Publications by authors named "Hansaim Lim"

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HMI-PRED 2.0: a biologist-oriented web application for prediction of host-microbe protein-protein interaction by interface mimicry.
Hansaim Lim, Chung-Jung Tsai, Ozlem Keskin, Ruth Nussinov, Attila Gursoy

Bioinformatics· October 2022

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Exploration of chemical space with partial labeled noisy student self-training and self-supervised graph embedding.
Yang Liu, Hansaim Lim, Lei Xie

BMC Bioinformatics· May 2022

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Artificial intelligence approaches to human-microbiome protein-protein interactions.
Hansaim Lim, Fatma Cankara, Chung-Jung Tsai, Ozlem Keskin, Ruth Nussinov

Curr Opin Struct Biol· April 2022

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A New Weighted Imputed Neighborhood-Regularized Tri-Factorization One-Class Collaborative Filtering Algorithm: Application to Target Gene Prediction of Transcription Factors.
Hansaim Lim, Lei Xie

IEEE/ACM Trans Comput Biol Bioinform· December 2021

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MSA-Regularized Protein Sequence Transformer toward Predicting Genome-Wide Chemical-Protein Interactions: Application to GPCRome Deorphanization.
Tian Cai, Hansaim Lim, Kyra Alyssa Abbu, Yue Qiu, Ruth Nussinov

J Chem Inf Model· April 2021

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A Bayesian approach to accurate and robust signature detection on LINCS L1000 data.
Yue Qiu, Tianhuan Lu, Hansaim Lim, Lei Xie

Bioinformatics· May 2020

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Biological representation of chemicals using latent target interaction profile.
Mohamed Ayed, Hansaim Lim, Lei Xie

BMC Bioinformatics· December 2019

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ANTENNA, a Multi-Rank, Multi-Layered Recommender System for Inferring Reliable Drug-Gene-Disease Associations: Repurposing Diazoxide as a Targeted Anti-Cancer Therapy.
Annie Wang, Hansaim Lim, Shu-Yuan Cheng, Lei Xie

IEEE/ACM Trans Comput Biol Bioinform· July 2019

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Omics Data Integration and Analysis for Systems Pharmacology.
Hansaim Lim, Lei Xie

Methods Mol Biol· July 2019

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Rational discovery of dual-indication multi-target PDE/Kinase inhibitor for precision anti-cancer therapy using structural systems pharmacology.
Hansaim Lim, Di He, Yue Qiu, Patrycja Krawczuk, Xiaoru Sun

PLoS Comput Biol· June 2019

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Exploring Landscape of Drug-Target-Pathway-Side Effect Associations.
Hansaim Lim, Aleksandar Poleksic, Lei Xie

AMIA Jt Summits Transl Sci Proc· May 2018

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Target Gene Prediction of Transcription Factor Using a New Neighborhood-regularized Tri-factorization One-class Collaborative Filtering Algorithm.
Hansaim Lim, Lei Xie

ACM BCB· January 2018

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Improved genome-scale multi-target virtual screening via a novel collaborative filtering approach to cold-start problem.
Hansaim Lim, Paul Gray, Lei Xie, Aleksandar Poleksic

Sci Rep· December 2016

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Large-Scale Off-Target Identification Using Fast and Accurate Dual Regularized One-Class Collaborative Filtering and Its Application to Drug Repurposing.
Hansaim Lim, Aleksandar Poleksic, Yuan Yao, Hanghang Tong, Di He

PLoS Comput Biol· October 2016

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