2 citations · 7 across the 9 of their papers we have counts for
11 papers
MIRAGE: Measuring Interpolation and Redundancy in Affinity GEneralization
Mehdi Yazdani-Jahromi, Sanjay Padhi, Ivan Garibay
Deep learning now underpins structure-based drug design, from complex and affinity prediction to ligand ranking and pose generation. Recent co-folding models reportedly approach fr…
FairContrast: Enhancing Fairness through Contrastive learning and Customized Augmenting Methods on Tabular Data
Aida Tayebi, Ali Khodabandeh Yalabadi, Mehdi Yazdani-Jahromi +1
As AI systems become more embedded in everyday life, the development of fair and unbiased models becomes more critical. Considering the social impact of AI systems is not merely a…
Equi-mRNA: Protein Translation Equivariant Encoding for mRNA Language Models
Mehdi Yazdani-Jahromi, Ali Khodabandeh Yalabadi, Ozlem Ozmen Garibay
The growing importance of mRNA therapeutics and synthetic biology highlights the need for models that capture the latent structure of synonymous codon (different triplets encoding…
BoKDiff: Best-of-K Diffusion Alignment for Target-Specific 3D Molecule Generation
Ali Khodabandeh Yalabadi, Mehdi Yazdani-Jahromi, Ozlem Ozmen Garibay
Structure-based drug design (SBDD) leverages the 3D structure of biomolecular targets to guide the creation of new therapeutic agents. Recent advances in generative models, includi…
Fair Bilevel Neural Network (FairBiNN): On Balancing fairness and accuracy via Stackelberg Equilibrium
Mehdi Yazdani-Jahromi, Ali Khodabandeh Yalabadi, AmirArsalan Rajabi +3
The persistent challenge of bias in machine learning models necessitates robust solutions to ensure parity and equal treatment across diverse groups, particularly in classification…
HELM: Hierarchical Encoding for mRNA Language Modeling
Mehdi Yazdani-Jahromi, Mangal Prakash, Tommaso Mansi +2
Messenger RNA (mRNA) plays a crucial role in protein synthesis, with its codon structure directly impacting biological properties. While Language Models (LMs) have shown promise in…