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ORCIDAli Masoudi-Nejad
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2020 – today
- 2024
[j23]Fatemeh Rafiei, Hojjat Zeraati, Karim Abbasi
, Parvin Razzaghi, Jahan B. Ghasemi, Mahboubeh Parsaeian, Ali Masoudi-Nejad:
CFSSynergy: Combining Feature-Based and Similarity-Based Methods for Drug Synergy Prediction. J. Chem. Inf. Model. 64(7): 2577-2585 (2024)- 2023
- [j22]Fatemeh Rafiei, Hojjat Zeraati, Karim Abbasi, Jahan B. Ghasemi, Mahboubeh Parsaeian, Ali Masoudi-Nejad:
DeepTraSynergy: drug combinations using multimodal deep learning with transformers. Bioinform. 39(8) (2023) - [j21]Zahra Ghorbanali, Fatemeh Zare-Mirakabad, Najmeh Salehi, Mohammad Akbari, Ali Masoudi-Nejad:
DrugRep-HeSiaGraph: when heterogenous siamese neural network meets knowledge graphs for drug repurposing. BMC Bioinform. 24(1): 374 (2023) - [j20]Zahra Ghorbanali, Fatemeh Zare-Mirakabad, Mohammad Akbari, Najmeh Salehi, Ali Masoudi-Nejad:
DrugRep-KG: Toward Learning a Unified Latent Space for Drug Repurposing Using Knowledge Graphs. J. Chem. Inf. Model. 63(8): 2532-2545 (2023) - 2021
- [j19]Yosef Masoudi-Sobhanzadeh, Aysan Salemi, Mohammad M. Pourseif, Behzad Jafari, Yadollah Omidi, Ali Masoudi-Nejad:
Structure-based drug repurposing against COVID-19 and emerging infectious diseases: methods, resources and discoveries. Briefings Bioinform. 22(6) (2021) - [j18]Vahid Ghafarpour, Mohammad Khansari, Ali Mohammad Banaei-Moghaddam, Ali Najafi, Ali Masoudi-Nejad:
DNA methylation association with stage progression of head and neck squamous cell carcinoma. Comput. Biol. Medicine 134: 104473 (2021) - [j17]Hossein Lanjanian, Sajjad Nematzadeh, Shadi Hosseini, Mahsa Torkamanian-Afshar, Farzad Kiani, Maryam Moazzam-Jazi, Nizamettin Aydin, Ali Masoudi-Nejad:
High-throughput analysis of the interactions between viral proteins and host cell RNAs. Comput. Biol. Medicine 135: 104611 (2021) - 2020
- [j16]Karim Abbasi, Parvin Razzaghi, Antti Poso, Massoud Amanlou, Jahan B. Ghasemi, Ali Masoudi-Nejad:
DeepCDA: deep cross-domain compound-protein affinity prediction through LSTM and convolutional neural networks. Bioinform. 36(17): 4633-4642 (2020) - [j15]Yosef Masoudi-Sobhanzadeh, Ali Masoudi-Nejad:
Synthetic repurposing of drugs against hypertension: a datamining method based on association rules and a novel discrete algorithm. BMC Bioinform. 21(1): 313 (2020)
2010 – 2019
- 2019
- [j14]Yosef Masoudi-Sobhanzadeh, Habib Motieghader, Ali Masoudi-Nejad:
FeatureSelect: a software for feature selection based on machine learning approaches. BMC Bioinform. 20(1): 170:1-170:17 (2019) - [j13]Yosef Masoudi-Sobhanzadeh, Yadollah Omidi, Massoud Amanlou, Ali Masoudi-Nejad:
DrugR+: A comprehensive relational database for drug repurposing, combination therapy, and replacement therapy. Comput. Biol. Medicine 109: 254-262 (2019) - [j12]Ali Khosravi, Morteza Kouhsar, Bahram Goliaei, B. Jayaram, Ali Masoudi-Nejad:
Systematic analysis of genes and diseases using PheWAS-Associated networks. Comput. Biol. Medicine 109: 311-321 (2019) - [j11]Karim Abbasi, Antti Poso, Jahan B. Ghasemi, Massoud Amanlou, Ali Masoudi-Nejad:
Deep Transferable Compound Representation across Domains and Tasks for Low Data Drug Discovery. J. Chem. Inf. Model. 59(11): 4528-4539 (2019) - 2018
- [j10]Fariba Dehghanian, Zohreh Hojati, Nazanin Hosseinkhan, Zaynab Mousavian, Ali Masoudi-Nejad:
Reconstruction of the genome-scale co-expression network for the Hippo signaling pathway in colorectal cancer. Comput. Biol. Medicine 99: 76-84 (2018) - [j9]Sadegh Sulaimany, Mohammad Khansari, Ali Masoudi-Nejad:
Link prediction potentials for biological networks. Int. J. Data Min. Bioinform. 20(2): 161-184 (2018) - 2017
- [j8]Hossein Seidkhani, Andrey R. Nikolaev, Radha Nila Meghanathan, Hamid Pezeshk, Ali Masoudi-Nejad, Cees van Leeuwen:
Task modulates functional connectivity networks in free viewing behavior. NeuroImage 159: 289-301 (2017) - 2016
- [j7]Morteza Kouhsar, Zahra Razaghi-Moghadam, Zaynab Mousavian, Ali Masoudi-Nejad:
CeFunMO: A centrality based method for discovering functional motifs with application in biological networks. Comput. Biol. Medicine 76: 154-159 (2016) - 2014
- [j6]Reza Shamsaee, Mahmood Fathy, Ali Masoudi-Nejad:
Extracting a cancer model by enhanced ant colony optimisation algorithm. Int. J. Data Min. Bioinform. 10(1): 83-97 (2014) - 2013
- [j5]Sedigheh Mahdavi, Ali Salehzadeh-Yazdi, Ali Mohades, Ali Masoudi-Nejad:
Computational structure analysis of biomacromolecule complexes by interface geometry. Comput. Biol. Chem. 47: 16-23 (2013) - [j4]Isar Nassiri, Ali Masoudi-Nejad, Mahdi Jalili, Ali Moeini:
Normalized Similarity Index: An adjusted index to prioritize article citations. J. Informetrics 7(1): 91-98 (2013) - [c4]Iman Sharafuddin, Mehrdad Mirzaei, Masoud Rahgozar, Ali Masoudi-Nejad:
Protein-Protein Interaction Network Clustering Using Particle Swarm Optimization. IWBBIO 2013: 317-324 - 2012
- [j3]Siavash Ghavami, Farshad Lahouti, Ali Masoudi-Nejad:
Modeling and analysis of abnormality detection in biomolecular nano-networks. Nano Commun. Networks 3(4): 229-241 (2012) - [c3]Ali Salehzadeh-Yazdi, Ali Masoudi-Nejad, Ali Akbar Saboury, Shiva Akbari-Birgani:
Hubs and Non-hubs in Protein-Protein Interaction Networks: A Biophysical Interpretation. DEXA Workshops 2012: 231-232 - [i1]Siavash Ghavami, Farshad Lahouti, Ali Masoudi-Nejad:
Modeling and Analysis of Abnormality Detection in Biomolecular Nano-Networks. CoRR abs/1205.6752 (2012) - 2010
- [c2]Hamid Ravaee, Ali Masoudi-Nejad, Saeed Omidi, Ali Moeini:
Improved Immune Genetic Algorithm for Clustering Protein-Protein Interaction Network. BIBE 2010: 174-179 - [p2]Saeed Omidi, Ali Masoudi-Nejad:
Network Evolution: Theory and Mechanisms. Computational Social Network Analysis 2010: 191-240
2000 – 2009
- 2009
- [j2]Zahra Razaghi Moghadam Kashani, Hayedeh Ahrabian, Elahe Elahi, Abbas Nowzari-Dalini, Elnaz Saberi Ansari, Sahar Asadi, Shahin Mohammadi, Falk Schreiber, Ali Masoudi-Nejad:
Kavosh: a new algorithm for finding network motifs. BMC Bioinform. 10: 318 (2009) - [p1]Bahman Yari Saeed Khanloo, Daryanaz Dargahi, Nima Aghaeepour, Ali Masoudi-Nejad:
Support Vector Clustering: From Local Constraint to Global Stability. Foundations of Computational Intelligence (6) 2009: 209-227 - 2008
- [c1]Shirin Nasr-Isfahani, Atefeh Mirsafian, Ali Masoudi-Nejad:
A New Approach for Touching Cells Segmentation. BMEI (1) 2008: 816-820 - 2006
- [j1]Ali Masoudi-Nejad, Koichiro Tonomura, Shuichi Kawashima, Yuki Moriya, Masanori Suzuki, Masumi Itoh, Minoru Kanehisa, Takashi Endo, Susumu Goto:
EGassembler: online bioinformatics service for large-scale processing, clustering and assembling ESTs and genomic DNA fragments. Nucleic Acids Res. 34(Web-Server-Issue): 459-462 (2006)
Coauthor Index
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