman E, Korhan P, Atabey N. High glucose induced c-Met activation promotes aggressive phenotype and regulates expression of glucose metabolism genes in HCC cells.. Scientific Reports. 2021 May ; 11 (1) : 11376. doi:10.1038/s41598-021-89765-5. Download

Ekin U, Yuzugullu H, Ozen C, Korhan P, Bagirsakci E, Yilmaz F, Yuzugullu OG, Uzuner H, Alotaibi H, Kirmizibayrak PB, Atabey N, Karakülah G, Ozturk M. Evaluation of ATAD2 as a Potential Target in Hepatocellular Carcinoma.. Journal of gastrointestinal cancer. 2021 November . doi:10.1007/s12029-021-00732-9. Download

Korhan P, Tercan Avcı S, Yılmaz Y, Öztemur Islakoğlu Y, Atabey N. Role of Biobanks for Cancer Research and Precision Medicine in Hepatocellular Carcinoma.. Journal of gastrointestinal cancer. 2021 November . doi:10.1007/s12029-021-00759-y. Download

Karagonlar ZF, Akbari S, Karabicici M, Sahin E, Avci ST, Ersoy N, Ates KE, Balli T, Karacicek B, Kaplan KN, Celiker C, Atabey N, Erdal E. A Novel Function for KLF4 in Modulating the De-differentiation of EpCAM -/CD133 - nonStem Cells Into EpCAM +/CD133 + Liver Cancer Stem Cells in HCC Cell Line HuH7. Cells. 2020 May ; 9 (5) : 1198. doi:10.3390/cells9051198. Download

Keleş U, İşcan E, Yılmaz HE, Karakülah G, Suner A, Bal E, Taşdemir N, Cavga AD, Ekin U, Mutlu Z, Kahyaoğlu S, Serdar MA, Atabey N, Ozturk M. Differential expression of full length and N-terminally truncated FAM134B isoforms in normal physiology and cancer.. American journal of physiology. Gastrointestinal and liver physiology. 2020 December ; 319 (6) : G733-G747. doi:10.1152/ajpgi.00094.2020. Download

Topel H, Bagirsakci E, Comez D, Bagci G, Cakan-Akdogan G, Atabey N. lncRNA HOTAIR overexpression induced downregulation of c-Met signaling promotes hybrid epithelial/mesenchymal phenotype in hepatocellular carcinoma cells.. Cell communication and signaling : CCS. 2020 July ; 18 (1) : 110. doi:10.1186/s12964-020-00602-0. Download

Aysim Gunes, Ezgi Bagirsakci, Evin Iscan, Gulcin Cakan-Akdogan, Umut Aykutlu, Serif Senturk, Gunes Ozhan, Esra Erdal, Deniz Nart, Funda Yilmaz Barbet, Nese Atabey. Thioredoxin interacting protein promotes invasion in hepatocellular carcinoma. Oncotarget. 2018 ; 9 (96) : 36849-36866. doi:10.18632/oncotarget.26402. Download

Korhan P, Yılmaz Y, Bağırsakçı E, Güneş A, Topel H, Carr BI, Atabey N. Pleiotropic Effects of Heparins: From Clinical Applications to Molecular Mechanisms in Hepatocellular Carcinoma.. Canadian Journal of Gastroenterology and Hepatology. 2018 January ; 2018 : 7568742. doi:10.1155/2018/7568742. Download

. Role of Albumin in growth inhibition in Hepatocellular Carcinoma. Oncology. 2017 May ; 93 (2) : 136-142. doi:10.1159/000471807. Download

Yılmaz Y, Güneş A, Topel H, Atabey N. Signaling Pathways as Potential Therapeutic Targets in Hepatocarcinogenesis. J Gastrointest Cancer. 2017 September ; 48 (3) : 225-237. doi:10.1007/s12029-017-9958-1. Download

İşcan E, Güneş A, Korhan P, Yılmaz Y, Erdal E, Atabey N. The regulatory role of heparin on c-Met signaling in hepatocellular carcinoma cells. J Cell Commun Signal. 2017 June ; 11 (2) : 155-166. doi:10.1007/s12079-016-0368-0. Download

Firtina Karagonlar Z, Koç D, Şahin E, Avci ST, Yilmaz M, Atabey N, Erdal E. Effect of adipocyte-secreted factors on EpCAM+/CD133+ hepatic stem cell population.. Biochemical and biophysical research communications. 2016 January ; 474 (3) : 482-490. doi:10.1016/j.bbrc.2016.04.137. Download

Firtina Karagonlar Z, Koc D, Iscan E, Erdal E, Atabey N. Elevated hepatocyte growth factor expression as an autocrine c-Met activation mechanism in acquired resistance to sorafenib in hepatocellular carcinoma cells.. Cancer science. 2016 January ; 107 (4) : 407-16. doi:10.1111/cas.12891. Download

Yilmaz Y, Atabey N, Erdal E & Brian I. Carr. Platelets, Microenvironment and Hepatocellular Carcinoma. Biochemistry & Analytical Biochemistry. 2016 June ; 5 : 281. doi:10.4172/2161-1009.1000281. Download

Gunes A, Iscan E, Topel H, Avci ST, Gumustekin M, Erdal E, Atabey N. Heparin treatment increases thioredoxin interacting protein expression in hepatocellular carcinoma cells.. The international journal of biochemistry & cell biology. 2015 January ; 65 : 169-81. doi:10.1016/j.biocel.2015.05.025. Download

Korhan P, Erdal E, Kandemiş E, Cokaklı M, Nart D, Yılmaz F, Can A, Atabey N. Reciprocal activating crosstalk between c-Met and caveolin 1 promotes invasive phenotype in hepatocellular carcinoma.. PloS one. 2014 January ; 9 (8) : e105278. doi:10.1371/journal.pone.0105278. Download

Korhan P, Erdal E, Atabey N. MiR-181a-5p is downregulated in hepatocellular carcinoma and suppresses motility, invasion and branching-morphogenesis by directly targeting c-Met.. Biochemical and biophysical research communications. 2014 January ; 450 (4) : 1304-12. doi:10.1016/j.bbrc.2014.06.142. Download

Kunter I, Erdal E, Nart D, Yilmaz F, Karademir S, Sagol O, Atabey N. Active form of AKT controls cell proliferation and response to apoptosis in hepatocellular carcinoma.. Oncology reports. 2014 January ; 31 (2) : 573-80. doi:10.3892/or.2013.2932. Download

Bozkaya G, Korhan P, Cokaklı M, Erdal E, Sağol O, Karademir S, Korch C, Atabey N. Cooperative interaction of MUC1 with the HGF/c-Met pathway during hepatocarcinogenesis.. Molecular cancer. 2012 January ; 11 : 64. doi:10.1186/1476-4598-11-64. Download

Gumustekin M, Kargi A, Bulut G, Gozukizil A, Ulukus C, Oztop I, Atabey N. HGF/c-Met overexpressions, but not met mutation, correlates with progression of non-small cell lung cancer.. Pathology oncology research : POR. 2012 January ; 18 (2) : 209-18. doi:10.1007/s12253-011-9430-7. Download

Ozen E, Gozukizil A, Erdal E, Uren A, Bottaro DP, Atabey N. Heparin inhibits Hepatocyte Growth Factor induced motility and invasion of hepatocellular carcinoma cells through early growth response protein 1.. PloS one. 2012 January ; 7 (8) : e42717. doi:10.1371/journal.pone.0042717. Download

Cokakli M, Erdal E, Nart D, Yilmaz F, Sagol O, Kilic M, Karademir S, Atabey N. Differential expression of Caveolin-1 in hepatocellular carcinoma: correlation with differentiation state, motility and invasion.. BMC cancer. 2009 January ; 9 : 65. doi:10.1186/1471-2407-9-65. Download

Total : 26

Selected Book Chapters

Targeting c-Met and AXL Crosstalk for the Treatment of Hepatocellular Carcinoma (2021). Liver Cancer in the Middle East. Springer.

Molecular Mechanisms of Hepatocellular Carcinoma (2016). Hepatocellular Carcinoma: Diagnosis and Treatment, 3rd Edition. Springer.

Total : 2

Selected Proceedings

. 2023, 'Caveolin-1 as a modulator of sorafenib resistance in Hepatocellular Carcinoma', EACR-29, Italy, Turin, June 12, 2023 .

. 2023, 'miR-181a-5p/GLS axis: a potential biomarker for sorafenib response in Hepatocellular Carcinoma', EACR-29, Italy, Turin, June 12, 2023 .

Burcu Kaplan Türköz 2023, 'Deciphering the Mechanisms Contributing to the Role of Neddylated c-Met on the Response of Neddylation Inhibitor MLN4924 Treatment in Liver Cancer', EACR-29, Italy, Turin, June 12, 2023 .

. 2023, 'Profiling of the olfactory receptor family expression in colon carcinoma by using in silico approaches', EACR-29, Italy, Turin, June 12, 2023 .

Y. Oztemur Islakoglu, P. Korhan, E. Bagirsakci, A. Arıbas, G. Karakulah, N. Atabey 2022, 'A new tool for investigating biomarker of hepatocellularcarcinoma diagnosis and prognosis: Fusion transcripts', EACR-28, Seville, Spain, June 20, 2022 .

P. Korhan, E. Bağırsakçı, Y. Öztemur Islakoğlu, M. Başol, E. Gelinci, G. Çakan, N. Atabey 2022, 'Determination of a molecular signature to predict organ-specific metastasis using HCC model', EACR-28, Seville, Spain, June 20, 2022 .

E. Bagirsakci, P. Korhan, Y. Oztemur Islakoglu, M. Basol, E. Gelinci, M. Karatas, G. Cakan-Akdogan, N. Atabey 2022, 'Mimicking liver microenvironment employing three-dimensional in vitro and in vivo zebrafish models', EACR-28, Seville, Spain, June 20, 2022 .

Yeliz Yılmaz, Neşe Atabey 2022, 'The role of c-Met inhibition in overcoming insulin receptor mediated tyrosine kinase activation in liver cancer', 4th Cell Symposia: Metabolites in Signaling and Disease, Lisbon, Portugal, April 3, 2022 .

Y. Yilmaz, B. Guloglu, N. Atabey 2022, 'Sensitizing Liver Cancer Cells to c-Met Inhibitors viaTargeting Neddylation', EACR-28, Seville, Spain, June 20, 2022 .

Mustafa Karataş, Yasemin Öztemur Islakoğlu*, Peyda Korhan, Ezgi Bağırsakçı, Neşe Atabey 2021, 'Comparing Gene Expression Patterns of in-vivo Animal Models of Non-alcoholic Steatohepatitis and Human Samples by Bioinformatic Approaches', Bioinformatics in Cancer Virtual Event, Virtual Event, Worldwide, May 18, 2021 .

Total : 10

Projects

The Scientific and Technological Research Council of Turkey - TUBITAK - RD : A New Lab-on-a-Chip Device for Early Diagnosis of Metastasis, Finished

The Scientific and Technological Research Council of Turkey - TUBITAK - RD : Molecular Mechanisms of High Glucose Induced Hepatocellular Carcinoma Progression: c-Met Activation and Potential Players Thioredoxin Interacting Protein, Sestrin2 and lncRNA HOTAIR, Finished

The Scientific and Technological Research Council of Turkey - TUBITAK - RD : The Role of Caveolin-1 on Sorafenib Resistance in Hepatocellular Carcinoma, Finished

The Scientific and Technological Research Council of Turkey - TUBITAK - RD : Interaction of Spesific Insulin Receptor Isoforms with c-Met: Mechanisms and Contributing Roles in the Progression of Hepatocellular Carcinoma, Ongoing

The Scientific and Technological Research Council of Turkey - TUBITAK - RD : Investigation of the role of HGF/c-Met Pathway in tumor microenvironment during the progression of liver metastasis, Ongoing

Awards

  • Meeting Bursary Award (Yeliz Yılmaz) by EACR, 2023
  • Meeting Bursary Award (Peyda Korhan) by EACR, 2023
  • Meeting Bursary Award (Yeliz Yılmaz) by EACR, 2022
  • Oral Presentation Award (Dehan Çömez) by 4. Çukurova Hepatoselüler Karsinoma Kongresi, 2020
  • Conference attendance fellowship award for young researcher oral presentation (Yasemin Öztemur Islakoğlu) by 16. Tıbbi Biyoloji ve Genetik Kongresi, 2019
  • Conference attendance fellowship award for young researcher oral presentation (Peyda Korhan) by 16. Tıbbi Biyoloji ve Genetik Kongresi, 2019
  • Young researcher award, 3rd (Peyda Korhan) by 16. Tıbbi Biyoloji ve Genetik Kongresi, 2019
  • Oral Presentation Award (Ezgi Bağırsakçı) by Antalya Onkolojide İz Bırakanlar Zirvesi, 2019
  • Best Oral Presentation (Yeliz Yılmaz) by 1st International Multidisciplinary Cancer Research Congress, 2019
  • Best Oral Presentation Award by 2nd Çukurova HCC Symposium, 2018
  • Travel Award - From Molecules to Cells and Back (Hande Topel) by 42nd FEBS Congress, 2017
  • Travel Award - Advanced Lecture Course on Oncometabolism (for Hande Topel, Yeliz Yılmaz and Ayşim Gunes) by FEBS, 2017
  • Training Fellowship-2 months (Yeliz Yılmaz) by EACR, 2017
  • Young Investigator Award (Ayşim Gunes) by Medical Biology and Genetics Organization, 2017
  • Travel Award for EMBO Workshop on Metabolic Disorders and Liver Cancer (for Aysim Guneş and Yeliz Yılmaz) by EMBO, 2017
  • Short Term Fellowship - Hande Topel, PhD Student by EMBO, 2017
  • Above-Threshold Award by TUBITAK, 2017
  • Altan Günalp Araştırma Ödülü by Tıbbi Biyoloji ve Genetik Kongresi, 2013

Contact

Atabey Lab. on Cancer Biology and Signaling

Research Group Leader

Neşe ATABEY
nese.atabey@ibg.edu.tr
+90 232 299 41 00 (5221)
+9 0232 299 41 72