Cakan Lab. on Zebrafish Models
Overview
Zebrafish is a widely used, robust vertebrate model that is accessible for genetic modification, well suited for imaging, easy to manipulate, has a short generation time and low cost. Zebrafish has been increasingly used for disease modeling and cancer studies, and it has come forward as an attractive model for drug discovery and personalized medicine studies in recent years. Our group aims to develop novel zebrafish models and technology that will contribute to the zebrafish reseach mainly in the field of disease research and personalized medicine.
Disease Models
CANCER MODELS:
Zebrafish tumors are strikingly similar to human tumors both genetically and pathologically. We generate zebrafish “humanized tumors” by overexpression of human oncogenes in selected tissues such as melanocytes and liver. Various genetic tools allow us to create time and space controlled expression of such oncogenes, in significantly shorter time and reduced cost than rodent models. Xenotrasnplantation of human cancer cells to zebrafish host is another technology we use to facilitate cancer studies. We apply and improve this technology to study cancer metastasis, angiogenesis and drug response. In long term we aim to develop robust patient derived xenografts (PDX) methodology and use it as a tool for personalized medicine in collaboration with local oncologists.
RARE DISEASE MODELS:
Zebrafish offers several advantages for rare disease modeling, and drug discovery. We are using CRISPR/Cas9 technology to generate mutations in disease genes. We collaborate with clinicians to generate genetic models of rare diseases in zebrafish. We are particularly interested in diseases that are more common in Turkey due to consanguinity.
The Group
Group Members
Cakan Lab. on Zebrafish Models
Research Group Leader
Gülçin ÇAKAN AKDOĞAN
gulcin.cakan@ibg.edu.tr
+90 232 299 41 00
(5261)
+9
02322994142
Emine GELİNCİ
R&D Personnel
emine.gelinci@ibg.edu.tr
+90 232 299 41
00
(5262)
Merve BAŞOL
PhD Student
merve.basol@ibg.edu.tr
Büşra KORKMAZ
Researcher
busra.korkmaz@ibg.edu.tr
Helin ÖZAKTAŞ
MSc Student
helin.ozaktas@ibg.edu.tr
Özlem EREZ
Researcher
ozlem.erez@ibg.edu.tr
Gülten KURU
Post-Doc Researcher
gulten.kuru@ibg.edu.tr
Yeşim YOLDAŞ
Undergraduate Student
None
Günay ATILKAN
Cleaning Personnel
gunay.atilkan@ibg.edu.tr
Former Members
Mehmet Can KILIÇ
Undergraduate Student
mehmetcan.kilic@msfr.ibg.edu.tr
Meryem ÖZAYDIN
Care Taker
meryem.ozaydin@ibg.edu.tr
Esra ERSÖZ GÜLSEVEN
MSc Student
esra.ersoz@ibg.edu.tr
Merve BAŞOL
MSc Student
merve.basol@ibg.edu.tr
Büşra KORKMAZ
Visiting Student
busra.korkmaz@ibg.edu.tr
Ebru ÖNAL
MSc Student
ebru.onal@ibg.edu.tr
Ekin DEMİRBAŞ
MSc Student
ekin.demirbas@msfr.ibg.edu.tr
Khalid ABDALLA
Researcher
khalid.abdalla@ibg.edu.tr
Ebru ÖNAL
MSc Student
ebru.onal@ibg.edu.tr
Çiğdem KARAKOYUN
Post-Doc Researcher
cigdem.karakoyun@ibg.edu.tr
Meryem ÖZAYDIN
Care Taker
meryem.ozaydin@ibg.edu.tr
Ege Seray CEYHAN
Undergraduate Student
seray.ceyhan@msfr.ibg.edu.tr
Muhammet MEMON
PhD Student
muhammet.memon@msfr.ibg.edu.tr
Neşe BAYSAN
MSc Student
nese.baysan@msfr.ibg.edu.tr
Metehan GÜZELKAYA
Undergraduate Student
metehan.guzelkaya@ibg.edu.tr
Sude GÜNEŞ
Undergraduate Student
sude.gunes@msfr.ibg.edu.tr
Neşe BAYSAN
MSc Student
nese.baysan@msfr.ibg.edu.tr
Rabia ALTINTAŞ
Undergraduate Student
rabia.altintas@ibg.edu.tr
Ebru ÖNAL
Researcher
ebru.onal@ibg.edu.tr
Sümeyra Çiğdem SÖZER
PhD Student
sumeyra.sozer@ibg.edu.tr
Helin ÖZAKTAŞ
Undergraduate Student
helin.ozaktas@ibg.edu.tr
Olga ESTEVES VAZQUEZ
PhD Student
None
Özlem EREZ
Visiting Researcher
ozlem.erez@ibg.edu.tr
Ebru ÖNAL
MSc Student
ebru.onal@ibg.edu.tr
Serhat SONGÖREN
MSc Student
serhat.songoren@ibg.edu.tr
Özlem EREZ
Technician
ozlem.erez@ibg.edu.tr
Esra ERSÖZ GÜLSEVEN
Researcher
esra.ersoz@ibg.edu.tr
Ecem SAYGILI
Visiting Researcher
ecem.saygili@ibg.edu.tr
Özlem EREZ
Technician
ozlem.erez@ibg.edu.tr
Güneş TOK
MSc Student
gunes.tok@ibg.edu.tr
Mehmet Cem ÖZKAN
Undergraduate Student
cem.ozkan@ibg.edu.tr
Sezin ÇAKAL
MSc Student
sezin.cakal@ibg.edu.tr
Rana ACAR
Visiting Student
rana.acar@ibg.edu.tr
Zeynep AKÇOR
Undergraduate Student
zeynep.akcor@ibg.edu.tr
Ayşenur ÇOBAN
Care Taker
aysenur.coban@ibg.edu.tr
Selected Publications
Lucena MI, Villanueva-Paz M, Alvarez-Alvarez I, Aithal GP, Björnsson ES, Cakan-Akdogan G, Cubero FJ, Esteves F, Falcon-Perez JM, Fromenty B, Garcia-Ruiz C, Grove JI, Konu O, Kranendonk M, Kullak-Ublick GA, Miranda JP, Remesal-Doblado A, Sancho-Bru P, Nelson L, Andrade RJ, Daly AK, Fernandez-Checa JC. Roadmap to DILI research in Europe. A proposal from COST action ProEuroDILINet.. Pharmacological research. 2024 February ; 200 : 107046. doi:10.1016/j.phrs.2023.107046. Download
Argitekin E, Ersoz-Gulseven E, Cakan-Akdogan G, Akdogan Y. Dopamine-Conjugated Bovine Serum Albumin Nanoparticles Containing pH-Responsive Catechol-V(III) Coordination for In Vitro and In Vivo Drug Delivery.. Biomacromolecules. 2023 August ; 24 (8) : 3603-3618. doi:10.1021/acs.biomac.3c00363. Download
Guzelkaya M, Onal E, Gelinci E, Kumral A, Cakan-Akdogan G. A zebrafish model for studying the mechanisms of newborn hyperbilirubinemia and bilirubin-induced neurological damage.. Frontiers in cell and developmental biology. 2023 November ; 11 : 1275414. doi:10.3389/fcell.2023.1275414. Download
Arslan M, Karadag M, Onal E, Gelinci E, Cakan-Akdogan G, Kalyoncu S. Effect of non-repetitive linker on in vitro and in vivo properties of an anti-VEGF scFv.. Scientific reports. 2022 March ; 12 (1) : 5449. doi:10.1038/s41598-022-09324-4. Download
Yasar Akdogan, Sumeyra Cigdem Sozer , Cansu Akyol , Merve Basol , Cigdem Karakoyun, Gulcin Cakan-Akdogan*. Synthesis of albumin nanoparticles in a water-miscible ionic liquid system, and their applications for chlorambucil delivery to cancer cells. Journal of Molecular Liquids. 2022 December ; 367 (Part B) : 120575. doi:10.1016/j.molliq.2022.120575. Download
Gulcin Cakan-Akdogan*, Esra Ersoz, Emine Gelinci. An in vivo zebrafish model reveals circulating tumor cell targeting capacity of serum albumin nanoparticles. Journal of Drug Delivery Science and Technology. 2022 September ; 75 : 103658. doi:10.1016/j.jddst.2022.103658. Download
Evin Iscan, Umut Ekin, Gokhan Yildiz, Ozden Oz, Umur Keles, Aslı Suner, Gulcin Cakan-Akdogan, Gunes Ozhan, Marta Nekulova, Borivoj Vojtesek, Hamdiye Uzuner, Gökhan Karakülah, Hani Alotaibi and Mehmet Ozturk. TAp73β Can Promote Hepatocellular Carcinoma Dedifferentiation. Cancers. 2021 February ; 13 (4) : 783. doi:10.3390/cancers13040783. Download
Saniye Gul Kaya, Seniz Inanc-Surer, Gulcin Cakan-Akdogan, Gulgun Oktay, Canan Asli Utine, Sibel Kalyoncu. Roles of matrix metalloproteinases in the cornea: A special focus on macular corneal dystrophy. Medicine in Drug Discovery. 2021 September ; 11 : 100095. doi:10.1016/j.medidd.2021.100095. Download
Gurer DC, Erdogan İ, Ahmadov U, Basol M, Sweef O, Cakan-Akdogan G, Akgül B. Transcriptomics Profiling Identifies Cisplatin-Inducible Death Receptor 5 Antisense Long Non-coding RNA as a Modulator of Proliferation and Metastasis in HeLa Cells.. Frontiers in cell and developmental biology. 2021 August ; 9 : 2248. doi:10.3389/fcell.2021.688855. Download
Sumeyra Cigdem Sozer, Tugce OZmen Egesoy, Merve Basol, Gulcin Cakan-Akdogan, Yasar Akdogan. A simple desolvation method for production of cationic albumin nanoparticles with improved drug loading and cell uptake. Journal of Drug Delivery Science and Technology. 2020 December ; 60 : 101931. doi:10.1016/j.jddst.2020.101931. 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
Begüm Demirkurt, Gulcin Cakan-Akdogan, Yasar Akdogan. Preparation of albumin nanoparticles in water-in-ionic liquid microemulsions. Journal of Molecular Liquids. 2019 December ; 295 : 117713. doi:10.1016/j.molliq.2019.111713. 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
Moraru A, Cakan-Akdogan G, Strassburger K, Males M, Mueller S, Jabs M, Muelleder M, Frejno M, Braeckman BP, Ralser M, Teleman AA. THADA Regulates the Organismal Balance between Energy Storage and Heat Production. Developmental cell. 2017 April ; 41 (1) : 72-81.e6. doi:10.1016/j.devcel.2017.03.016. Download
Akdogan Y, Emrullahoglu M, Tatlidil D, Ucuncu M, Cakan-Akdogan G. EPR studies of intermolecular interactions and competitive binding of drugs in a drug-BSA binding model. Physical chemistry chemical physics : PCCP. 2016 August ; 18 (32) : 22531-9. doi:10.1039/c6cp04137j. Download
Karakus, Erman; Cakan-Akdogan, Gulcin; Emrullahoglu, Mustafa. A guanidinium modified rhodamine-based fluorescent probe for in vitro/vivo imaging of gold ions. ANALYTICAL METHODS. 2015 ; 7 (19) : 8004-8008. doi:10.1039/c5ay01581b. Download
Pallares-Cartes C, Cakan-Akdogan G, Teleman AA. Tissue-specific coupling between insulin/IGF and TORC1 signaling via PRAS40 in Drosophila. Developmental cell. 2012 January ; 22 (1) : 172-82. doi:10.1016/j.devcel.2011.10.029. Download
Lecaudey V, Cakan-Akdogan G, Norton WH, Gilmour D. Dynamic Fgf signaling couples morphogenesis and migration in the zebrafish lateral line primordium. Development (Cambridge, England). 2008 August ; 135 (16) : 2695-705. doi:10.1242/dev.025981. Download
Total : 18
Selected Book Chapters
Zebra Balığı Kanser Modelleri ve Kişiselleştirilmiş Tıp Uygulamaları (2023). Zebra Balığının Model Organizma Olarak Kullanımı. Türkiye Klinikleri.
Total : 1
Selected Proceedings
Merve Arslan, Gulcin Cakan-Akdogan, Sibel Kalyoncu 2019, 'Antibody Engineerıng Approaches on Vernier Zone Residues to Develop Biobetter Antibody Therapeutics for Cancer Treatment', 2nd International Cancer & Ion Channels Congress, İzmir, Sept. 22, 2019 .
Total : 1
Projects
The Scientific and Technological Research Council of Turkey - TUBITAK - RD : Development of next-generation recombinant antibody fragments against VEGF for cancer therapy., Ongoing
The Scientific and Technological Research Council of Turkey - TUBITAK - RD : Target Specific Pan-Cancer Therapies (PAN-TER), 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
The Scientific and Technological Research Council of Turkey - TUBITAK - RD : Su / iyonik sıvı mikroemülsiyonları içerisinde ilaç yüklü albümin nanoparçacıkların sentezi, karakte, Ongoing
The Scientific and Technological Research Council of Turkey - TUBITAK - RD : Zebra balığı mikroçevresinde meme ve melanoma kanseri hücrelerinin metastatik biyodağılımının haritalanması, Pre Submitted
Health Institutes of Turkey- TUSEB - RD : Zebrafish Patient Derived Xenograft Test for Personalized Medicine Applications in Ovarian Cancer Treatment, Funded, Not Started
European Union - RD : Halt-RONIN: Discovering chronic inflammation biomarkers that define key stages in the Healthy-to-NASH (non-alcoholic steatohepatitis) transition to inform early prevention and treatment strategies, Ongoing
Open Positions
We have open positions for researcher and research technician to work on newly fundend Horizon 2020 project. Candidates interested in liver diseases and zebrafish technology development shall send an email with CV, motivation letter and transcripts until 15.01.2023
Contact
Cakan Lab. on Zebrafish Models
Research Group Leader
Gülçin ÇAKAN AKDOĞAN
gulcin.cakan@ibg.edu.tr
+90 232 299 41 00
(5261)
+9
02322994142