Show/Hide Menu
Hide/Show Apps
Logout
Türkçe
Türkçe
Search
Search
Login
Login
OpenMETU
OpenMETU
About
About
Open Science Policy
Open Science Policy
Open Access Guideline
Open Access Guideline
Postgraduate Thesis Guideline
Postgraduate Thesis Guideline
Communities & Collections
Communities & Collections
Help
Help
Frequently Asked Questions
Frequently Asked Questions
Guides
Guides
Thesis submission
Thesis submission
MS without thesis term project submission
MS without thesis term project submission
Publication submission with DOI
Publication submission with DOI
Publication submission
Publication submission
Supporting Information
Supporting Information
General Information
General Information
Copyright, Embargo and License
Copyright, Embargo and License
Contact us
Contact us
Semi-automatic segmentation of mitochondria on transmission electron microscopy images using live-wire and surface dragging methods
Download
index.pdf
Date
2017
Author
Farzin Asanjan, Mahdieh
Metadata
Show full item record
Item Usage Stats
259
views
96
downloads
Cite This
Mitochondria are cytoplasmic organelles of the cell, which have significant role in the variety of cellular metabolic functions. Mitochondria act as the power plants of the cell, and are surrounded by two membranes. Significant morphological alterations are often due to changes in mitochondrial functions. A powerful technique in order to study the three-dimensional (3D) structure of mitochondria and its alterations in disease states is Electron microscope tomography. Due to the presence of various subcellular structures and imaging artifacts, the detection of mitochondria in electron microscopy images is a challenging problem. Another challenge is that each image typically contains more than one mitochondrion. Hand segmentation of mitochondria is tedious and time consuming and also special knowledge about the mitochondria is needed. Fully automatic segmentation methods lead to over segmentation and mitochondria are not segmented properly. Therefore, semi-automatic segmentation methods with minimum manual effort are required to edit the results of fully automatic segmentation methods. In this thesis two editing tools were implemented by applying spline surface dragging and interactive live-wire segmentation tools. These editing tools were applied separately on the results of fully automatic segmentation. 3D extension of these tools were also studied and tested. Dice coefficients of 2D and 3D for surface dragging using splines were 0.93 and 0.92. This metric for 2D and 3D for live-wire method were 0.94 and 0.91 respectively. The root mean square symmetric surface distance values of 2D and 3D for surface dragging was measured as 0.69, 0.93. The same metrics for live-wire tool were 0.60 and 2.11.
Subject Keywords
Mitochondria.
,
Diagnostic imaging.
,
Imaging systems in medicine.
URI
http://etd.lib.metu.edu.tr/upload/12621639/index.pdf
https://hdl.handle.net/11511/26922
Collections
Graduate School of Informatics, Thesis
Suggestions
OpenMETU
Core
Semi-automatic segmentation of mitochondria on electron microscopy images using kalman filtering approach
Mohammadi Alamdari, Aynaz; Mumcuoğlu, Ünal Erkan; Department of Medical Informatics (2016)
Mitochondria are membrane bound organelles found in most eukaryotic cells. Mitochondria provide cell’s energy; hence they are called ‘power houses of the cell’. The structure of mitochondria can be illustrated in an electron micrograph. This structure has two membranes: inner and outer. There is a gap between these two membranes, called inter-membrane space. Folds of inner membrane inside the mitochondria form the cristae. To study the relation between mitochondria’s physical structure and its function, ele...
Detection and segmentation of mitochondria from electron microscope tomography images
Taşel, Faris Serdar; Mumcuoğlu, Ünal Erkan; Hassanpour, Reza Zare; Department of Medical Informatics (2016)
Recent studies exhibit that mitochondria have a significant role in cellular functions that are associated to the diseases of aging caused by neuron degeneration. These studies accentuate that the peripheral membrane and crista morphology of a mitochondrion deserves attention in order to reveal the relation between mitochondrial function and its physical structure. The analysis of the inner structures of mitochondria is carried out by electron microscope tomography (EMT) which provides detailed visualizatio...
Molecular docking study of fda-approved drugs to inhibit the bacterial ribosome
Ateş, Beril; Yüce, Merve; Levitaş, Ozge Kurkcuoglu; Sungur, Fethiye Aylin (Orta Doğu Teknik Üniversitesi Enformatik Enstitüsü; 2022-10)
Ribosomes are large macromolecular complexes responsible for cellular protein synthesis. It consists of two subunits; called 30S small and 50S large subunits in bacteria, involving antibiotic binding regions. This mac- romolecular machine is one of the significant targets of conventional antibiotics because protein synthesis can be stopped by targeting functional sites in the ribosome. For instance, several antibiotics target the decoding center responsible for deciphering the genetic code, as well as mRNA ...
Highly-sensitive and fast detection of human telomeric G-Quadruplex DNA based on a hemin-conjugated fluorescent metal-organic framework platform
Javan Kouzegaran, Vahid; Farhadi, Khalil; Forough, Mehrdad; Bahram, Morteza; Persil Çetinkol, Özgül (Elsevier BV, 2021-04-15)
© 2021 Elsevier B.V.The formation of G-quadruplex (G4) structures in Human telomeric DNA (H-Telo) has been demonstrated to inhibit the activity of telomerase enzyme that is associated with the proliferation of many cancer cells. Accordingly, G-quadruplex structures have become one of the well-established targets in anticancer therapeutic strategies. And, the development of simple and selective detection platforms for G4 structures has become a significant focus of research in recent years. In this study, a ...
Dual current injection-magnetic resonance electrical impedance tomography using spatial modulation of magnetization
Naji, Nashwan; Eyüboğlu, Behçet Murat; Department of Electrical and Electronics Engineering (2016)
Electrical conductivity of biological tissues provides valuable information on physiological and pathological state of tissues. This may provide conductivity imaging a great potential to have diagnostic applications in clinical field. Developing a method that is able to recognize conductivity variations inside human body has received a great attention over the last decades. Magnetic Resonance Electrical Impedance Tomography (MREIT) is an imaging modality that utilizes current injection during magnetic reson...
Citation Formats
IEEE
ACM
APA
CHICAGO
MLA
BibTeX
M. Farzin Asanjan, “Semi-automatic segmentation of mitochondria on transmission electron microscopy images using live-wire and surface dragging methods,” M.S. - Master of Science, Middle East Technical University, 2017.