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United Kingdom

Biography

Cefa received his PhD in Electrical and Electronic Engineering at City, University of London. He obtained his MSc (German Diplom) degree in Physics from Leibniz University of Hannover, Germany with his thesis titled “Circular photo galvanic effects in Quantum Wells” after his BSc degree in Physics in İstanbul, Türkiye. Cefa worked as a lecturer in Mathematics at the Centre for Applied Sciences, City and Islington College, London (Electrical and Electronic Engineering Foundation Year at City, University of London).

He also worked as a Research Fellow and a Lecturer at the Department of Computer Science, City, University of London before he became a Senior Lecturer in Computer Science and Applied Computing at London Metropolitan University. In his research, in collaboration with The Francis Crick Institute, Cefa works on automated segmentation and volumetric analysis of HeLa cancer cells from Electron Microscopy Images. He is a Senior Fellow of the Higher Education Academy (SFHEA) and is a member of The British Machine Vision Association (BMVA), The British Association for Cancer Research (BACR), and the European Association for Cancer Research (EACR). He is also a reviewer of PLOS ONE and IEEE Access.

Activities

Employment (3)

London Metropolitan University: London, GB

2023-07-20 to present | Senior Lecturer in Computer Science and Applied Computing (Computer Science and Applied Computing)
Employment
Source: Self-asserted source
Cefa Karabağ

City, University of London: London, GB

2021-07-16 to 2023-08-31 | Lecturer in Computer Science (Computer Science)
Employment
Source: Self-asserted source
Cefa Karabağ

City and Islington College, Centre for Applied Sciences: London, London, GB

2013-01-11 to 2021-08-31 | Lecturer in Mathematics
Employment
Source: Self-asserted source
Cefa Karabağ

Education and qualifications (5)

City, University of London: London, GB

PhD (Electrical and Electronic Engineering)
Education
Source: Self-asserted source
Cefa Karabağ

London Metropolitan University: London, GB

2010-09-13 to 2011-09-15 | PGCE in Mathematics - QTS
Education
Source: Self-asserted source
Cefa Karabağ

Gottfried Wilhelm Leibniz Universität Hannover: Hannover, DE

2000-04-10 to 2002-04-15 | MSc (Diplom) (Physics)
Education
Source: Self-asserted source
Cefa Karabağ

Istanbul Technical University: Istanbul, TR

1998-10-05 to 1999-06-11 (School of Foreign Languages)
Education
Source: Self-asserted source
Cefa Karabağ

Istanbul University: Istanbul, TR

1994-09-12 to 1998-09-01 | BSc (Physics)
Education
Source: Self-asserted source
Cefa Karabağ

Professional activities (1)

British Association for Cancer Research: Leeds, GB

2019-10-31
Membership
Source: Self-asserted source
Cefa Karabağ

Funding (2)

Circular Photogalvanic Effect in Quantum Wells

2002-04 | Award
Gottfried Wilhelm Leibniz Universität Hannover (Hannover, DE)
Source: Self-asserted source
Cefa Karabağ

Volumetric analysis of HeLa cancer cells imaged with Serial Block Face Scanning Electron Microscopy

2020-09 | Award
City, University of London (London, GB)
Source: Self-asserted source
Cefa Karabağ

Works (21)

DRD-UNet, a UNet-Like Architecture for Multi-Class Breast Cancer Semantic Segmentation

IEEE Access
2024 | Journal article
Contributors: Mauricio Alberto Ortega-Ruíz; Cefa Karabağ; Edgar Roman-Rangel; Constantino Carlos Reyes-Aldasoro
Source: check_circle
Crossref

Image Processing and Machine Learning Techniques for Chagas Disease Detection and Identification

2024 | Book chapter
Contributors: Lavdie Rada; Inass Azzawi; Preet Kumar; Carlos Francisco Brito-Loeza; Cefa Karabağ; Constantino C. Reyes-Aldasoro
Source: check_circle
Crossref

Relationship Between Irregularities of the Nuclear Envelope and Mitochondria in HeLa cells Observed with Electron Microscopy

2023-11-16 | Preprint
Contributors: D. Brito-Pacheco; C. Karabağ; C. Brito-Loeza; P. Giannopoulos; C.C. Reyes-Aldasoro
Source: check_circle
Crossref

Impact of Training Data, Ground Truth and Shape Variability in the Deep Learning-Based Semantic Segmentation of HeLa Cells Observed with Electron Microscopy

Journal of Imaging
2023-03-01 | Journal article
Contributors: Cefa Karabağ; Mauricio Alberto Ortega-Ruíz; Constantino Carlos Reyes-Aldasoro
Source: check_circle
Crossref
grade
Preferred source (of 2)‎

Evaluation of training data, ground truth and shape variability in the semantic segmentation of HeLa cells observed with electron microscopy

2022-06-02 | Preprint
Contributors: C. Karabağ; C.C. Reyes-Aldasoro
Source: check_circle
Crossref

Classification and Visualisation of Normal and Abnormal Radiographs; A Comparison between Eleven Convolutional Neural Network Architectures

Sensors
2021-08-09 | Journal article
Contributors: Ananda Ananda; Kwun Ho Ngan; Cefa Karabağ; Aram Ter-Sarkisov; Eduardo Alonso; Constantino Carlos Reyes-Aldasoro
Source: check_circle
Crossref
grade
Preferred source (of 2)‎

Classification and Visualisation of Normal and Abnormal Radiographs; a comparison between Eleven Convolutional Neural Network Architectures

2021-06-18 | Other
Contributors: Ananda Ananda; Kwun Ho Ngan; Cefa Karabağ; Aram Ter-Sarkisov; Eduardo Alonso; Constantino Carlos Reyes-Aldasoro
Source: check_circle
Crossref

Volumetric Semantic Instance Segmentation of the Plasma Membrane of HeLa Cells

Journal of Imaging
2021-06-01 | Journal article
Contributors: Cefa Karabağ; Martin L. Jones; Constantino Carlos Reyes-Aldasoro
Source: check_circle
Crossref
grade
Preferred source (of 2)‎

Volumetric Semantic Instance Segmentation of the Plasma Membrane of HeLa Cells

2021-04-30 | Preprint
Contributors: Cefa Karabağ; Martin L. Jones; Constantino Carlos Reyes-Aldasoro
Source: check_circle
Crossref

Semantic segmentation of HeLa cells: An objective comparison between one traditional algorithm and four deep-learning architectures

PLOS ONE
2020-10-02 | Journal article
Contributors: Cefa Karabağ; Yuanquan Wang; Martin L. Jones; Christopher J. Peddie; Anne E. Weston; Lucy M. Collinson; Constantino Carlos Reyes-Aldasoro
Source: check_circle
Crossref

Morphological Estimation of Cellularity on Neo-Adjuvant Treated Breast Cancer Histological Images

Journal of Imaging
2020-09-27 | Journal article
Contributors: Mauricio Alberto Ortega-Ruiz; Cefa Karabağ; Victor García Garduño; Constantino Carlos Reyes-Aldasoro
Source: check_circle
Crossref
grade
Preferred source (of 2)‎

Geometric differences between nuclear envelopes of Wild-type and Chlamydia trachomatis-infected HeLa cells

2020-04-02 | Preprint
Contributors: Cefa Karabağ; Martin L. Jones; Christopher J. Peddie; Anne E. Weston; Lucy M. Collinson; Constantino Carlos Reyes-Aldasoro
Source: check_circle
Crossref

Semantic Segmentation of HeLa Cells: An Objective Comparison between one Traditional Algorithm and Three Deep-Learning Architectures

2020-03-05 | Preprint
Contributors: Cefa Karabağ; Martin L. Jones; Christopher J. Peddie; Anne E. Weston; Lucy M. Collinson; Constantino Carlos Reyes-Aldasoro
Source: check_circle
Crossref

Texture Segmentation: An Objective Comparison between Five Traditional Algorithms and a Deep-Learning U-Net Architecture

2019-09-17 | Journal article
Source: Self-asserted source
Cefa Karabağ

Segmentation and Modelling of the Nuclear Envelope of HeLa Cells Imaged with Serial Block Face Scanning Electron Microscopy

Journal of Imaging
2019-09-12 | Journal article
Contributors: Cefa Karabağ; Martin L. Jones; Christopher J. Peddie; Anne E. Weston; Lucy M. Collinson; Constantino Carlos Reyes-Aldasoro
Source: check_circle
Crossref

Segmentation and Modelling of the Nuclear Envelope of HeLa Cells Imaged with Serial Block Face Scanning Electron Microscopy

2019-09-12 | Journal article
Source: Self-asserted source
Cefa Karabağ

Texture Segmentation: An Objective Comparison between Traditional and Deep-Learning Methodologies

2019-08-01 | Preprint
Source: Self-asserted source
Cefa Karabağ

Segmentation And Modelling of HeLa Nuclear Envelope

2019 IEEE 16th International Symposium on Biomedical Imaging (ISBI 2019)
2019-04-08 | Conference paper
Source: Self-asserted source
Cefa Karabağ

Automated Segmentation of HeLa Nuclear Envelope from Electron Microscopy Images

The British Association for Cancer Research Conference
2018-11-26 | Conference poster
Source: Self-asserted source
Cefa Karabağ

Automated segmentation of HeLa nuclear envelope from electron microscopy images

22nd Annual Conference on Medical Image Understanding and Analysis (MIUA)
2018-07-09 | Conference paper
Source: Self-asserted source
Cefa Karabağ

Modelling the nuclear envelope of HeLa cells

2018-06-12 | Preprint
Source: Self-asserted source
Cefa Karabağ

Peer review (1 review for 1 publication/grant)

Review activity for PloS one. (1)