BACK TO INDEX
Publications about 'Single Molecule Localization Microscopy'
|
Articles in journal, book chapters
|
-
Timothy H. Wong,
Ismail M. Khater,
Bharat Joshi,
Mona Shahsavari,
Ghassan Hamarneh,
and Ivan Robert Nabi.
Single molecule network analysis identifies structural changes to caveolae and scaffolds due to mutation of the caveolin-1 scaffolding domain (Wong and Khater: Joint first authors; Hamarneh and Nabi: Joint senior authors).
Nature - Scientific Reports,
11(7810):1-14,
2021.
Keyword(s): Super Resolution Microscopy,
Single Molecule Localization Microscopy,
Machine Learning.
[bibtex-key = nature_sr2021]
-
Ben Cardoen,
Hanene Ben Yedder,
Anmol Sharma,
Keng C. Chou,
Ivan Robert Nabi,
and Ghassan Hamarneh.
ERGO: Efficient Recurrent Graph Optimized Emitter Density Estimation in Single Molecule Localization Microscopy.
IEEE Transactions on Medical Imaging (IEEE TMI),
39(6):1942-1956,
2020.
Keyword(s): Super Resolution Microscopy,
Single Molecule Localization Microscopy,
Machine Learning.
[bibtex-key = tmi2020]
-
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]
-
Rory Long,
Kathleen Moriarty,
Ben Cardoen,
Guang Gao,
A. Wayne Vogl,
François Jean,
Ghassan Hamarneh,
and Ivan Robert Nabi.
Super Resolution Microscopy and Deep Learning Identify Zika Virus Reorganization of the Endoplasmic Reticulum (Long and Moriarty: Joint first authors; Hamarneh and Nabi: Joint senior authors).
Nature - Scientific reports,
10(20937):1-18,
2020.
Keyword(s): Super Resolution Microscopy,
Single Molecule Localization Microscopy,
Machine Learning,
Deep Learning.
[bibtex-key = nature_sr2020a]
-
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]
-
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]
-
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]
-
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]
-
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]
-
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]
-
Ben Cardoen and Ghassan Hamarneh.
Learning to look beyond what we can see: Leveraging statistical learning to improve scientific discovery from fluorescence microscopy.
In Biomedical Imaging and Artificial Intelligence (BMIAI) cluster Fall Research Showcase, Vancouver, Canada,
pages 1,
2021.
Keyword(s): Super Resolution Microscopy,
Single Molecule Localization Microscopy,
Machine Learning,
Deep Learning,
Processing,
Belief Theory.
[bibtex-key = bmiai2021a]
-
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]
-
Ben Cardoen,
Timothy H. Wong,
Parsa Alan,
Sieun Lee,
Joanne Aiko Matsubara,
Ivan Robert Nabi,
and Ghassan Hamarneh.
Automatic identification of protein complexes in multi-scale microscopy with applications tometastasis and Alzheimer disease.
In The 2nd Annual Tri-Cluster Research Day, Canada,
pages 1,
2020.
Keyword(s): Super Resolution Microscopy,
Single Molecule Localization Microscopy,
Machine Learning,
Processing,
Belief Theory.
[bibtex-key = tricluster2020b]
-
Ben Cardoen,
Timothy H. Wong,
Parsa Alan,
Sieun Lee,
Joanne Aiko Matsubara,
Ivan Robert Nabi,
and Ghassan Hamarneh.
Belief theory enables identification of protein complexes in multi-scale microscopy with applications to metastasis and Alzheimer disease.
In Centre for Artificial Intelligence Decision-making and Action (CAIDA), BC's AI Showcase, Canada,
pages 1,
2020.
Keyword(s): Super Resolution Microscopy,
Single Molecule Localization Microscopy,
Machine Learning,
Processing,
Belief Theory.
[bibtex-key = caida2020b]
-
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]
-
Ben Cardoen,
Fiona Dickson,
Ismail M. Khater,
Ivan Robert Nabi,
and Ghassan Hamarneh.
Interaction zone analysis of CAV1 - CAVIN1 in breast cancer cells.
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,
Machine Learning.
[bibtex-key = embo2019a]
-
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]
-
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]
-
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]
-
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]
-
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]
-
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]
-
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]
-
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]
-
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]
-
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]
-
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]
-
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]
-
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]
-
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]
-
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]
-
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]
-
Y. Lydia Li,
Ismail M. Khater,
Christian Hallgrimson,
Timothy H. Wong,
Ghassan Hamarneh,
and Ivan Robert Nabi.
Super-resolution single molecule network analysis (SuperResNET) detects changes to clathrin structure by small molecule inhibitors (Wong and Khater: Joint first authors; Hamarneh and Nabi: Joint senior authors).
Technical report biorxiv:2024.03.07.583946,
3 2024.
Keyword(s): Super Resolution Microscopy,
Single Molecule Localization Microscopy,
Color/Multichannel/Vector-valued,
Image Reconstruction.
[bibtex-key = biorxiv_2024_03_07_583946]
-
Y. Lydia Li,
Ismail M. Khater,
Christian Hallgrimson,
Timothy H. Wong,
Ghassan Hamarneh,
and Ivan Robert Nabi.
SuperResNET single molecule localization microscopy model-free network analysis of Nup96 achieves molecular resolution (Li and Khater: Joint first authors; Hamarneh and Nabi: Joint senior authors).
Technical report biorxiv:2024.03.12.584716,
3 2024.
Keyword(s): Super Resolution Microscopy,
Single Molecule Localization Microscopy,
Color/Multichannel/Vector-valued,
Image Reconstruction.
[bibtex-key = biorxiv_2024_03_12_584716]
-
Parsa Alan,
Kurt Vandevoorde,
Bharat Joshi,
Ben Cardoen,
Guang Gao,
Yahya Mohammadzadeh,
Ghassan Hamarneh,
and Ivan Robert Nabi.
Basal Gp78-dependent mitophagy promotes mitochondrial health and limits mitochondrial ROS (Alan, Vandevoorde, Joshi, and Cardoen: Joint first authors; Hamarneh and Nabi: Joint senior authors).
Technical report Research Square (Preprint) 1559637,
4 2022.
Keyword(s): Super Resolution Microscopy,
Single Molecule Localization Microscopy,
Machine Learning,
Deep Learning,
Image Processing,
Belief Theory.
[bibtex-key = research_square2022_1559637]
-
Ben Cardoen,
Guang Gao,
Kurt Vandevoorde,
Parsa Alan,
William Liu,
Ghassan Hamarneh,
and Ivan Robert Nabi.
Automatic sub-precision membrane contact site detection identifies convoluted tubular riboMERCs (Cardoen, Gao, Vandevoorde: Joint first authors; Hamarneh and Nabi: Joint senior authors).
Technical report biorxiv:2022.06.23.497346,
6 2022.
Keyword(s): Super Resolution Microscopy,
Single Molecule Localization Microscopy,
Color/Multichannel/Vector-valued,
Image Reconstruction.
[bibtex-key = biorxiv_2022_06_23_497346]
-
Ben Cardoen,
Timothy H. Wong,
Parsa Alan,
Sieun Lee,
Joanne Aiko Matsubara,
Ivan Robert Nabi,
and Ghassan Hamarneh.
SPECHT: Self-tuning Plausibility Based Object Detection Enables Quantification of Conflict in Heterogeneous Multi-scale Microscopy (Nabi and Hamarneh: Joint senior authors).
Technical report techrxiv:12971051,
9 2020.
Keyword(s): Super Resolution Microscopy,
Single Molecule Localization Microscopy,
Machine Learning,
Processing,
Belief Theory,
Object Detection,
Datasets.
[bibtex-key = techrxiv_12971051]
-
Rory Long,
Kathleen Moriarty,
Ben Cardoen,
Guang Gao,
A. Wayne Vogl,
François Jean,
Ghassan Hamarneh,
and Ivan Robert Nabi.
Super Resolution Microscopy and Deep Learning Identify Zika Virus Reorganization of the Endoplasmic Reticulum (Long and Moriarty: Joint first authors; Hamarneh and Nabi: Joint senior authors.
Technical report biorxiv:091611,
5 2020.
Keyword(s): Super Resolution Microscopy,
Single Molecule Localization Microscopy,
Machine Learning,
Deep Learning.
[bibtex-key = biorxiv_2020_091611]
-
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]
-
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]
BACK TO INDEX
Disclaimer:
This material is presented to ensure timely dissemination of
scholarly and technical work. Copyright and all rights therein
are retained by authors or by other copyright holders.
All person copying this information are expected to adhere to
the terms and constraints invoked by each author's copyright.
In most cases, these works may not be reposted
without the explicit permission of the copyright holder.
Last modified: Thu Aug 1 12:06:05 2024
Author: hamarneh.
This document was translated from BibTEX by
bibtex2html