no code implementations • 18 Mar 2024 • Payel Das, Subhajit Chaudhury, Elliot Nelson, Igor Melnyk, Sarath Swaminathan, Sihui Dai, Aurélie Lozano, Georgios Kollias, Vijil Chenthamarakshan, Jiří, Navrátil, Soham Dan, Pin-Yu Chen
Efficient and accurate updating of knowledge stored in Large Language Models (LLMs) is one of the most pressing research challenges today.
no code implementations • 10 Feb 2024 • Zuobai Zhang, Jiarui Lu, Vijil Chenthamarakshan, Aurélie Lozano, Payel Das, Jian Tang
Protein function annotation is an important yet challenging task in biology.
1 code implementation • 7 Feb 2024 • Zuobai Zhang, Jiarui Lu, Vijil Chenthamarakshan, Aurélie Lozano, Payel Das, Jian Tang
To address this issue, we introduce the integration of remote homology detection to distill structural information into protein language models without requiring explicit protein structures as input.
no code implementations • 6 Feb 2024 • Dongxia Wu, Tsuyoshi Idé, Aurélie Lozano, Georgios Kollias, Jiří Navrátil, Naoki Abe, Yi-An Ma, Rose Yu
In particular, we are interested in discovering instance-level causal structures in an unsupervised manner.
3 code implementations • 11 Mar 2023 • Zuobai Zhang, Chuanrui Wang, Minghao Xu, Vijil Chenthamarakshan, Aurélie Lozano, Payel Das, Jian Tang
Recent sequence representation learning methods based on Protein Language Models (PLMs) excel in sequence-based tasks, but their direct adaptation to tasks involving protein structures remains a challenge.
1 code implementation • NeurIPS 2023 • Zuobai Zhang, Minghao Xu, Aurélie Lozano, Vijil Chenthamarakshan, Payel Das, Jian Tang
Considering the essential protein conformational variations, we enhance DiffPreT by a method called Siamese Diffusion Trajectory Prediction (SiamDiff) to capture the correlation between different conformers of a protein.
1 code implementation • 25 Feb 2022 • Georgios Kollias, Vasileios Kalantzis, Tsuyoshi Idé, Aurélie Lozano, Naoki Abe
We introduce a new class of auto-encoders for directed graphs, motivated by a direct extension of the Weisfeiler-Leman algorithm to pairs of node labels.
no code implementations • 29 Apr 2018 • Ming Yu, Karthikeyan Natesan Ramamurthy, Addie Thompson, Aurélie Lozano
We consider multi-response and multitask regression models, where the parameter matrix to be estimated is expected to have an unknown grouping structure.
no code implementations • 15 Jun 2016 • Prasanna Sattigeri, Aurélie Lozano, Aleksandra Mojsilović, Kush R. Varshney, Mahmoud Naghshineh
Innovation is among the key factors driving a country's economic and social growth.