Assoc. Prof. MÜŞERREF DUYGU SAÇAR DEMİRCİ

Publication Network

Journal articles indexed in SCI, SSCI, and AHCI 9

1. NeRNA: A negative data generation framework for machine learning applications of noncoding RNAs

Orhan M. E., DEMİRCİ Y. M., SAÇAR DEMİRCİ M. D.

Computers in Biology and Medicine , vol.159, 2023 (SCI-Expanded) Sustainable Development

2. Computational prediction of microRNAs in Histoplasma capsulatum

SAÇAR DEMİRCİ M. D.

MICROBIAL PATHOGENESIS , vol.148, 2020 (SCI-Expanded) Sustainable Development

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

SAÇAR DEMİRCİ M. D., ADAN A.

PEERJ , vol.8, 2020 (SCI-Expanded) Sustainable Development

4. 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 (SCI-Expanded)

5. 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 (SCI-Expanded)

6. On the performance of pre-microRNA detection algorithms

SAÇAR DEMİRCİ M. D., Baumbach J., Allmer J.

NATURE COMMUNICATIONS , vol.8, 2017 (SCI-Expanded) Sustainable Development

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

SAÇAR DEMİRCİ M. D., Allmer J.

PEERJ , vol.5, 2017 (SCI-Expanded)

8. 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 (SCI-Expanded)

9. Machine Learning Methods for MicroRNA Gene Prediction

Sacar M. D., Allmer J.

MIRNOMICS: MICRORNA BIOLOGY AND COMPUTATIONAL ANALYSIS , vol.1107, pp.177-187, 2014 (SCI-Expanded)

Articles Published in Other Journals 8

1. Comprehensive Prediction of FBN1 Targeting miRNAs: A Systems Biology Approach for Marfan Syndrome

ORHAN M. E., Demirci Y. M., Demirci M. D. S.

Gazi Medical Journal , vol.36, no.4, pp.401-406, 2025 (ESCI)

2. 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 (ESCI)

3. 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 (Peer-Reviewed Journal)

4. 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 (ESCI) Sustainable Development

5. 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 (Scopus)

6. 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 (Scopus)

7. 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 (Scopus)

8. 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 (Scopus)

Papers Presented at Peer-Reviewed Scientific Conferences 8

1. MiRNomics: miRNA biyolojisi ve bilişimsel analizi

SAÇAR DEMİRCİ M. D.

V. Yaşam Bilimleri Kongresi, Kayseri, Turkey, 21 - 22 February 2020

2. Challenges of Big Data in Machine Learning Based MicroRNA Analysis

SAÇAR DEMİRCİ M. D.

12. Tıp Bilişimi Kongresi, Ankara, Turkey, 15 - 16 November 2019

3. 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

4. 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

5. 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

6. 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

7. 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

8. 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

Books 4

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231

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Citation (Scopus)

243

H-Index (Scopus)

Project

UN Sustainable Development Goals

Assoc. Prof. MÜŞERREF DUYGU SAÇAR DEMİRCİ

Publications & Works

1. NeRNA: A negative data generation framework for machine learning applications of noncoding RNAs

2. Computational prediction of microRNAs in Histoplasma capsulatum

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

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

5. The Expressed MicroRNA-mRNA Interactions of Toxoplasma gondii

6. On the performance of pre-microRNA detection algorithms

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

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

9. Machine Learning Methods for MicroRNA Gene Prediction

1. Comprehensive Prediction of FBN1 Targeting miRNAs: A Systems Biology Approach for Marfan Syndrome

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

3. COMPUTATIONAL IDENTIFICATION OF MICRORNAS FROM SSDNA VIRUSES

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

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

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

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

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

1. MiRNomics: miRNA biyolojisi ve bilişimsel analizi

2. Challenges of Big Data in Machine Learning Based MicroRNA Analysis

3. MicroRNAs: small regulators of gene expression

4. Analyzing potential targets of viral microRNAs in human

5. izMiR 2.0: an enhanced version of consensus miRNA prediction method

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

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

8. Comparison of Four Ab Initio MicroRNA Prediction Tools

1. Bioinformatics Tools to Study the Role of miRNAs

2. Computational Detection of Pre-microRNAs

3. Computational Prediction of Functional MicroRNA–mRNA Interactions

4. Differential Expression of Toxoplasma gondii MicroRNAs in Murine and Human Hosts

Publication

Publication (WoS)

Publication (Scopus)

Citation (WoS)

H-Index (WoS)

Citation (Scopus)

H-Index (Scopus)

Project