Ali Masoudi-Nejad

According to our database, Ali Masoudi-Nejad authored at least 29 papers between 2006 and 2024.

Collaborative distances:

• Dijkstra number of four.
• Erdős number of four.

2024

CFSSynergy: Combining Feature-Based and Similarity-Based Methods for Drug Synergy Prediction.

Fatemeh Rafiei, Hojjat Zeraati, Karim Abbasi, Parvin Razzaghi, Jahan B. Ghasemi, Mahboubeh Parsaeian, Ali Masoudi-Nejad

J. Chem. Inf. Model., 2024

2023

DrugRep-HeSiaGraph: when heterogenous siamese neural network meets knowledge graphs for drug repurposing.

Zahra Ghorbanali, Fatemeh Zare-Mirakabad, Najmeh Salehi, Mohammad Akbari, Ali Masoudi-Nejad

BMC Bioinform., December, 2023

DeepTraSynergy: drug combinations using multimodal deep learning with transformers.

Fatemeh Rafiei, Hojjat Zeraati, Karim Abbasi, Jahan B. Ghasemi, Mahboubeh Parsaeian, Ali Masoudi-Nejad

Bioinform., August, 2023

DrugRep-KG: Toward Learning a Unified Latent Space for Drug Repurposing Using Knowledge Graphs.

Zahra Ghorbanali, Fatemeh Zare-Mirakabad, Mohammad Akbari, Najmeh Salehi, Ali Masoudi-Nejad

J. Chem. Inf. Model., April, 2023

2021

High-throughput analysis of the interactions between viral proteins and host cell RNAs.

Hossein Lanjanian, Sajjad Nematzadeh, Shadi Hosseini, Mahsa Torkamanian-Afshar, Farzad Kiani, Maryam Moazzam-Jazi, Nizamettin Aydin, Ali Masoudi-Nejad

Comput. Biol. Medicine, 2021

DNA methylation association with stage progression of head and neck squamous cell carcinoma.

Vahid Ghafarpour, Mohammad Khansari, Ali Mohammad Banaei-Moghaddam, Ali Najafi, Ali Masoudi-Nejad

Comput. Biol. Medicine, 2021

Structure-based drug repurposing against COVID-19 and emerging infectious diseases: methods, resources and discoveries.

Yosef Masoudi-Sobhanzadeh, Aysan Salemi, Mohammad M. Pourseif, Behzad Jafari, Yadollah Omidi, Ali Masoudi-Nejad

Briefings Bioinform., 2021

2020

Synthetic repurposing of drugs against hypertension: a datamining method based on association rules and a novel discrete algorithm.

Yosef Masoudi-Sobhanzadeh, Ali Masoudi-Nejad

BMC Bioinform., 2020

DeepCDA: deep cross-domain compound-protein affinity prediction through LSTM and convolutional neural networks.

Karim Abbasi, Parvin Razzaghi, Antti Poso, Massoud Amanlou, Jahan B. Ghasemi, Ali Masoudi-Nejad

Bioinform., 2020

2019

Deep Transferable Compound Representation across Domains and Tasks for Low Data Drug Discovery.

Karim Abbasi, Antti Poso, Jahan B. Ghasemi, Massoud Amanlou, Ali Masoudi-Nejad

J. Chem. Inf. Model., 2019

DrugR+: A comprehensive relational database for drug repurposing, combination therapy, and replacement therapy.

Yosef Masoudi-Sobhanzadeh, Yadollah Omidi, Massoud Amanlou, Ali Masoudi-Nejad

Comput. Biol. Medicine, 2019

Systematic analysis of genes and diseases using PheWAS-Associated networks.

Ali Khosravi, Morteza Kouhsar, Bahram Goliaei, B. Jayaram, Ali Masoudi-Nejad

Comput. Biol. Medicine, 2019

FeatureSelect: a software for feature selection based on machine learning approaches.

Yosef Masoudi-Sobhanzadeh, Habib Motieghader, Ali Masoudi-Nejad

BMC Bioinform., 2019

2018

Link prediction potentials for biological networks.

Sadegh Sulaimany, Mohammad Khansari, Ali Masoudi-Nejad

Int. J. Data Min. Bioinform., 2018

Reconstruction of the genome-scale co-expression network for the Hippo signaling pathway in colorectal cancer.

Fariba Dehghanian, Zohreh Hojati, Nazanin Hosseinkhan, Zaynab Mousavian, Ali Masoudi-Nejad

Comput. Biol. Medicine, 2018

2017

Task modulates functional connectivity networks in free viewing behavior.

Hossein Seidkhani, Andrey R. Nikolaev, Radha Nila Meghanathan, Hamid Pezeshk, Ali Masoudi-Nejad, Cees van Leeuwen

NeuroImage, 2017

2016

CeFunMO: A centrality based method for discovering functional motifs with application in biological networks.

Morteza Kouhsar, Zahra Razaghi-Moghadam, Zaynab Mousavian, Ali Masoudi-Nejad

Comput. Biol. Medicine, 2016

2014

Extracting a cancer model by enhanced ant colony optimisation algorithm.

Reza Shamsaee, Mahmood Fathy, Ali Masoudi-Nejad

Int. J. Data Min. Bioinform., 2014

2013

Normalized Similarity Index: An adjusted index to prioritize article citations.

Isar Nassiri, Ali Masoudi-Nejad, Mahdi Jalili, Ali Moeini

J. Informetrics, 2013

Computational structure analysis of biomacromolecule complexes by interface geometry.

Sedigheh Mahdavi, Ali Salehzadeh-Yazdi, Ali Mohades, Ali Masoudi-Nejad

Comput. Biol. Chem., 2013

Protein-Protein Interaction Network Clustering Using Particle Swarm Optimization.

Iman Sharafuddin, Mehrdad Mirzaei, Masoud Rahgozar, Ali Masoudi-Nejad

Proceedings of the International Work-Conference on Bioinformatics and Biomedical Engineering, 2013

2012

Modeling and analysis of abnormality detection in biomolecular nano-networks.

Siavash Ghavami, Farshad Lahouti, Ali Masoudi-Nejad

Nano Commun. Networks, 2012

Hubs and Non-hubs in Protein-Protein Interaction Networks: A Biophysical Interpretation.

Ali Salehzadeh-Yazdi, Ali Masoudi-Nejad, Ali Akbar Saboury, Shiva Akbari-Birgani

Proceedings of the 23rd International Workshop on Database and Expert Systems Applications, 2012

2010

Network Evolution: Theory and Mechanisms.

Saeed Omidi, Ali Masoudi-Nejad

Proceedings of the Computational Social Network Analysis, 2010

Improved Immune Genetic Algorithm for Clustering Protein-Protein Interaction Network.

Hamid Ravaee, Ali Masoudi-Nejad, Saeed Omidi, Ali Moeini

Proceedings of the 10th IEEE International Conference on Bioinformatics and Bioengineering, 2010

2009

Support Vector Clustering: From Local Constraint to Global Stability.

Bahman Yari Saeed Khanloo, Daryanaz Dargahi, Nima Aghaeepour, Ali Masoudi-Nejad

Proceedings of the Foundations of Computational Intelligence - Volume 6: Data Mining, 2009

Kavosh: a new algorithm for finding network motifs.

Zahra Razaghi Moghadam Kashani, Hayedeh Ahrabian, Elahe Elahi, Abbas Nowzari-Dalini, Elnaz Saberi Ansari, Sahar Asadi, Shahin Mohammadi, Falk Schreiber, Ali Masoudi-Nejad

BMC Bioinform., 2009

2008

A New Approach for Touching Cells Segmentation.

Shirin Nasr-Isfahani, Atefeh Mirsafian, Ali Masoudi-Nejad

Proceedings of the 2008 International Conference on BioMedical Engineering and Informatics, 2008

2006

EGassembler: online bioinformatics service for large-scale processing, clustering and assembling ESTs and genomic DNA fragments.

Ali Masoudi-Nejad, Koichiro Tonomura, Shuichi Kawashima, Yuki Moriya, Masanori Suzuki, Masumi Itoh, Minoru Kanehisa, Takashi Endo, Susumu Goto

Nucleic Acids Res., 2006