Publications & Works

Articles Published in Journals That Entered SCI, SSCI and AHCI Indexes

Computational prediction of microRNAs in Histoplasma capsulatum

SAÇAR DEMİRCİ M. D.
MICROBIAL PATHOGENESIS, vol.148, 2020 (Journal Indexed in SCI) identifier identifier identifier

Computational analysis of microRNA-mediated interactions in SARS-CoV-2 infection

SAÇAR DEMİRCİ M. D. , ADAN A.
PEERJ, vol.8, 2020 (Journal Indexed in SCI) identifier identifier

MicroRNA prediction based on 3D graphical representation of RNA secondary structures

SAÇAR DEMİRCİ M. D.
TURKISH JOURNAL OF BIOLOGY, vol.43, no.4, pp.274-286, 2019 (Journal Indexed in SCI) Creative Commons License identifier identifier identifier

The Expressed MicroRNA-mRNA Interactions of Toxoplasma gondii

Acar I. E. , SAÇAR DEMİRCİ M. D. , Gross U., Allmer J.
FRONTIERS IN MICROBIOLOGY, vol.8, 2018 (Journal Indexed in SCI) identifier identifier identifier

On the performance of pre-microRNA detection algorithms

SAÇAR DEMİRCİ M. D. , Baumbach J., Allmer J.
NATURE COMMUNICATIONS, vol.8, 2017 (Journal Indexed in SCI) identifier identifier identifier

Delineating the impact of machine learning elements in pre-microRNA detection

SAÇAR DEMİRCİ M. D. , Allmer J.
PEERJ, vol.5, 2017 (Journal Indexed in SCI) identifier identifier identifier

The impact of feature selection on one and two-class classification performance for plant microRNAs

Khalifa W., Yousef M., SAÇAR DEMİRCİ M. D. , Allmer J.
PEERJ, vol.4, 2016 (Journal Indexed in SCI) identifier identifier identifier

Machine Learning Methods for MicroRNA Gene Prediction

Sacar M. D. , Allmer J.
MIRNOMICS: MICRORNA BIOLOGY AND COMPUTATIONAL ANALYSIS, vol.1107, pp.177-187, 2014 (Journal Indexed in SCI) Creative Commons License identifier identifier identifier

Articles Published in Other Journals

Circular RNA-MicroRNA-MRNA interaction predictions in SARS-CoV-2 infection

DEMİRCİ Y. M. , SAÇAR DEMİRCİ M. D.
JOURNAL OF INTEGRATIVE BIOINFORMATICS, vol.18, no.1, pp.45-50, 2021 (Journal Indexed in ESCI) identifier identifier identifier

COMPUTATIONAL IDENTIFICATION OF MICRORNAS FROM SSDNA VIRUSES

SAÇAR DEMİRCİ M. D.
Eskişehir Technical University Journal of Science and Technology A - Applied Sciences and Engineering, vol.19, no.3, pp.565-573, 2018 (Other Refereed National Journals)

Improving the Quality of Positive Datasets for the Establishment of Machine Learning Models for pre-microRNA Detection

SAÇAR DEMİRCİ M. D. , Allmer J.
JOURNAL OF INTEGRATIVE BIOINFORMATICS, vol.14, no.2, 2017 (Journal Indexed in ESCI) identifier identifier identifier

A Machine Learning Approach for MicroRNA Precursor Prediction in Retro transcribing Virus Genomes

SAÇAR DEMİRCİ M. D. , TOPRAK M., ALLMER J.
Journal of Integrative Bioinformatics, vol.13, no.5, 2016 (Refereed Journals of Other Institutions)

Feature Selection Has a Large Impact on One Class Classification Accuracy for MicroRNAs in Plants

YOUSEF M., SAÇAR DEMİRCİ M. D. , KHALIFA W., ALLMER J.
Advances in Bioinformatics, vol.2016, pp.1-6, 2016 (Refereed Journals of Other Institutions)

Computational Prediction of MicroRNAs from Toxoplasma gondii Potentially Regulating the Hosts Gene Expression

SAÇAR M. D. , BAĞCI C., ALLMER J.
GENOMICS PROTEOMICS BIOINFORMATICS, vol.12, no.5, pp.228-238, 2014 (Refereed Journals of Other Institutions)

Can MiRBase Provide Positive Data for Machine Learning for the Detection of MiRNA Hairpins

SAÇAR M. D. , Hamzeiy H., ALLMER J.
Journal of Integrative Bioinformatics, vol.10, no.2, 2013 (Refereed Journals of Other Institutions)

Refereed Congress / Symposium Publications in Proceedings

MiRNomics: miRNA biyolojisi ve bilişimsel analizi

SAÇAR DEMİRCİ M. D.
V. Yaşam Bilimleri Kongresi, Kayseri, Turkey, 21 - 22 February 2020

Challenges of Big Data in Machine Learning Based MicroRNA Analysis

SAÇAR DEMİRCİ M. D.
12. Tıp Bilişimi Kongresi, Ankara, Turkey, 15 - 16 November 2019

MicroRNAs: small regulators of gene expression

SAÇAR DEMİRCİ M. D.
64. Jahrestagung der Deutschen Gesellschaft für Medizinische Informatik, Biometrie und Epidemiologie e. V. (GMDS) - Medical Omics Workshop, Dortmund, Germany, 8 - 11 September 2019

Analyzing potential targets of viral microRNAs in human

SAÇAR DEMİRCİ M. D.
The International Symposium on Health Informatics and Bioinformatics, (HIBIT 2018), Antalya, Turkey, 25 - 27 October 2018

izMiR 2.0: an enhanced version of consensus miRNA prediction method

SAÇAR DEMİRCİ M. D. , ALLMER J.
The International Symposium on Health Informatics and Bioinformatics, (HIBIT 2018), Antalya, Turkey, 25 - 27 October 2018

A Machine Learning Approach for MicroRNA Precursor Prediction in Retro transcribing Virus Genomes

SAÇAR DEMİRCİ M. D. , TOPRAK M., ALLMER J.
International Symposium on Integrative Bioinformatics 2016, Bielefeld, Germany, 21 - 23 September 2016

Data mining for microrna gene prediction On the impact of class imbalance and feature number for microrna gene prediction

SAÇAR M. D. , ALLMER J.
2013 8th International Symposium on Health Informatics and Bioinformatics, Ankara, Turkey, Turkey, 25 - 27 September 2013

Comparison of Four Ab Initio MicroRNA Prediction Tools

ALLMER J., SAÇAR M. D.
Proceedings of the International Conference on Bioinformatics Models, Methods and Algorithms, Barcelona, Spain, 11 - 14 February 2013 identifier

Books & Book Chapters

Computational Prediction of Functional MicroRNA–mRNA Interactions

SAÇAR DEMİRCİ M. D. , Yousef M., ALLMER J.
in: Computational Biology of Non-Coding RNA, Lai Xin, Gupta Shailendra K., Vera Julio, Editor, Humana Press, New York, pp.175-196, 2019

Differential Expression of Toxoplasma gondii MicroRNAs in Murine and Human Hosts

SAÇAR DEMİRCİ M. D. , Bağcı C., ALLMER J.
in: Non coding RNAs and Inter kingdom Communication, Leitão Ana Lúcia, Enguita Francisco J., Editor, Springer International Publishing, pp.143-159, 2016