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Publications about 'Network Modelling and Analysis'
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Articles in journal, book chapters
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Ismail M. Khater,
Ivan Robert Nabi,
and Ghassan Hamarneh.
A Review of Super-resolution Single Molecule Localization Microscopy Cluster Analysis and Quantification Methods.
Cell Patterns,
1(3):2666-3899,
2020.
Keyword(s): Super Resolution Microscopy,
Single Molecule Localization Microscopy,
Network Modelling and Analysis,
Deep Learning,
Machine Learning,
Classification,
Graph based,
Biomarkers/Biosignatures,
Survey/Review.
[bibtex-key = cellpatterns2020]
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Ismail M. Khater,
Stephane Aroca-Ouellette,
Fanrui Meng,
Ivan Robert Nabi,
and Ghassan Hamarneh.
Caveolae and scaffold detection from single molecule localization microscopy data using deep learning.
PLOS ONE,
14(8):1-17,
2019.
Keyword(s): Super Resolution Microscopy,
Single Molecule Localization Microscopy,
Network Modelling and Analysis,
Deep Learning,
Machine Learning,
Classification,
Graph based,
Biomarkers/Biosignatures.
[bibtex-key = plosone2019]
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Ismail M. Khater,
Qian Liu,
Keng C. Chou,
Ghassan Hamarneh,
and Ivan Robert Nabi.
Super-resolution modularity analysis shows polyhedral caveolin-1 oligomers combine to form scaffolds and caveolae.
Nature - Scientific reports,
9(9888):1-10,
2019.
Keyword(s): Super Resolution Microscopy,
Single Molecule Localization Microscopy,
Network Modelling and Analysis,
Machine Learning.
[bibtex-key = nature_sr2019]
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Ismail M. Khater,
Fanrui Meng,
Ivan Robert Nabi,
and Ghassan Hamarneh.
Identification of Caveolin-1 Domain Signatures via Graphlet Analysis of Single Molecule Super-Resolution Data.
Bioinformatics,
35(18):3468-3475,
2019.
Keyword(s): Super Resolution Microscopy,
Single Molecule Localization Microscopy,
Network Modelling and Analysis,
Machine Learning,
Graphlets,
Graph based,
Biomarkers/Biosignatures.
[bibtex-key = bioinformatics2019]
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Ismail M. Khater,
Fanrui Meng,
Timothy H. Wong,
Ivan Robert Nabi,
and Ghassan Hamarneh.
Super Resolution Network Analysis Defines the Molecular Architecture of Caveolae and Caveolin-1 Scaffolds.
Nature - Scientific reports,
8(9009):1-15,
2018.
Keyword(s): Super Resolution Microscopy,
Single Molecule Localization Microscopy,
Network Modelling and Analysis,
Machine Learning.
[bibtex-key = nature_sr2018]
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Ismail M. Khater,
Ivan Robert Nabi,
and Ghassan Hamarneh.
HDCluster: High-Degree Graph-Based Clustering Algorithm and its Application to Single Molecule Localization Microscopy.
In Single Molecule Localization Microscopy Symposium,
pages 1,
2022.
Keyword(s): Super Resolution Microscopy,
Single Molecule Localization Microscopy,
Network Modelling and Analysis,
Clustering.
[bibtex-key = smlms2022]
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Ismail M. Khater,
Timothy H. Wong,
Christian Hallgrimson,
Satish Moparthi,
Stéphane Vassilopoulos,
Ghassan Hamarneh,
and Ivan Robert Nabi.
Molecular architecture of clathrin plaques and pits defined by super-resolution network analysis (SuperResNET) (Khater and Wong: Joint first authors; Hamarneh and Nabi: Joint senior authors).
In American Society of Cell Biology (ASCB) - Cell Bio,
2022.
Keyword(s): Super Resolution Microscopy,
Single Molecule Localization Microscopy,
Software and Tools,
Network Modelling and Analysis,
Machine Learning.
[bibtex-key = ascb2022b]
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Ismail M. Khater,
Timothy H. Wong,
Stéphane Vassilopoulos,
Ivan Robert Nabi,
and Ghassan Hamarneh.
SuperResNET: a GUI software package for single molecule localization microscopy cluster analysis (Nabi and Hamarneh: Joint senior authors).
In Single Molecule Localization Microscopy Symposium - Current Trends,
pages 1,
2021.
Keyword(s): Super Resolution Microscopy,
Single Molecule Localization Microscopy,
Software and Tools,
Network Modelling and Analysis,
Machine Learning.
[bibtex-key = smlms2021]
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Ismail M. Khater,
Ivan Robert Nabi,
and Ghassan Hamarneh.
SuperNet: Super-resolution Network Analysis and Quantification of Single Molecule Clusters.
In Single Molecule Localization Microscopy Symposium - Showtime,
pages 1,
2020.
Keyword(s): Super Resolution Microscopy,
Single Molecule Localization Microscopy,
Software and Tools,
Network Modelling and Analysis,
Machine Learning.
[bibtex-key = smlms2020]
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Ismail M. Khater,
Ivan Robert Nabi,
and Ghassan Hamarneh.
Identification of Cav1 Domains Using Super Resolution Microscopy and Machine Learning.
In European Molecular Biology Organization EMBO Workshop Caveolae and nanodomains: Translating structural principles and dynamics into function, Le Pouliguen, France,
pages 1,
2019.
Keyword(s): Super Resolution Microscopy,
Single Molecule Localization Microscopy,
Network Modelling and Analysis,
Machine Learning.
[bibtex-key = embo2019b]
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Timothy H. Wong,
Mona Shahsavari,
Ismail M. Khater,
Bharat Joshi,
Ghassan Hamarneh,
and Ivan Robert Nabi.
Super Resolution Microscopy Identification of Focal Adhesion-Associated Caveolin-1 Domains (Wong and Shahsavari: Joint first authors).
In European Molecular Biology Organization EMBO Workshop Caveolae and nanodomains: Translating structural principles and dynamics into function, Le Pouliguen, France,
pages 1,
2019.
Keyword(s): Super Resolution Microscopy,
Single Molecule Localization Microscopy,
Network Modelling and Analysis.
[bibtex-key = embo2019c]
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Ismail M. Khater,
Qian Liu,
Keng C. Chou,
Ghassan Hamarneh,
and Ivan Robert Nabi.
Modular Structure of Caveolin-1 Scaffolds and Caveolae Identified by Single Molecule Localization Microscopy.
In American Society for Cell Biology and European Molecular Biology Organization (ASCB-EMBO), San Diego, USA,
pages 1343 (Abstract P2707),
2018.
Keyword(s): Super Resolution Microscopy,
Single Molecule Localization Microscopy,
Network Modelling and Analysis,
Machine Learning,
Graph based.
[bibtex-key = ascb2018b]
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Ismail M. Khater,
Fanrui Meng,
Ivan Robert Nabi,
and Ghassan Hamarneh.
Caveolin-1 Domain Characterization Using Machine Learning and Graphlet Analysis of Single Molecule Super Resolution Microscopy.
In American Society for Cell Biology and European Molecular Biology Organization (ASCB-EMBO), San Diego, USA,
pages 1342 (Abstract P2706),
2018.
Keyword(s): Super Resolution Microscopy,
Single Molecule Localization Microscopy,
Network Modelling and Analysis,
Machine Learning,
Graphlets,
Graph based,
Biomarkers/Biosignatures.
[bibtex-key = ascb2018a]
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Ismail M. Khater,
Fanrui Meng,
Ivan Robert Nabi,
and Ghassan Hamarneh.
Characterization of caveolin-1 domains via graphlet decomposition of SMLM super resolution data.
In Genesis BME day, Vancouver, Canada,
pages 1,
2018.
Keyword(s): Super Resolution Microscopy,
Single Molecule Localization Microscopy,
Network Modelling and Analysis,
Machine Learning,
Graphlets,
Graph based,
Biomarkers/Biosignatures.
[bibtex-key = bme2018]
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Ismail M. Khater,
Youtao Liu,
Qian Liu,
Fanrui Meng,
Keng C. Chou,
Ivan Robert Nabi,
and Ghassan Hamarneh.
Distinguishing Biological and Non-Biological Networks in Single Molecule Localization Super Resolution Microscopy.
In American Society for Cell Biology and European Molecular Biology Organization (ASCB-EMBO), Philadelphia, USA,
pages 1,
2017.
Keyword(s): Super Resolution Microscopy,
Single Molecule Localization Microscopy,
Network Modelling and Analysis,
Machine Learning.
[bibtex-key = ascb2017]
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Ismail M. Khater,
Fanrui Meng,
Ivan Robert Nabi,
and Ghassan Hamarneh.
Filtering, Segmenting, and Quantifying Caveolin-1 Protein Clusters in 3D Super-Resolution Microscopy via Machine-Learning and Network Analysis.
In SIAM-IMAGING Manitoba Workshop on Mathematical Imaging Science, Winnipeg, Canada,
pages 1,
2017.
Keyword(s): Super Resolution Microscopy,
Single Molecule Localization Microscopy,
Network Modelling and Analysis,
Machine Learning.
[bibtex-key = siam2017a]
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Ismail M. Khater,
Fanrui Meng,
Ivan Robert Nabi,
and Ghassan Hamarneh.
Filtering, Segmenting, and Quantifying Caveolin-1 Protein Clusters in 3D Super-Resolution Microscopy via Machine-Learning and Network Analysis.
In 2nd Annual Health Technology Symposium, Vancouver, Canada,
pages 1,
2017.
Keyword(s): Super Resolution Microscopy,
Single Molecule Localization Microscopy,
Network Modelling and Analysis,
Machine Learning.
[bibtex-key = healthtech2017d]
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Ismail M. Khater,
Fanrui Meng,
Ivan Robert Nabi,
and Ghassan Hamarneh.
Filtering, Segmenting, and Quantifying Caveolin-1 Protein Clusters in 3D Super-Resolution Microscopy via Machine-Learning and Network Analysis.
In Gordon Research Conference, Andover, NH, USA,
pages 1,
2017.
Keyword(s): Super Resolution Microscopy,
Single Molecule Localization Microscopy,
Network Modelling and Analysis,
Machine Learning.
[bibtex-key = gordon2017a]
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Ismail M. Khater,
Fanrui Meng,
Ivan Robert Nabi,
and Ghassan Hamarneh.
Molecular Level Quantification of Cav1 Clusters in Super-Resolution Imaging Data.
In Frontiers in Biophysics, Vancouver, Canada,
pages 1,
2017.
Keyword(s): Super Resolution Microscopy,
Single Molecule Localization Microscopy,
Network Modelling and Analysis,
Machine Learning.
[bibtex-key = frontiers_biophysics2017]
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Ismail M. Khater,
Fanrui Meng,
Ivan Robert Nabi,
and Ghassan Hamarneh.
Defining caveolae and scaffolds by computational network analysis of particle localization super-resolution microscopy.
In American Society for Cell Biology (ASCB), San Francisco, California,
pages 1,
2016.
Keyword(s): Super Resolution Microscopy,
Single Molecule Localization Microscopy,
Network Modelling and Analysis,
Machine Learning.
[bibtex-key = ascb2016]
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Ismail M. Khater,
Fanrui Meng,
Ivan Robert Nabi,
and Ghassan Hamarneh.
Discovering Biosignatures of Cav1 Domains: Computational Methods for Super-resolution Microscopy.
In LSI Imaging Super-resolution Mini-symposium, Vancouver, Canada,
pages 1,
2016.
Keyword(s): Super Resolution Microscopy,
Single Molecule Localization Microscopy,
Network Modelling and Analysis,
Machine Learning.
[bibtex-key = superres2016]
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Ismail M. Khater,
Fanrui Meng,
Ivan Robert Nabi,
and Ghassan Hamarneh.
Quantifying Caveolin-1 Molecular Domains via Machine Learning and Computational Network Analysis of Super-resolution Microscopy Data.
In Bringing the ASCB to the LSI Imaging Mini-symposium, Vancouver, Canada,
pages 1,
2016.
Keyword(s): Super Resolution Microscopy,
Single Molecule Localization Microscopy,
Network Modelling and Analysis,
Machine Learning.
[bibtex-key = ascblsi2016]
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Ismail M. Khater,
David Scriven,
Edwin Moore,
and Ghassan Hamarneh.
Sub-Cellular Network Analysis of Ryanodine Receptor Positioning in Control and Phosphorylated States.
In IEEE Computing in Cardiology (IEEE CinC),
pages 821-824,
2016.
Keyword(s): Cardiology,
Super Resolution Microscopy,
Single Molecule Localization,
Network Modelling and Analysis.
[bibtex-key = cinc2016]
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Ismail M. Khater,
Fanrui Meng,
Ivan Robert Nabi,
and Ghassan Hamarneh.
Identifying Sub-Cellular Domains in PC3 cells by Analysing Caveolin-1 Proteins from Nanoscopy Super-Resolution Data.
In NanoLytica, Burnaby, Canada,
pages 1,
2015.
Keyword(s): Super Resolution Microscopy,
Single Molecule Localization Microscopy,
Network Modelling and Analysis,
Machine Learning.
[bibtex-key = nanolytica2015]
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Ismail M. Khater,
Fanrui Meng,
Ivan Robert Nabi,
and Ghassan Hamarneh.
Super-resolution analysis of Caveolae and Cav1 scaffolds in Prostate Cancer Cells.
In Advanced Structural and Chemical Imaging (ASCI) Symposium, Pullman, Washington,
pages 1,
2015.
Keyword(s): Super Resolution Microscopy,
Single Molecule Localization Microscopy,
Network Modelling and Analysis,
Machine Learning.
[bibtex-key = asci2015]
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Fanrui Meng,
Ismail M. Khater,
Ghassan Hamarneh,
and Ivan Robert Nabi.
Super-resolution analysis of Caveolae and Cav1 scaffolds in Prostate Cancer Cells.
In Canadian Cytometry and Microscopy Association (CCMA), Toronto, Canada,
pages 1,
2015.
Keyword(s): Super Resolution Microscopy,
Single Molecule Localization Microscopy,
Network Modelling and Analysis,
Machine Learning.
[bibtex-key = ccma2015]
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Ashwin Samudre,
Guang Gao,
Ben Cardoen,
Ivan Robert Nabi,
and Ghassan Hamarneh.
nERdy: network analysis of endoplasmic reticulum (Nabi and Hamarneh: Joint senior authors).
Technical report biorxiv:2024.02.20.581259,
2 2024.
Keyword(s): Super Resolution Microscopy,
Software and Tools,
Network Modelling and Analysis,
Machine Learning,
Deep Learning,
Anatomical Trees and Tubular Structures,
Synthesis/Simulation/Augmentation.
[bibtex-key = biorxiv_2024_02_20_581259]
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Ismail M. Khater,
Stephane Aroca-Ouellette,
Fanrui Meng,
Ivan Robert Nabi,
and Ghassan Hamarneh.
Caveolae and scaffold detection from single molecule localization microscopy data using deep learning.
Technical report biorxiv:495382,
1 2019.
Keyword(s): Super Resolution Microscopy,
Single Molecule Localization Microscopy,
Machine Learning,
Deep Learning,
Network Modelling and Analysis,
Machine Learning.
[bibtex-key = biorxiv_2019_526327]
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Ismail M. Khater,
Qian Liu,
Keng C. Chou,
Ghassan Hamarneh,
and Ivan Robert Nabi.
Super-resolution modularity analysis shows that polyhedral caveolin-1 oligomers combine to form scaffolds and caveolae.
Technical report biorxiv:495382,
12 2018.
Keyword(s): Super Resolution Microscopy,
Single Molecule Localization Microscopy,
Network Modelling and Analysis,
Machine Learning.
[bibtex-key = biorxiv_2018_495382]
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Last modified: Thu Aug 1 12:06:05 2024
Author: hamarneh.
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