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3
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Education
2010 - 2015
2010 - 2015Doctorate
Istanbul University, Faculty of Science, Biyoloji/Zooloji, Turkey
2008 - 2010
2008 - 2010Postgraduate
Istanbul University, Fen Bilimleri, Biyoloji, Turkey
2004 - 2008
2004 - 2008Undergraduate
Istanbul University, Faculty of Science, Biyoloji, Turkey
Dissertations
2015
2015Doctorate
Hamsi Balığı (Engraulis encrasicolus, L.) Genom Düzeyinde Doku Spesifik Transkriptom Analizi)
Istanbul University, Faculty of Science, Biyoloji/Zooloji
2010
2010Postgraduate
BAZI KARA MİDYE (MYTILUS GALLOPROVINCIALIS LAMARCK) POPULASYONLARINDA ITS BÖLGESİNE DAYALI GENETİK ÇEŞİTLİLİK
Istanbul University, Faculty of Science, Biyoloji
Foreign Languages
B2 Upper Intermediate
B2 Upper IntermediateEnglish
Research Areas
Life Sciences
Bioinformatics
Biological Information
Molecular Biology and Genetics
Genetic Disorders
Genomics
Natural Sciences
Research Areas Based on Academic Activities
Avesis Research Areas
WoS Research Areas
Scopus Research Areas
Academic Positions
2018 - Present
2018 - PresentAssistant Professor
Istanbul University, Faculty of Science, Depertment of Biology
2011 - 2018
2011 - 2018Research Assistant
Istanbul University, Faculty of Science, Depertment of Biology
Courses
Undergraduate
SİSTEMATİK VE BİYOÇEŞİTLİLİK
Undergraduate
METAMORPHOSIS REGENERATION AND AGING
OMURGALI HAYVANLAR
OMURGALI HAYVANLAR
TÜRKİYE'NİN BİYOÇEŞİTLİLİĞİ II
SİSTEMATİK VE BİYOÇEŞİTLİLİK
ÇEVRE BİYOLOJİSİ ARAŞTIRMALARI I
ÇEVRE BİYOLOJİSİ ARAŞTIRMALARI II
MOLEKÜLER GENETİK
GENETICS
GENOME BIOLOGY
GENETICS
POPÜLASYON GENETİĞİNE GİRİŞ
R İLE BİYOENFORMATİK
Supervised Theses
2023
2023Postgraduate
Hamsi balığında (Engraulis encrasicolus L., 1758) cinsiyetin belirlenmesini düzenleyen genomik lokasyonların tüm genom dizileme yaklaşımıyla belirlenmesi
Eldem V. (Advisor)
S.BARIŞ(Student)
2023
2023Postgraduate
İstilacı zararlı ricania simulans (Walker, 1851) (Hemiptera: ricaniidae) türünün taslak genom dizisinin ortaya konması
Eldem V. (Advisor)
Y.ULAŞ(Student)
Articles
All (40)
SCI-E, SSCI, AHCI (37)
SCI-E, SSCI, AHCI, ESCI (37)
Scopus (38)
TRDizin (3)
Other Publications (1)
2026
20261. Genome-Wide Identification of Candidate Sex-Linked Regions in Engraulis encrasicolus
Çay S. B., Obut O., Çınar Y. U., Balcı M. A., Öğretici T., Dalyan C., et al.
FISHES
, vol.11, no.4, 2026 (SCI-Expanded, Scopus)
2026
20262. LZTR1 Loss Reduces Vimentin Expression and Motility in Hep3B Hepatocellular Carcinoma Cells
Yıldız G., Karabulut S., Uzun U., Obut O., Eldem V., Dinçer T., et al.
INTERNATIONAL JOURNAL OF MOLECULAR SCIENCES
, vol.27, no.4, 2026 (SCI-Expanded, Scopus)
2025
20253. Long-Term Transcriptomic Reprogramming in Peripheral Blood Mononuclear Cells of Severe COVID-19 Survivors Reveals Pro-Oncogenic Signatures and Cancer-Associated Hub Genes
Duru Cetinkaya P., Kayalar O., Eldem V., Argun Baris S., Kokturk N., Kuralay S. C., et al.
VIRUSES-BASEL
, vol.17, no.12, 2025 (SCI-Expanded, Scopus)
2025
20254. Phenotypic plasticity in Mediterranean gorgonians Eunicella singularis and Paramuricea clavata at high temperature and low pH
BELİVERMİŞ M., KILIÇ Ö., ÖZALP H. B., Demiralp S., OKTAYOĞLU S., ELDEM V., et al.
Science of the Total Environment
, vol.990, 2025 (SCI-Expanded, Scopus)
2025
2025
5.
Mortality event of the Mediterranean Invasive Sea Urchin Diadema setosum from Gokova Bay (Southern Aegean Sea)
Demircan M. D., Arslan Aydoğdu E. Ö., Dalyan C., Eldem V., Gönülal O., Tüney Kızılkaya İ.
ESTUARINE COASTAL AND SHELF SCIENCE
, vol.319, 2025 (SCI-Expanded, Scopus)
2025
20256. Dietary phytase and xylanase improves growth performance, intestinal morphometric properties, and metabolic gene expression in rainbow trout (Oncorhynchus mykiss)
YILDIZ M., Ofori-Mensah S., Adabi S. G., METİN Ö., ELDEM V., Kaiza V. E., et al.
AQUACULTURE INTERNATIONAL
, vol.33, no.5, 2025 (SCI-Expanded, Scopus)
2025
20257. De novo genome assembly and annotations of Bombus lapidarius and Bombus niveatus provide insights into the environmental adaptability
Eldem V., Çınar Y. U., Çay S. B., Obut O., Kuralay S. C., Balcı M. A., et al.
APIDOLOGIE
, vol.56, no.1, 2025 (SCI-Expanded, Scopus)
2025
20258. Biosystematics studies of endemic Thlaspi violascens Boiss. and T. densiflorum Boiss. & Kotschy: Highlights on molecular and morphological identification
Karaismailoğlu M. C., Eldem V., İnal B., Balcı M. A.
FLORA
, vol.322, 2025 (SCI-Expanded, Scopus)
2024
20249. The effects of using hydrolyzed feather meal, amino acids, and probiotics in the diet of juvenile rainbow trout on growth, digestibility, and expression of growth-related genes
Metin Ö., Yıldız M., Eldem V., Adabi S. G.
AQUACULTURE INTERNATIONAL
, vol.32, no.7, pp.9671-9693, 2024 (SCI-Expanded, Scopus)
2024
202410. Transcriptome-wide analysis uncovers regulatory elements of the antennal transcriptome repertoire of bumblebee at different life stages
Dikmen F., Dabak T., Özgişi B. D., Özenirler Ç., Kuralay S. C., Çay S. B., et al.
Insect Molecular Biology
, vol.33, no.6, pp.571-588, 2024 (SCI-Expanded, Scopus)
2024
202411. Comparative Transcriptomic Analyses of Peripheral Blood Mononuclear Cells of COVID-19 Patients without Pneumonia and with Severe Pneumonia in the First Year of Follow-Up
Kayalar O., Cetinkaya P. D., Eldem V., Argun Baris S., Kokturk N., Kuralay S. C., et al.
VIRUSES , vol.16, no.8, pp.1-19, 2024 (SCI-Expanded, Scopus)
2024
202412. Deciphering the host genetic factors conferring susceptibility to severe COVID-19 using exome sequencing
Uslu K., Ozcelik F., Zararsiz G., Eldem V., Cephe A., Sahin I. O., et al.
GENES AND IMMUNITY
, vol.25, no.1, pp.14-42, 2024 (SCI-Expanded, Scopus)
2024
202413. Mining NCBI Sequence Read Archive Database: An Untapped Source of Organelle Genomes for Taxonomic and Comparative Genomics Research
Eldem V., Balcı M. A.
DIVERSITY-BASEL
, vol.16, no.2, 2024 (SCI-Expanded, Scopus)
2023
202314. The effects of dietary microbial 6-phytase on growth parameters, intestinal morphometric properties and selected intestinal genes expression in rainbow trout (Oncorhynchus mykiss, Walbaum 1876)
Kaiza V. E., YILDIZ M., ELDEM V., Golzaradabi S., Ofori-Mensah S.
Journal of Animal Physiology and Animal Nutrition
, vol.107, no.6, pp.1517-1529, 2023 (SCI-Expanded, Scopus)
2023
202315. Global expression pattern of genes containing positively selected sites in European anchovy (Engraulis encrasicolus L.) may shed light on teleost reproduction
Eldem V., Zararsız G., Erkan M.
PLOS ONE
, vol.18, no.8, 2023 (SCI-Expanded, Scopus)
2023
202316. Comprehensive analysis of circulating viral DNA in maternal plasma at population-scale using low-pass whole-genome sequencing
Eldem V., Kuralay S. C., Ozdogan G., Ozcelik G. H., Aydin D., Cakmak G., et al.
Genomics
, vol.115, no.2, 2023 (SCI-Expanded, Scopus)
2023
202317. voomSOM: voom-based Self-Organizing Maps for Clustering RNA-Sequencing Data
Cephe A., Koçhan N., Zararsız G. E., Eldem V., Coşgun E., Karabulut E., et al.
CURRENT BIOINFORMATICS
, vol.18, no.2, pp.154-169, 2023 (SCI-Expanded)
2023
202318. Genetic and morphometric comparisons of populations of Lacerta diplochondrodes Wettstein, 1952 (Squamata: Lacertidae) in Türkiye
Kaya N., ÖZULUĞ O., TOSUNOĞLU M., ELDEM V.
Zoology in the Middle East
, vol.69, no.4, pp.355-363, 2023 (SCI-Expanded, Scopus)
2022
202219. Effect of dietary inclusion of camelina or chia oil on fatty acid digestibility, histology, blood biochemistry and molecular biomarkers in juvenile gilthead sea bream (Sparus aurata, L.)
Ofori-Mensah S., Yildiz M., Eldem V., Urku C., Kaplan C.
TURKISH JOURNAL OF FISHERIES AND AQUATIC SCIENCES
, vol.22, no.11, 2022 (SCI-Expanded, Scopus)
2022
202220. Genome skimming approach reveals the gene arrangements in the chloroplast genomes of the highly endangered Crocus L. species: Crocus istanbulensis (B.Mathew) Rukans
Cay S. B., Cinar Y. U., Kuralay S. C., Inal B., Zararsiz G., Ciftci A., et al.
PLOS ONE
, vol.17, no.6, 2022 (SCI-Expanded, Scopus)
2020
202021. Fish oil replacement with different vegetable oils in gilthead seabream, Sparus aurata diets: Effects on fatty acid metabolism based on whole-body fatty acid balance method and genes expression
Ofori-Mensah S., Yıldız M., Arslan M., Eldem V.
AQUACULTURE
, vol.529, 2020 (SCI-Expanded, Scopus)
2020
202022. Substitution of fish oil with camelina or chia oils in gilthead sea bream (Sparus aurata, L.) diets: Effect on growth performance, fatty acid composition, haematology and gene expression
Ofori-Mensah S., Yıldız M., Arslan M., Eldem V., Gelibolu S.
AQUACULTURE NUTRITION
, vol.26, no.6, pp.1943-1957, 2020 (SCI-Expanded, Scopus)
2019
201923. Sodium Arsenic Alters the Gene Expression of some Steroidogenic Genes in TM3 Leydig Cell.
Taşçi T., ELDEM V., ERKAN M. B.
Celal Bayar University Journal of Science , vol.15, no.3, pp.265-270, 2019 (Peer-Reviewed Journal)
2019
201924. MLSeq: Machine learning interface for RNA-sequencing data
GÖKSÜLÜK D., ZARARSIZ G., KORKMAZ S., Eldem V., Zararsiz G. E., Ozcetin E., et al.
COMPUTER METHODS AND PROGRAMS IN BIOMEDICINE
, vol.175, pp.223-231, 2019 (SCI-Expanded, Scopus)
2018
201825. The relationship between phylogenetic classification, virulence and antibiotic resistance of extraintestinal pathogenic Escherichia coli in Izmir province, Turkey
Bozcal E., Eldem V., Aydemir S., Skurnik M.
PEERJ
, vol.6, 2018 (SCI-Expanded, Scopus)
2018
201826. The Relationship Between Blood Pressure and Sleep Duration in Turkish Children: A Cross-Sectional Study
BAL C., ÖZTÜRK A., ÇİÇEK B., Ozdemir A., ZARARSIZ G., ÜNALAN D., et al.
JOURNAL OF CLINICAL RESEARCH IN PEDIATRIC ENDOCRINOLOGY
, vol.10, no.1, pp.51-58, 2018 (SCI-Expanded)
2018
201827. Genome-wide EST-SSR Marker Identification in Red Wiggler Worm Eisenia fetida (Savigny, 1826)
ELDEM V.
Celal Bayar University Journal of Science , vol.14, no.1, pp.135-140, 2018 (Peer-Reviewed Journal)
2017
201728. voomDDA: discovery of diagnostic biomarkers and classification of RNA-seq data
ZARARSIZ G., Goksuluk D., Klaus B., Korkmaz S., Eldem V., KARABULUT E., et al.
PEERJ
, vol.5, 2017 (SCI-Expanded, Scopus)
2017
201729. A comprehensive simulation study on classification of RNA-Seq data
Zararsiz G., Goksuluk D., Korkmaz S., Eldem V., Zararsiz G. E., Duru I. P., et al.
PLOS ONE
, vol.12, no.8, 2017 (SCI-Expanded)
2017
201730. A Quick and Efficient Method for DNA Isolation from Freshwater Ostracods
KUBANÇ S. N., Taşcı T., KUBANÇ C., Özuluğ O., ELDEM V.
Genetics of Aquatic Organisms , vol.1, no.1, pp.1-7, 2017 (Scopus)
2016
201631. Global Transcriptome Analysis Reveals Differences in Gene Expression Patterns Between Nonhyperhydric and Hyperhydric Peach Leaves
Bakir Y., Eldem V., ZARARSIZ G., Unver T.
PLANT GENOME
, vol.9, no.2, 2016 (SCI-Expanded, Scopus)
2016
201632. Theory of room temperature ferromagnetism in Cr modified DNA nanowire
Duru I. P., DEĞER C., Eldem V., Kalayci T., AKTAŞ Ş.
JOURNAL OF PHYSICS D-APPLIED PHYSICS
, vol.49, no.13, 2016 (SCI-Expanded, Scopus)
2016
201633. The complete mitochondrial genome of Alburnus tarichi (Teleostei, Cyprinidae)
Kubanc N., Eldem V., Kubanc C.
Mitochondrial DNA
, vol.27, no.2, pp.1243-1244, 2016 (SCI-Expanded)
2016
201634. Complete mitochondrial genome of Alburnus istanbulensis (Teleostei, Cyprinidae).
Eldem V., Kubanc C., Kubanc N.
Mitochondrial DNA. Part A, DNA mapping, sequencing, and analysis
, vol.27, no.2, pp.1241-2, 2016 (SCI-Expanded, Scopus)
2015
201535. De novo assembly and comprehensive characterization of the skeletal muscle transcriptomes of the European anchovy (Engraulis encrasicolus)
Eldem V., ZARARSIZ G., Erkan M., Bakir Y.
MARINE GENOMICS
, vol.20, pp.7-9, 2015 (SCI-Expanded, Scopus)
2014
201436. Genome-Wide Analysis of the bZIP Transcription Factors in Cucumber
Baloglu M. C., Eldem V., Hajyzadeh M., Unver T.
PLOS ONE
, vol.9, no.4, 2014 (SCI-Expanded, Scopus)
2013
201337. Boron Stress Responsive MicroRNAs and Their Targets in Barley
Ozhuner E., Eldem V., Ipek A., Okay S., Sakcali S., Zhang B., et al.
PLOS ONE
, vol.8, no.3, 2013 (SCI-Expanded, Scopus)
2013
201338. Plant microRNAs: new players in functional genomics
Eldem V., Okay S., Unver T.
TURKISH JOURNAL OF AGRICULTURE AND FORESTRY
, vol.37, no.1, pp.1-21, 2013 (SCI-Expanded)
2012
201239. Genome-Wide Identification of miRNAs Responsive to Drought in Peach (Prunus persica) by High-Throughput Deep Sequencing
Eldem V., Akcay U. C., Ozhuner E., Bakir Y., Uranbey S., Unver T.
PLOS ONE
, vol.7, no.12, 2012 (SCI-Expanded, Scopus)
2012
201240. Micro-RNA Regulation for Boron Toxicity Tolerance in Barley
ÜNVER T., Erkilic E. G., Eldem V., Sakcali S., İPEK A., Uranbey S., et al.
IN VITRO CELLULAR & DEVELOPMENTAL BIOLOGY-ANIMAL
, vol.48, pp.40, 2012 (SCI-Expanded, Scopus)
Papers Presented at Peer-Reviewed Scientific Conferences
2025
20251. Commonly used food emulsifiers disrupt the epithelial barrier and cause a pro-inflammatory response and cell death
Yazici D., Hayashi Y., Pat Y., Ogulur I., Ardicli S., Balci M. A., et al.
European-Academy-of-Allergy-and-Clinical-Immunology (EAACI) Congress, Glasgow, England, 13 - 16 June 2025, vol.80, (Summary Text)
2025
20252. Yemlerde Kullanılan Mikrobiyal 6-Fitaz ve Ksilanazın Gökkuşağı Alabalığında Büyüme Performansına, Et Kalitesine, Yem Kullanımına, Bağırsak Morfometrik Özelliklerine ve Gen Ekspresyonuna Etkileri
Yıldız M., Kaıza V., Eldem V., Metin Ö., Ofori-Mensah S., Karataş Steınum S., et al.
23. Ulusal Su Ürünleri Sempozyumu, Elazığ, Turkey, 23 - 25 September 2025, pp.33, (Full Text)
2025
20253. Hidroliz Tüy Unu ve Probiyotik İçeren Diyetlerin Jüvenil Gökkuşağı Alabalığında Büyüme Performansı, Sindirilebilirlik, Et Kalitesi, Bağırsak H4stolojisi ve Gen Ekspresyonuna Etkisi
Metin Ö., Yıldız M., Eldem V., Adabi S. G.
23. Ulusal Su Ürünleri Sempozyumu, Elazığ, Turkey, 23 - 25 September 2025, pp.48, (Summary Text)
2025
20254. EFFECT OF PROBIOTICS ON RAINBOW TROUT Oncorhynchus mykiss, (WALBAUM, 1792) GAMETE QUALITY
Sayar M., Çınar Y. U., Eldem V., Ekici A.
Aquaculture Europe25, Valencia, Spain, 22 - 25 September 2025, pp.1631-1632, (Full Text)
2024
20245. ANTENNAL TRANSCRIPTOME ANALYSIS AND BEHAVIORAL STUDIES TO DECIPHER THE GENETIC BASIS OF OLFACTION IN BOMBUS TERRESTRIS L.
Dikmen F., Dabak T., Özenirler Ç., Daşer-Özgişi B., Eldem V.
Eurbee 10th Congress of Apidology, Tallinn, Estonia, 16 - 19 September 2024, pp.222, (Summary Text)
2024
20246. CHROMOSOME-SCALE GENOMIC ANALYSIS INSIGHTS INTO LOCAL ADAPTATION AND FUTURE CLIMATE-INDUCED VULNERABILITY OF TWO BUMBLEBEE SPECIES: BOMBUS LAPIDARIUS AND BOMBUS NIVEATUS
Eldem V., Çınar Y. U., Çay S. B., Kuralay S. C., Balcı M. A., Akbaba P., et al.
Eurbee 10th Apidology Congress, Tallinn, Estonia, 16 - 19 September 2024, pp.99, (Summary Text)
2024
20247. Effects of ocean acidification and warming on Mediterranean gorgonians: physiological, transcriptomic, and epigenetic responses
Belivermiş M., Kılıç Ö., Oktayoğlu S., Eldem V., Demiralp S., Şahin B., et al.
European Coral Reef Symposium , Naples, Italy, 2 - 05 July 2024, pp.1, (Full Text)
2024
20248. The multistressor effect of ocean acidification, microplastic and lanthanum on sea urchin Arbacia lixula.
Şahin B., Belivermiş M., Demiralp S., Sezer N., Bektaş S., Eldem V., et al.
PRIMO22, Nantes, France, 26 - 29 May 2024, pp.236, (Summary Text)
2023
20239. Mikrobiyal 6-Fitazın Gökkuşağı Alabalığında (Oncorhynchus mykiss) Büyüme Performansı, Bağırsak Histolojisi ve Gen Ekspresyonuna Etkileri
Yıldız M., Eldem V.
6. BALIK BESLEME VE YEM TEKNOLOJİSİ ÇALIŞTAYI, Antalya, Turkey, 27 - 28 September 2023, pp.22, (Summary Text)
2018
201810. The Comprehensive Characterization of Segmental Duplication in Zebrafish Genome
DİKMEN F., YILDIZBAYRAK N., ELDEM V., ERKAN M. B.
13th International Symposium on Fisheries and Aquatic Sciences (FABA), Ankara, Turkey, 21 - 23 November 2018, pp.81, (Summary Text)
2017
201711. Phylogenetic relationship and virulence properties of extraintestinal pathogenic Escherichia coli
Bozcal E., Eldem V., Aydemir S., Skurnik M.
10th Balkan Congress of Microbiology, Sofia, Bulgaria, 16 - 18 November 2017, pp.17, (Summary Text)
2017
201712. Genomic regions associated with virulence and antibiotic resistance in Extraintestinal Pathogenic Escherichia coli strains Phylogenetic group B2
Bozcal E., Eldem V., Aydemir S., Skurnik M.
7th European Conference on Prokaryotic and Fungal Genomics, Göttingen, Germany, 19 - 22 September 2017, pp.20, (Summary Text)
2016
201613. Whole-Genome Characterization and Composition of European Anchovy (Engraulis Encrasicolus L., 1758)
ELDEM V., Yüksel B., ERKAN M. B., Zararsız G., DİKMEN F., Saraç A., et al.
FABA 2016: International Symposium on Fisheries and Aquatic Sciences, Antalya, Turkey, 3 - 05 November 2016, pp.111-112, (Full Text)
2016
201614. Hamsi balığı (Engraulis Encrasicolus)’nın yumurta gelişiminde rol oynayan genlerin karşılaştırmalı transkriptomik yaklaşım ile belirlenmesi
ELDEM V., AYDIN Y., Yüksel B., ERKAN M. B.
II. Ulusal Su Ürünleri Yetiştiriciliğinde Gamet Biyolojisi Çalıştayı, Muğla, Turkey, 19 - 21 April 2016, pp.1, (Full Text)
2012
201215. İşlevsel Genomiğin Yeni Oyuncusu; Bitki MikroRNA’ları
ÜNVER T., Erkılıç E. G., Özhüner E., Yanık H., Böke H., Hajyzadeh M., et al.
2. Ulusal Moleküler Biyoloji ve Biyoteknoloji Kongresi, Antalya, Turkey, 1 - 04 December 2012, pp.18-19, (Summary Text)
2012
201216. Şeftali (Prunus persica L.)’ de kuraklık stresi ile ilişkili mikroRNA’ ların yeni nesil dizileme teknolojisiyle tanımlanması ve karekterizasyonu
ELDEM V., Bakır Y., Akçay U. Ç., ÜNVER T.
2. Ulusal Moleküler Biyoloji ve Biyoteknoloji Kongresi, Antalya, Turkey, 1 - 04 December 2012, pp.58-59, (Summary Text)
2012
201217. Micro-RNA Regulation for Boron Toxicity Tolerance in Barley
Unver T., ELDEM V.
World Congress on In vitro biology, Washington, United States Of America, 3 - 07 June 2012, vol.48, pp.40, (Full Text)
Books
2026
20261. Investigating and Assessing Diverse Strategies and Classification Techniques Applied in the Integration of Multi-Omics Data
İpekten F., Koçhan N., Ertürk Zararsız G., Doğan H. O., Eldem V., Zararsız G.
in: Big Data Analytics in Biostatistics and Bioinformatics, Yichuan Zhao,Ding-Geng Chen, Editor, Springer Nature Switzerland Ag, Zug, pp.123-145, 2026
2025
20252. Single-Cell Genomics
Balcı M. A., Kuralay S. C., AKSEL E. G., Shahpar Z., KAYALAR Ö., ELDEM V.
in: Springer Handbook of Chem-and Bioinformatics, Leszczynski Jerzy, Editor, Springer Nature, Gewerbestrasse, pp.865-885, 2025
2024
20243. Dual transcriptomics data and host-pathogen interaction detection
Eldem V., Çınar Y. U., Çay S. B., Kuralay S. C., Kayalar Ö., Zararsız G., et al.
in: Systems Biology Approaches for Host-Pathogen Interaction Analysis, Mohd. Tashfeen Ashraf,Abdul Arif Khan,Fahad M. Aldakheel, Editor, Elsevier Science, Oxford/Amsterdam , Massachusetts, pp.190-210, 2024
2023
20234. MicroRNAs and Long Non-coding RNAs as Key Targets
Obut O., Akbaba P., Balcı M. A., Bakır Y., Eldem V.
in: Oncology: Genomics, Precision Medicine and Therapeutic Target, Hardeep Singh Tuli,Mükerrem Betül Yerer Aycan, Editor, Springer Nature, Singapore, pp.39-76, 2023
2023
20235. Best Practices of Feature Selection in Multi-Omics Data
İpekten F., ERTÜRK ZARARSIZ G., DOĞAN H. O., ELDEM V., ZARARSIZ G.
in: Encyclopedia of Data Science and Machine Learning, John Wang, Editor, IGI Global, pp.2045-2059, 2023
2023
20236. Class Discovery, Comparison, and Prediction Methods for RNA-Seq Data
CEPHE A., KOÇHAN N., ERTÜRK ZARARSIZ G., ELDEM V., ZARARSIZ G.
in: Encyclopedia of Data Science and Machine Learning, John Wang, Editor, IGI Global, pp.2060-2084, 2023
2017
20177. Transcriptome Analysis for Non-Model Organism: Current Status and Best-Practices
ELDEM V., Zararsız G., Taşçi T., Duru İ. P., Bakır Y., ERKAN M. B.
in: Applications of RNA-Seq and Omics Strategies - From Microorganisms to Human Health, March F.A.,Cirillo P.D.R.,Mateo E.C, Editor, Intech, Rijeka, pp.55-77, 2017
2017
20178. Transcriptome Analysis for Non-Model Organism: Current Status and Best-Practices
ELDEM V., Zararsız G., Taşçi T., Duru İ. P., Bakır Y., ERKAN M. B.
in: Applications of RNA-Seq and Omics Strategies - From Microorganisms to Human Health, March F.A.,Cirillo P.D.R.,Mateo E.C, Editor, Intech, Rijeka, pp.55-77, 2017
2017
20179. Diluted Magnetic DNA Nanowires
Değer C., ELDEM V., Duru İ. P.
in: Nanowires - New Insights, Maaz K., Editor, Intech, Rijeka, pp.189-207, 2017
2015
201510. Antimicrobial Polypeptides in the Control of Plant Pathogenic Bacteria
ELDEM V.
in: Sustainable Approaches to Controlling Plant Pathogenic Bacteria, Kannan R.V., Bastas K.K., Editor, Crc Press, Florida, pp.123-148, 2015
2013
201311. Drosophila'da Eksen Spesifikasyonunun Genetiği
ELDEM V.
in: Gelişim Biyolojisi, "Erkan M.", "İrez T.", Editor, Nobel Tıp Kitapevi, İstanbul, pp.203-237, 2013
2013
201312. Kuşlar ve Memeliler: Erken Gelişim ve Eksen Oluşumu
ELDEM V.
in: Gelişim Biyolojisi, "Erkan M.", "İrez T.", Editor, Nobel Tıp Kitapevi, İstanbul, pp.287-319, 2013
Other Publications
2014
20141. Machine learning interface for RNA-Seq data
Zararsiz G., Goksuluk D., Korkmaz S., ELDEM V., Duru I. P., Unver T., et al.
Other, pp.1-10, 2014
Funded Projects
2018 - Present
2018 - PresentVan Gölü İnci Kefali Genom Projesi Kapsamında İnci Kefali Balığının (Chalcalburnus tarichi) Genom ve Transkriptom Düzeylerinde Karakterizasyonu
TUBITAK Project
ELDEM V.
2023 - 2026
2023 - 2026
Konya Kapalı Havzası Akarsularında İklim Değişikliği ve Su Kullanımı Kaynaklı Hidrolojik Bağlanırlıktaki Kesintilerin Sucul Canlılar Üzerine Etkisi
TUBITAK Project , 1001 - Program for Supporting Scientific and Technological Research Projects
Eldem V.
2022 - 2025
2022 - 2025
Okyanus asitlenmesi ve ısınmasının Çanakkale Boğazı mercanlarına etkileri üzerine laboratuvar çalışmaları
Project Supported by Higher Education Institutions , BAP Research Project
BELİVERMİŞ M. (Executive), KILIÇ Ö., OKTAYOĞLU S., GÖNÜLAL O., ÖZALP H. B., ELDEM V., et al.
2022 - 2025
2022 - 2025Investigation of the effects of brassinosteroid application on microplastic and cadmium phytoremediation in Azolla at physiological, biochemical and molecular level
TUBITAK Project , 1001 - Program for Supporting Scientific and Technological Research Projects
(Project Abstract)
Kösesakal T. (Executive), Gerçek Y. C., Eldem V., Şen A.
2020 - 2025
2020 - 2025Bombus Latreille 1802 Apidae Hymenoptera cinsinde Kısa ve Uzun Dile Sahip türlerin Anten Kemosensör Reseptör Transktriptom Profillerinin karşılaştırılması
Project Supported by Higher Education Institutions , BAP Research Project
DİKMEN F. (Executive), ELDEM V., DABAK T., DAŞER ÖZGİŞİ B.
2023 - 2024
2023 - 2024Bombus niveatus tür kompleksinin taksonomik durumunun mitokondriyal 16S rRNA ve nüklear fosfoenolpiruvat karboksikinaz PEPCK ile elongasyon faktör 1 alfaEF1 gen dizileri ile aydınlatılması
Project Supported by Higher Education Institutions , BAP Other
ELDEM V. (Executive), ALTUNDAĞ G., KALELİ K., ÖĞRETİCİ T.
2023 - 2024
2023 - 2024Kemikli Balıklarda Ovaryum ve Kas Gelişiminden Sorumlu Gen İfade Ağının RNASeq Yöntemi ile Ortaya Konulması
Project Supported by Higher Education Institutions , BAP MSc
ELDEM V. (Executive), AKBABA P.
2023 - 2024
2023 - 2024Nanopor Temelli Dizileme yöntemiyle Kronik Obstrüktif Akciğer Hastalığında kapsamlı Dairesel RNA Profillemesi
Project Supported by Higher Education Institutions , BAP MSc
ELDEM V. (Executive), OBUT O.
2023 - 2023
2023 - 2023Büyük ölçekli prenatal test genomik verilerinden Türk popülasyonunun genetik profilinin ortaya konulması
Project Supported by Higher Education Institutions , BAP MSc
ELDEM V. (Executive), KURALAY S. C., ZARARSIZ G.
2022 - 2023
2022 - 2023İstilacı zararlı Ricania simulans Walker 1851 Hemiptera Ricaniidae türünün taslak genom dizisinin ortaya konması
Project Supported by Higher Education Institutions , BAP MSc
ELDEM V. (Executive), ÇINAR Y. U.
2022 - 2023
2022 - 2023Hamsi balığında (Engraulis encrasicolus L., 1758) cinsiyetin belirlenmesini düzenleyen genomik lokasyonların tüm genom dizileme yaklaşımıyla belirlenmesi
Project Supported by Higher Education Institutions , BAP MSc
ELDEM V. (Executive), ÇAY S. B.
2021 - 2023
2021 - 2023Alternatif Proteinlerle Beslenen Juvenil Çipura Balıklarının (Sparus aurata) Gen Ekspresyonunun İncelenmesi
Project Supported by Higher Education Institutions , BAP Research Project
YILDIZ M. (Executive), OFORI-MENSAH S., DAMIR N., ELDEM V.
2021 - 2023
2021 - 2023Ekonomik ve ekolojik öneme sahip Bombus Apidae Hymenoptera arılarının korunmasına moleküler perspektif Nesli tehdit altındaki dört bombus türünün tüm genom dizilemesi
Project Supported by Higher Education Institutions , BAP Research Project
ELDEM V. (Executive), DİKMEN F., DAŞER ÖZGİŞİ B., ÖZENİRLER Ç., ÇAY S. B., ZARARSIZ G., et al.
2020 - 2022
2020 - 2022Hamsi balığı (Engraulis encrasicolus L. 1758) genom iskelet dizilerinin tek tüp uzun fragment okuma (stLFR) teknolojisi ile oluşturulması
Project Supported by Higher Education Institutions , BAP Research Project
ELDEM V. (Executive), DİKMEN F.
2018 - 2022
2018 - 2022Çalı ve ağaçsı Cerasus sensu Browicz taksonlarının RADSeq yöntemiyle genom düzeyinde SNP profiline dayalı olarak genotiplendirilmesi ve filogenetik analizleri
Project Supported by Higher Education Institutions , BAP Research Project
EROL O. (Executive), ELDEM V., ÖZ G., GERÇEK Y. C., GEMİCİOĞLU A., MORGİL H.
2018 - 2021
2018 - 2021Bitkisel Yağ İçeren Yemlerle Beslenen Juvenil Çipura Balığının (Sparus aurata) Gen Ekspresyonunun İncelenmesi
Project Supported by Higher Education Institutions , BAP Research Project
YILDIZ M. (Executive), OFORI-MENSAH S., ELDEM V., ARSLAN M.
2018 - 2020
2018 - 2020Azolla nın işlevsel karakterizasyonu ve de novo transkriptom inşası
Project Supported by Higher Education Institutions , BAP Research Project
KÖSESAKAL T. (Executive), ELDEM V.
2018 - 2020
2018 - 2020Hamsi Balığı (Engraulis encrasicolus L., 1758) Genomunun Mate-Pair Dizileme Yaklaşımı ile Geliştirilmesi
TUBITAK Project , 3001 - Initial R&D Projects Support Program
ELDEM V. (Executive), Korkmaz S.
2017 - 2018
2017 - 2018Kemikli Balıklarda Transkripsiyon Faktör Kompozisyonunun Belirlenmesi
Project Supported by Higher Education Institutions , BAP Other
ELDEM V. (Executive)
2016 - 2017
2016 - 2017İntestinal sistem dışı patojenik Escherichia coli (ExPEC) suşlarında virülans ilişkili yeni genomik adaların in silico karşılaştırmalı genomiks ile araştırılması
Project Supported by Higher Education Institutions , BAP Research Project
BOZÇAL DAĞDEVİREN E. (Executive), SKURNIK M., ELDEM V., AYDEMİR S. Ş.
2014 - 2017
2014 - 2017Hamsi balığı (Engraulis encrasicolus L., 1758)' nın genom karakteri ve kompozisyonunun araştırılması
Project Supported by Higher Education Institutions , BAP Guided
ERKAN M. B. (Executive), ELDEM V., ORTA YILMAZ B., AYDIN Y.
2016 - 2016
2016 - 2016Bazı Tatlı Su Ostracodlarında DNA İzolasyon Yönteminin Geliştirilmesi
Project Supported by Higher Education Institutions , BAP Other
KUBANÇ C. (Executive), KUBANÇ S. N., ARTÜZ L., ELDEM V., SÖNMEZ B.
2016 - 2016
2016 - 2016B16F10 hücre soyunda optimal melanogenez evresinin belirlenmesi
Project Supported by Higher Education Institutions , BAP Other
ELDEM V. (Executive), HAJYZADEH M., BALOĞLU M. C., ÜNVER T.
2013 - 2015
2013 - 2015Hamsi Balığı (Engraulis encrasicolus L., 1758)?nın Genom Düzeyinde Doku Spesifik transkriptom Analizi
Project Supported by Higher Education Institutions , BAP PhD
ERKAN M. B. (Executive), ELDEM V.