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 0 (232) 299 41 72

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

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


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


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


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


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


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


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


Çağla NİĞDE Undergraduate Student  cagla.nigde@msfr.ibg.edu.tr


News

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


Selected Publications

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.

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.

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.

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

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.

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.

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.

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.

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.

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.

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.

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.

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.

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.

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.

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.

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.

Total : 17

Selected Book Chapters

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

Total : 1

Projects

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

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

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

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

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

Open Positions

Open Post Doc Position

We are seeking for an enthusiastic and skilled post-doctoral fellow in cell biology and biochemistry to join to Neşe Atabey team at Izmir Biomedicine and Genome Center (http://ibg.edu.tr/research/research-groups/atabey-lab/). The post will suit ambitious and talented individuals who are interested in applying their skills in cancer biology.

About the Lab

Our team have focused on signaling pathways that modulate the growth, motility, and invasion of hepatocellular carcinoma (HCC) and using this molecular knowledge to improve the diagnosis and treatment of HCC. Our aim is to understand the molecular mechanisms behind the aggressive behavior and drug resistance in HCC and to translate this molecular knowledge to improve diagnosis and treatment.

Job Description

The project, funded by TUBİTAK, evolves around signaling pathways responsible in tumor metastasis. The applicant should have background in cell biology. It is essential that the candidate has direct working experience with protein biochemistry and high batch protein expression and isolation, protein chromatography. Expertise with computational biology tools will be preferred.

Requirements

The post requires good communication, attention to detail, good organizational skills and computer skills. You will be expected to be highly motivated and dynamic in pursing your goals, extremely accurate in recording data and will be supervised by the principal investigator Dr. Nese Atabey.

Person specification

PhD in a relevant discipline (e.g. genetics, molecular biology, biochemistry and medical biology).

Undergraduate degree preferably in biological science.

Strong knowledge of molecular and/or cellular biology.

Demonstrable range of skills in protein biology.

Strong scientific ethics.

Highly developed communication skills (in Turkish and English) to engage effectively with a wide-ranging audience, both orally and in writing, using a range of media.

Experience in data presentation and statistical analyses.

Highly self-motivated, hard-working and enthusiastic, with a keen desire to produce high quality scientific data.

Flexible and co-operative.

Further information and how to apply

The position is a full-time position at IBG for 24 months. The review of applicants will begin on 11.09.2020 until the position is filled. The position is expected to start in 05.10.2020 or otherwise agreed. For additional information and for the application please contact Peyda Korhan (peyda.korhan@ibg.edu.tr). The application should include:

-A personal cover letter explaining why you are interested in the position, your motivation to develop an expertise in cancer biology and how you meet the criteria outlined in the job description.

- Please include the name and contact details of 2-3 academic references.

- Your detailed CV that documents your academic education achievements, and publications as well as previous employment.

- Other relevant documentation you wish to include in support of your application.

We offer

State-of-the-art facilities of Izmir Biomedicine and Genome Center 

Salary is funded by TÜBİTAK Project as TÜBİTAK offering for post doctoral fellow

Having chance to attend national/international conferences, workshops, external and internal seminars

Opportunity to be a part of international collaborative projects

Working with a supportive and motivated team in friendly environment

Highly versatile research atmosphere at Atabey’s Lab in IBG but also interaction with teams at Dokuz Eylül University and Ege University Hospital

Izmir is a multicultural, socially dynamic city with favorable climate, rich history and modern lifestyle

Awards

  • 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 0 (232) 299 41 72