Personal information

Activities

Works (32)

AI‐Enhanced Detection of Clinically Relevant Structural and Functional Anomalies in MRI: Traversing the Landscape of Conventional to Explainable Approaches

Journal of Magnetic Resonance Imaging
2024-12 | Journal article
Contributors: Pegah Khosravi; Saber Mohammadi; Fatemeh Zahiri; Masoud Khodarahmi; Javad Zahiri
Source: check_circle
Crossref

Beyond the Spectrum: Subtype-Specific Molecular Insights into Autism Spectrum Disorder Via Multimodal Data Integration

2024-09-19 | Preprint
Contributors: Javad Zahiri; Mehdi Mirzaie; Kuaikuai Duan; Yaqiong Xiao; Caitlin Aamodt; Xiaotong Yang; Sanaz Nazari; Charlene Andreason; Linda Lopez; Cynthia Carter Barnes et al.
Source: check_circle
Crossref

Beyond Algorithms: The Impact of Simplified CNN Models and Multifactorial Influences on Radiological Image Analysis

2024-09-16 | Preprint
Contributors: Saber Mohammadi; Abhinita S. Mohanty; Shady Saikali; Doori Rose; WintPyae LynnHtaik; Raecine Greaves; Tassadit Lounes; Eshaan Haque; Aashi Hirani; Javad Zahiri et al.
Source: check_circle
Crossref

123FASTQ: an intuitive and efficient tool for preprocessing Illumina FASTQ reads

2024-03-10 | Preprint
Contributors: Milad Eidi; Samaneh Abdolalizadeh; Mohammad Hossein Nasirpour; Javad Zahiri; Masoud Garshasbi
Source: check_circle
Crossref

Discovering Common Pathogenic Mechanisms of COVID-19 and Parkinson Disease: An Integrated Bioinformatics Analysis

Journal of Molecular Neuroscience
2022-11 | Journal article
Contributors: Aria Jahanimoghadam; Hadis Abdolahzadeh; Niloofar Khoshdel Rad; Javad Zahiri
Source: check_circle
Crossref

Identifying Key Lysosome-Related Genes Associated with Drug-Resistant Breast Cancer Using Computational and Systems Biology Approach

Iranian Journal of Pharmaceutical Research
2022-10-15 | Journal article
Contributors: Aref Shiralipour; Babak Khorsand; Leila Jafari; Mohammad Salehi; Mahsa Kazemi; Javad Zahiri; Vahid Jajarmi; Bahram Kazemi
Source: check_circle
Crossref

Discovering Common Pathogenic Mechanisms of COVID-19 and Parkinson Disease: an Integrated Bioinformatics Analysis

2022-03-03 | Preprint
Contributors: Aria Jahanimoghadam; Hadis Abdolahzadeh; Niloofar Khoshdel rad; Javad Zahiri
Source: check_circle
Crossref

PSSMCOOL: a comprehensive R package for generating evolutionary-based descriptors of protein sequences from PSSM profiles

Biology Methods and Protocols
2022-01-10 | Journal article
Contributors: Alireza Mohammadi; Javad Zahiri; Saber Mohammadi; Mohsen Khodarahmi; Seyed Shahriar Arab
Source: check_circle
Crossref

Proteomic profiling of the rat hippocampus from the kindling and pilocarpine models of epilepsy: potential targets in calcium regulatory network

Scientific Reports
2021-04-15 | Journal article
Contributors: Leila Sadeghi; Albert Anatolyevich Rizvanov; Bahareh Dabirmanesh; Ilnur Ildusovich Salafutdinov; Mohammad Sayyah; Amir Shojaei; Javad Zahiri; Javad Mirnajafi-Zadeh; Babak Khorsand; Khosro Khajeh et al.
Source: check_circle
Crossref

Post-translational modifications in proteins: resources, tools and prediction methods

Database
2021-04-07 | Journal article
Contributors: Shahin Ramazi; Javad Zahiri
Source: check_circle
Crossref

A prediction model for COVID-19 prevalence based on demographic and healthcare parameters in Iran

2021-01-29 | Other
Contributors: Parimah Emadi Safavi; Karim Rahimian; Alireza Doustmohammadi; Mahla Safari dastjerdei; Ahmadreza Rasouli; Javad Zahiri
Source: check_circle
Crossref

RepCOOL: computational drug repositioning via integrating heterogeneous biological networks

Journal of Translational Medicine
2020-12 | Journal article
Contributors: Ghazale Fahimian; Javad Zahiri; Seyed Shahriar Arab; Reza H. Sajedi
Source: check_circle
Crossref

Coronavirus Disease 2019 (COVID-19) Candidate Chest CT Features: A Systematic Review of Extracted Imaging Features from 7571 Individuals

2020-11-05 | Other
Contributors: Javad Zahiri; Mohammad Hossein Afsharinia; Zhaleh Hekmati; Mohsen Khodarahmi; Shahrzad Hekmati; Ramin Pourghorban
Source: check_circle
Crossref

AntAngioCOOL: computational detection of anti-angiogenic peptides

Journal of Translational Medicine
2019-12 | Journal article
Contributors: Javad Zahiri; Babak Khorsand; Ali Akbar Yousefi; Mohammadjavad Kargar; Ramin Shirali Hossein Zade; Ghasem Mahdevar
Source: check_circle
Crossref

OligoCOOL: A mobile application for nucleotide sequence analysis

Biochemistry and Molecular Biology Education
2019-03 | Journal article
Contributors: Babak Khorsand; Anahita Khammari; Niloofar Shirvanizadeh; Javad Zahiri; Seyed Shahriar Arab
Source: check_circle
Crossref

Digging deeper into volatile organic compounds associated with cancer

Biology Methods and Protocols
2019-01-01 | Journal article
Contributors: Sajjad Janfaza; Babak Khorsand; Maryam Nikkhah; Javad Zahiri
Source: check_circle
Crossref

Gene co-expression network reconstruction: a review on computational methods for inferring functional information from plant-based expression data

Plant Biotechnology Reports
2017 | Journal article
EID:

2-s2.0-85017117285

Contributors: Emamjomeh, A.; Saboori Robat, E.; Zahiri, J.; Solouki, M.; Khosravi, P.
Source: Self-asserted source
Javad Zahiri via Scopus - Elsevier

VIS/NIR imaging application for honey floral origin determination

Infrared Physics and Technology
2017 | Journal article
EID:

2-s2.0-85030541305

Contributors: Minaei, S.; Shafiee, S.; Polder, G.; Moghadam-Charkari, N.; van Ruth, S.; Barzegar, M.; Zahiri, J.; Alewijn, M.; Kuś, P.M.
Source: Self-asserted source
Javad Zahiri via Scopus - Elsevier

A systems biology approach to reconcile metabolic network models with application to: Synechocystis sp. PCC 6803 for biofuel production

Molecular BioSystems
2016 | Journal article
EID:

2-s2.0-84979208502

Contributors: Mohammadi, R.; Fallah-Mehrabadi, J.; Bidkhori, G.; Zahiri, J.; Javad Niroomand, M.; Masoudi-Nejad, A.
Source: Self-asserted source
Javad Zahiri via Scopus - Elsevier

Computational detection of piRNA in human using support vector machine

Avicenna Journal of Medical Biotechnology
2016 | Journal article
EID:

2-s2.0-84949871211

Contributors: Seyeddokht, A.; Aslaminejad, A.A.; Masoudi-Nejad, A.; Nassiri, M.; Zahiri, J.; Sadeghi, B.
Source: Self-asserted source
Javad Zahiri via Scopus - Elsevier

rpiCOOL: A tool for In Silico RNA-protein interaction detection using random forest

Journal of Theoretical Biology
2016 | Journal article
EID:

2-s2.0-84964878917

Contributors: Akbaripour-Elahabad, M.; Zahiri, J.; Rafeh, R.; Eslami, M.; Azari, M.
Source: Self-asserted source
Javad Zahiri via Scopus - Elsevier

Prediction of gene co-expression by quantifying heterogeneous features

Current Bioinformatics
2015 | Journal article
EID:

2-s2.0-84947785424

Contributors: Emamjomeh, A.; Goliaei, B.; Zahiri, J.; Ebrahimpour, R.
Source: Self-asserted source
Javad Zahiri via Scopus - Elsevier

Analysis of candidate genes has proposed the role of y chromosome in human prostate cancer

Iranian Journal of Cancer Prevention
2014 | Journal article
EID:

2-s2.0-84911873236

Contributors: Khosravi, P.; Zahiri, J.; Gazestani, V.H.; Mirkhalaf, S.; Akbarzadeh, M.; Sadeghi, M.; Goliaei, B.
Source: Self-asserted source
Javad Zahiri via Scopus - Elsevier

LocFuse: Human protein-protein interaction prediction via classifier fusion using protein localization information

Genomics
2014 | Journal article
EID:

2-s2.0-84919333951

Contributors: Zahiri, J.; Mohammad-Noori, M.; Ebrahimpour, R.; Saadat, S.; Bozorgmehr, J.H.; Goldberg, T.; Masoudi-Nejad, A.
Source: Self-asserted source
Javad Zahiri via Scopus - Elsevier

Predicting protein-protein interactions between human and hepatitis C virus via an ensemble learning method

Molecular BioSystems
2014 | Journal article
EID:

2-s2.0-84908405706

Contributors: Emamjomeh, A.; Goliaei, B.; Zahiri, J.; Ebrahimpour, R.
Source: Self-asserted source
Javad Zahiri via Scopus - Elsevier

Computational prediction of protein-protein interaction networks: Algorithms and resources

Current Genomics
2013 | Journal article
EID:

2-s2.0-84888103756

Contributors: Zahiri, J.; Bozorgmehr, J.H.; Masoudi-Nejad, A.
Source: Self-asserted source
Javad Zahiri via Scopus - Elsevier

Multi-criteria sequencing problem in mixed-model synchronous assembly lines

International Journal of Advanced Manufacturing Technology
2013 | Journal article
EID:

2-s2.0-84888318608

Contributors: Salehi, M.; Fattahi, P.; Roshani, A.; Zahiri, J.
Source: Self-asserted source
Javad Zahiri via Scopus - Elsevier

PPIevo: Protein-protein interaction prediction from PSSM based evolutionary information

Genomics
2013 | Journal article
EID:

2-s2.0-84886313848

Contributors: Zahiri, J.; Yaghoubi, O.; Mohammad-Noori, M.; Ebrahimpour, R.; Masoudi-Nejad, A.
Source: Self-asserted source
Javad Zahiri via Scopus - Elsevier

Scatter-search with support vector machine for prediction of relative solvent accessibility

EXCLI Journal
2013 | Journal article
EID:

2-s2.0-84872906926

Contributors: Kashefi, A.H.; Meshkin, A.; Zargoosh, M.; Zahiri, J.; Taheri, M.; Ashtiani, S.
Source: Self-asserted source
Javad Zahiri via Scopus - Elsevier

Analyzing the effect of numerical solution method and empirical coefficients on the accuracy predictions of the ADE for BOD modeling in riverine basins

Journal of Food, Agriculture and Environment
2011 | Journal article
EID:

2-s2.0-80655123372

Contributors: Kashefipour, S.M.; Mostofizadeh, S.; Zahiri, J.
Source: Self-asserted source
Javad Zahiri via Scopus - Elsevier

A novel efficient dynamic programming algorithm for haplotype block partitioning

Journal of Theoretical Biology
2010 | Journal article
EID:

2-s2.0-77956584262

Contributors: Zahiri, J.; Mahdevar, G.; Nowzari-dalini, A.; Ahrabian, H.; Sadeghi, M.
Source: Self-asserted source
Javad Zahiri via Scopus - Elsevier

Tag SNP selection via a genetic algorithm

Journal of Biomedical Informatics
2010 | Journal article
EID:

2-s2.0-77956262207

Contributors: Mahdevar, G.; Zahiri, J.; Sadeghi, M.; Nowzari-Dalini, A.; Ahrabian, H.
Source: Self-asserted source
Javad Zahiri via Scopus - Elsevier

Peer review (6 reviews for 4 publications/grants)

Review activity for BMC bioinformatics (3)
Review activity for Interdisciplinary sciences: computational life sciences. (1)
Review activity for PLoS computational biology. (1)
Review activity for PloS one. (1)