ENES KORAY SEFEROĞLU

Molecular Biologist & Computational RNA Biologist

" In the Light of Science, With the Power of Data "

I am Enes Koray Seferoğlu (b. 2001), a final-year Molecular Biology and Genetics student working at the intersection of RNA therapeutics and computational biology, with a particular focus on small activating RNA (saRNA).

I design the biological and algorithmic logic behind specialized bioinformatics tools — defining how a problem should be modeled, which data sources matter, and how candidates should be scored — and bring these designs to life through AI-assisted development, validating their biological soundness myself. This lets me move quickly from a biological idea to a working research tool.

My work spans saRNA design, cell-type-specific off-target prediction, and mutation-driven oncogenic-risk scoring. I am driven to contribute to advances in RNA therapeutics and precision medicine.

RESEARCH & DEVELOPMENT PORTFOLIO :

I design the biological and algorithmic logic behind each project — the problem framing, data sources, and scoring rules — and bring it to life through AI-assisted development, validating the biological soundness myself. Code available on request.

Bioinformatics Tools & Frameworks

orcSONAR — Cell-Type-Specific Off-Target Prediction: A biophysics-based framework that predicts saRNA off-target activity beyond simple sequence similarity (BLAST), integrating 24 genomic, epigenomic, and structural data sources (ATAC-seq, ChIP-seq, Hi-C, COSMIC, gnomAD, phyloP, SHAPE, m6A) into a multi-domain risk-scoring model across a 7-stage pipeline.
Dual-Target RNA Designer: A hybrid saRNA/siRNA discovery engine integrating Reynolds/Ui-Tei rational-design rules with Nearest-Neighbor thermodynamics (ΔG) to identify dual-function candidates targeting two distinct genes simultaneously.
saRNA Designer & Toolkit: A thermodynamic optimization toolkit for designing small activating RNAs (saRNA) targeting promoter regions — featuring ΔG calculation, Reynolds-rule scoring, and an integrated BLAST off-target map.
TP53 3′-UTR miRNA Profiler (ATC-miRES): A precision-oncology tool that detects somatic mutations in the TP53 3′-UTR and predicts mutation-induced oncomiR binding that destabilizes the TP53 transcript in Anaplastic Thyroid Cancer. (Currently being updated.)

Novel Algorithms & Concepts

miRES Scoring System: A self-designed, multi-parametric metric — the "miRNA Risk Effect Score" — that quantifies oncogenic potential by integrating binding energy (ΔG), functional impact, pathogenicity, and evolutionary conservation .
vuRNA (viribus unitis RNA): An original small activating RNA platform concept that unifies saRNA-mediated transcriptional activation of two genes with oncomiR sequestration in a single molecule.

Scientific Research

Microgravity & Thyroid Cancer (Literature Review): A review of microgravity's molecular impact on thyroid cancer pathogenesis — mechanotransduction, cytoskeletal remodeling, and integrin/MAPK/PI3K-AKT signaling — drawing on CELLBOX-2 and TEXUS-53 mission data.

Github