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Publications of Parsa Alan at Hamarneh Lab
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Articles in journal, book chapters
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Ben Cardoen,
Kurt Vandevoorde,
Guang Gao,
Milene Ortiz-Silva,
Parsa Alan,
Ellie Tiliakou,
William Liu,
A. Wayne Vogl,
Ghassan Hamarneh,
and Ivan Robert Nabi.
Membrane contact site detection (MCS-DETECT) reveals dual control of rough mitochondria-ER contacts (Cardoen, Vandevoorde, Gao, and Ortiz: Joint first authors; Hamarneh and Nabi: Joint senior authors).
The Journal Of Cell Biology (JCB),
1(jcb.202206109):000-000,
11 2023.
Keyword(s): Super Resolution Microscopy,
Object Detection,
Restoration,
Reconstruction,
Interaction.
[bibtex-key = jcb2023]
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Parsa Alan,
Bharat Joshi,
Ben Cardoen,
Kurt Vandevoorde,
Guang Gao,
Peter Overby,
James D. Johnson,
Ghassan Hamarneh,
and Ivan Robert Nabi.
Basal Gp78-dependent mitophagy promotes mitochondrial health and limits mitochondrial ROS (Alan, Joshi, Cardoen, and Vandevoorde: Joint first authors; Hamarneh and Nabi: Joint senior authors).
Cellular and Molecular Life Sciences (CMLS),
79(565):1-20,
2022.
Keyword(s): Super Resolution Microscopy,
Image Processing,
Belief Theory.
[bibtex-key = cmls2022]
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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).
PLOS ONE,
17(12):e0276726,
2022.
Keyword(s): Super Resolution Microscopy,
Machine Learning,
Classification,
Belief Theory,
Biomarkers/Biosignatures,
Generalizability.
[bibtex-key = plosone2022]
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Ben Cardoen,
Kurt Vandevoorde,
Guang Gao,
Milene Ortiz-Silva,
Parsa Alan,
Ellie Tiliakou,
William Liu,
A. Wayne Vogl,
Ghassan Hamarneh,
and Ivan Robert Nabi.
Membrane contact site detection (MCS-DETECT) reveals dual control of rough mitochondria–ER contacts (Cardoen, Vandevoorde, Gao, and Ortiz: Joint first authors; Hamarneh and Nabi: Joint senior authors).
In Keystone Symposia on Molecular and Cellular Biology - Organelle Membrane Contact Sites in Health and Disease (Joint with: Mitochondria Signaling and Disease),
pages 1,
2024.
Keyword(s): Super Resolution Microscopy,
Object Detection,
Restoration,
Reconstruction,
Interaction.
[bibtex-key = ksmcb2024a]
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Parsa Alan,
Bharat Joshi,
Ben Cardoen,
Kurt Vandevoorde,
Guang Gao,
Peter Overby,
James D. Johnson,
Ghassan Hamarneh,
and Ivan Robert Nabi.
Basal Gp78-dependent mitophagy promotes mitochondrial health and limits mitochondrial ROS (Alan, Joshi, Cardoen, and Vandevoorde: Joint first authors; Hamarneh and Nabi: Joint senior authors).
In American Society of Cell Biology (ASCB) - Cell Bio,
2022.
Keyword(s): Super Resolution Microscopy,
Image Processing,
Belief Theory.
[bibtex-key = ascb2022c]
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Parsa Alan,
Kurt Vandevoorde,
Bharat Joshi,
Ben Cardoen,
Guang Goa,
Ghassan Hamarneh,
and Ivan Robert Nabi.
Basal Gp78-dependent mitophagy promotes mitochondrial health and limits mitochondrial ROS.
In UBC SBME 2022,
2022.
Keyword(s): Super Resolution Microscopy,
Image Processing,
Belief Theory.
[bibtex-key = sbme2022]
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Ben Cardoen,
Kurt Vandevoorde,
Guang Gao,
Parsa Alan,
Ellie Tiliakou,
William Liu,
A. Wayne Vogl,
Ghassan Hamarneh,
and Ivan Robert Nabi.
A novel sub-precision detection method (MCS-DETECT) identifies shape complexity of mitochondria-ER contacts (MERCs) in 3D STED super-resolution microscopy (Cardoen, Vandervoorde, and Gao: Joint first authors; Hamarneh and Nabi: Joint senior authors).
In American Society of Cell Biology (ASCB) - Cell Bio,
2022.
Keyword(s): Object Detection,
Super Resolution Microscopy.
[bibtex-key = ascb2022a]
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Ben Cardoen,
Timothy H. Wong,
Parsa Alan,
Sieun Lee,
Joanne Aiko Matsubara,
Ivan Robert Nabi,
and Ghassan Hamarneh.
Self-tuning Weakly Supervised Object Detection (SPECHT) of Sub-Diffraction Limited Caveolae and Scaffold and Amyloid-Beta Deposits.
In American Society of Cell Biology -- Cell Bio 2021,
2021.
Keyword(s): Object Detection,
Super Resolution Microscopy,
Belief Theory,
Datasets.
[bibtex-key = cellbio2021]
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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]
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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]
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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]
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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]
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Parsa Alan,
Bharat Joshi,
Ben Cardoen,
Kurt Vandevoorde,
Guang Gao,
Yahya Mohammadzadeh,
Ghassan Hamarneh,
and Ivan Robert Nabi.
Gp78-mediated basal mitophagy promotes mitochondrial health and limits mitochondrial ROS production (Alan, Joshi, Cardoen, and Vandevoorde: Joint first authors; Hamarneh and Nabi: Joint senior authors).
Technical report biorxiv:2021.09.17.460825,
9 2021.
Keyword(s): Super Resolution Microscopy,
Image Processing,
Belief Theory.
[bibtex-key = biorxiv_2021_09_17_460825]
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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]
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Last modified: Thu Aug 1 12:06:05 2024
Author: hamarneh.
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