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Employment (3)

Indiana University Health: Indianapolis, Indiana, US

2023-09-01 to present | Director, Division of Computational Pathology (Pathology & Laboratory Medicine)
Employment
Source: Self-asserted source
Spyridon Bakas

Indiana University: IN, IN, US

2023-09-01 to present | Associate Professor (Pathology & Laboratory Medicine - joint appt with Radiology, Neurosurgery, and Biostatistics)
Employment
Source: Self-asserted source
Spyridon Bakas

University of Pennsylvania Perelman School of Medicine: Philadelphia, PA, US

2021-07-01 to 2023-08-31 | Assistant Professor (Pathology & Laboratory Medicine - joint appt with Radiology)
Employment
Source: Self-asserted source
Spyridon Bakas

Funding (1)

The Federated Tumor Segmentation (FeTS) platform: An intuitive tool facilitating secure multi-institutional collaboration

2019-09-05 to 2023-08-31 | Grant
National Cancer Institute (Bethesda, US)
URL: https://app.dimensions.ai/details/grant/grant.8631451
GRANT_NUMBER: U01CA242871
Source: Self-asserted source
Spyridon Bakas via DimensionsWizard

Works (35)

Leveraging 2D Deep Learning ImageNet-trained Models for Native 3D Medical Image Analysis

2023 | Book chapter
DOI: 10.1007/978-3-031-33842-7_6
Contributors: Bhakti Baheti; Sarthak Pati; Bjoern Menze; Spyridon Bakas
Source: check_circle
Crossref

Ethical Considerations and Fairness in the Use of Artificial Intelligence for Neuroradiology

American Journal of Neuroradiology
2023-11 | Journal article
DOI: 10.3174/ajnr.A7963
Contributors: C.G. Filippi; J.M. Stein; Z. Wang; S. Bakas; Y. Liu; P.D. Chang; Y. Lui; C. Hess; D.P. Barboriak; A.E. Flanders et al.
Source: check_circle
Crossref

Association of partial T2-FLAIR mismatch sign and isocitrate dehydrogenase mutation in WHO grade 4 gliomas: results from the ReSPOND consortium

Neuroradiology
2023-09 | Journal article
DOI: 10.1007/s00234-023-03196-9
Contributors: Matthew D. Lee; Sohil H. Patel; Suyash Mohan; Hamed Akbari; Spyridon Bakas; MacLean P. Nasrallah; Evan Calabrese; Jeffrey Rudie; Javier Villanueva-Meyer; Pamela LaMontagne et al.
Source: check_circle
Crossref

Within-Modality Synthesis and Novel Radiomic Evaluation of Brain MRI Scans

Cancers
2023-07-10 | Journal article
DOI: 10.3390/cancers15143565
Contributors: Seyed Masoud Rezaeijo; Nahid Chegeni; Fariborz Baghaei Naeini; Dimitrios Makris; Spyridon Bakas
Source: check_circle
Crossref
grade
Preferred source (of 2)‎

CheckList for EvaluAtion of Radiomics research (CLEAR): a step-by-step reporting guideline for authors and reviewers endorsed by ESR and EuSoMII

Insights into Imaging
2023-05-04 | Journal article
DOI: 10.1186/s13244-023-01415-8
Contributors: Burak Kocak; Bettina Baessler; Spyridon Bakas; Renato Cuocolo; Andrey Fedorov; Lena Maier-Hein; Nathaniel Mercaldo; Henning Müller; Fanny Orlhac; Daniel Pinto dos Santos et al.
Source: check_circle
Crossref

Classification of Infection and Ischemia in Diabetic Foot Ulcers Using VGG Architectures

2022 | Book chapter
DOI: 10.1007/978-3-030-94907-5_6
Contributors: Orhun Güley; Sarthak Pati; Spyridon Bakas
Source: check_circle
Crossref

Optimization of Deep Learning Based Brain Extraction in MRI for Low Resource Environments

2022 | Book chapter
DOI: 10.1007/978-3-031-08999-2_12
Contributors: Siddhesh P. Thakur; Sarthak Pati; Ravi Panchumarthy; Deepthi Karkada; Junwen Wu; Dmitry Kurtaev; Chiharu Sako; Prashant Shah; Spyridon Bakas
Source: check_circle
Crossref

The University of California San Francisco Preoperative Diffuse Glioma MRI Dataset

Radiology: Artificial Intelligence
2022-11-01 | Journal article
DOI: 10.1148/ryai.220058
Contributors: Evan Calabrese; Javier E. Villanueva-Meyer; Jeffrey D. Rudie; Andreas M. Rauschecker; Ujjwal Baid; Spyridon Bakas; Soonmee Cha; John T. Mongan; Christopher P. Hess
Source: check_circle
Crossref

The University of Pennsylvania glioblastoma (UPenn-GBM) cohort: advanced MRI, clinical, genomics, & radiomics

Scientific Data
2022-07-29 | Journal article
DOI: 10.1038/s41597-022-01560-7
Contributors: Spyridon Bakas; Chiharu Sako; Hamed Akbari; Michel Bilello; Aristeidis Sotiras; Gaurav Shukla; Jeffrey D. Rudie; Natali Flores Santamaría; Anahita Fathi Kazerooni; Sarthak Pati et al.
Source: check_circle
Crossref

The Medical Segmentation Decathlon

Nature Communications
2022-07-15 | Journal article
DOI: 10.1038/s41467-022-30695-9
Contributors: Michela Antonelli; Annika Reinke; Spyridon Bakas; Keyvan Farahani; Annette Kopp-Schneider; Bennett A. Landman; Geert Litjens; Bjoern Menze; Olaf Ronneberger; Ronald M. Summers et al.
Source: check_circle
Crossref

Enhancing the REMBRANDT MRI collection with expert segmentation labels and quantitative radiomic features

Scientific Data
2022-06-14 | Journal article
DOI: 10.1038/s41597-022-01415-1
Contributors: Anousheh Sayah; Camelia Bencheqroun; Krithika Bhuvaneshwar; Anas Belouali; Spyridon Bakas; Chiharu Sako; Christos Davatzikos; Adil Alaoui; Subha Madhavan; Yuriy Gusev
Source: check_circle
Crossref

Quantifying T2-FLAIR Mismatch Using Geographically Weighted Regression and Predicting Molecular Status in Lower-Grade Gliomas

American Journal of Neuroradiology
2022-01 | Journal article
DOI: 10.3174/ajnr.A7341
Contributors: S. Mohammed; V. Ravikumar; E. Warner; S.H. Patel; S. Bakas; A. Rao; R. Jain
Source: check_circle
Crossref

Interactive Machine Learning-Based Multi-Label Segmentation of Solid Tumors and Organs

Applied Sciences
2021-08-15 | Journal article
DOI: 10.3390/app11167488
Contributors: Dimitrios Bounias; Ashish Singh; Spyridon Bakas; Sarthak Pati; Saima Rathore; Hamed Akbari; Michel Bilello; Benjamin A. Greenberger; Joseph Lombardo; Rhea D. Chitalia et al.
Source: check_circle
Crossref
grade
Preferred source (of 2)‎

Accurate and Robust Alignment of Differently Stained Histologic Images Based on Greedy Diffeomorphic Registration

Applied Sciences
2021-02-21 | Journal article
DOI: 10.3390/app11041892
Contributors: Ludovic Venet; Sarthak Pati; Michael D. Feldman; MacLean P. Nasrallah; Paul Yushkevich; Spyridon Bakas
Source: check_circle
Crossref
grade
Preferred source (of 2)‎

Skull-Stripping of Glioblastoma MRI Scans Using 3D Deep Learning

2020 | Book chapter
DOI: 10.1007/978-3-030-46640-4_6
Contributors: Siddhesh P. Thakur; Jimit Doshi; Sarthak Pati; Sung Min Ha; Chiharu Sako; Sanjay Talbar; Uday Kulkarni; Christos Davatzikos; Guray Erus; Spyridon Bakas
Source: check_circle
Crossref

Towards Population-Based Histologic Stain Normalization of Glioblastoma

2020 | Book chapter
DOI: 10.1007/978-3-030-46640-4_5
Contributors: Caleb M. Grenko; Angela N. Viaene; MacLean P. Nasrallah; Michael D. Feldman; Hamed Akbari; Spyridon Bakas
Source: check_circle
Crossref

ANHIR: Automatic Non-Rigid Histological Image Registration Challenge

IEEE Transactions on Medical Imaging
2020-10 | Journal article
DOI: 10.1109/TMI.2020.2986331
Contributors: Jiri Borovec; Jan Kybic; Ignacio Arganda-Carreras; Dmitry V. Sorokin; Gloria Bueno; Alexander V. Khvostikov; Spyridon Bakas; Eric I-Chao Chang; Stefan Heldmann; Kimmo Kartasalo et al.
Source: check_circle
Crossref

iGLASS: imaging integration into the Glioma Longitudinal Analysis Consortium

Neuro-Oncology
2020-10-14 | Journal article
DOI: 10.1093/neuonc/noaa160
Contributors: Spyridon Bakas; David Ryan Ormond; Kristin D Alfaro-Munoz; Marion Smits; Lee Alex Donald Cooper; Roel Verhaak; Laila M Poisson
Source: check_circle
Crossref

Imaging signatures of glioblastoma molecular characteristics: A radiogenomics review

Journal of Magnetic Resonance Imaging
2020-07 | Journal article
DOI: 10.1002/jmri.26907
Contributors: Anahita Fathi Kazerooni; Spyridon Bakas; Hamidreza Saligheh Rad; Christos Davatzikos
Source: check_circle
Crossref

The Image Biomarker Standardization Initiative: Standardized Quantitative Radiomics for High-Throughput Image-based Phenotyping

Radiology
2020-05-10 | Journal article
DOI: 10.1148/radiol.2020191145
Contributors: Alex Zwanenburg; Martin Vallières; Mahmoud A. Abdalah; Hugo J. W. L. Aerts; Vincent Andrearczyk; Aditya Apte; Saeed Ashrafinia; Spyridon Bakas; Roelof J. Beukinga; Ronald Boellaard et al.
Source: check_circle
Crossref

Longitudinal brain tumor segmentation prediction in MRI using feature and label fusion

Biomedical Signal Processing and Control
2020-01 | Journal article
DOI: 10.1016/j.bspc.2019.101648
Contributors: Linmin Pei; Spyridon Bakas; Arastoo Vossough; Syed M.S. Reza; Christos Davatzikos; Khan M. Iftekharuddin
Source: check_circle
Crossref

Multi-institutional Deep Learning Modeling Without Sharing Patient Data: A Feasibility Study on Brain Tumor Segmentation

2019 | Book chapter
DOI: 10.1007/978-3-030-11723-8_9
Contributors: Micah J. Sheller; G. Anthony Reina; Brandon Edwards; Jason Martin; Spyridon Bakas
Source: check_circle
Crossref

Multi-stage Association Analysis of Glioblastoma Gene Expressions with Texture and Spatial Patterns

2019 | Book chapter
DOI: 10.1007/978-3-030-11723-8_24
Contributors: Samar S. M. Elsheikh; Spyridon Bakas; Nicola J. Mulder; Emile R. Chimusa; Christos Davatzikos; Alessandro Crimi
Source: check_circle
Crossref

Precision diagnostics based on machine learning-derived imaging signatures

Magnetic Resonance Imaging
2019-12 | Journal article
DOI: 10.1016/j.mri.2019.04.012
Contributors: Christos Davatzikos; Aristeidis Sotiras; Yong Fan; Mohamad Habes; Guray Erus; Saima Rathore; Spyridon Bakas; Rhea Chitalia; Aimilia Gastounioti; Despina Kontos
Source: check_circle
Crossref

Evaluation of Indirect Methods for Motion Compensation in 2-D Focal Liver Lesion Contrast-Enhanced Ultrasound (CEUS) Imaging

Ultrasound in Medicine & Biology
2019-06 | Journal article
DOI: 10.1016/j.ultrasmedbio.2019.01.023
Contributors: Spyridon Bakas; Matthaios Doulgerakis-Kontoudis; Gordon J.A. Hunter; Paul S. Sidhu; Dimitrios Makris; Katerina Chatzimichail
Source: check_circle
Crossref

Computational staining of unlabelled tissue

Nature Biomedical Engineering
2019-06-07 | Journal article
DOI: 10.1038/s41551-019-0414-3
Contributors: Spyridon Bakas; Michael D. Feldman
Source: check_circle
Crossref

Automatic Identification of the Optimal Reference Frame for Segmentation and Quantification of Focal Liver Lesions in Contrast-Enhanced Ultrasound.

Ultrasound in medicine & biology
2017-10 | Journal article
DOI: 10.1016/j.ultrasmedbio.2017.06.005
PMID: 28705557
Source: Self-asserted source
Spyridon Bakas via Europe PubMed Central

Advancing The Cancer Genome Atlas glioma MRI collections with expert segmentation labels and radiomic features

Scientific Data
2017-09-05 | Journal article
DOI: 10.1038/sdata.2017.117
Contributors: Spyridon Bakas; Hamed Akbari; Aristeidis Sotiras; Michel Bilello; Martin Rozycki; Justin S. Kirby; John B. Freymann; Keyvan Farahani; Christos Davatzikos
Source: check_circle
Crossref

Fast semi-automatic segmentation of focal liver lesions in contrast-enhanced ultrasound, based on a probabilistic model

Computer Methods in Biomechanics and Biomedical Engineering: Imaging & Visualization
2017-09-03 | Journal article
DOI: 10.1080/21681163.2015.1029642
Contributors: Spyridon Bakas; Katerina Chatzimichail; Gordon Hunter; Bastien Labbé; Paul S. Sidhu; Dimitrios Makris
Source: check_circle
Crossref

Advanced magnetic resonance imaging in glioblastoma: a review.

Chinese clinical oncology
2017-08 | Journal article
DOI: 10.21037/cco.2017.06.28
PMID: 28841802
Source: Self-asserted source
Spyridon Bakas via Europe PubMed Central

In Vivo Detection of EGFRvIII in Glioblastoma via Perfusion Magnetic Resonance Imaging Signature Consistent with Deep Peritumoral Infiltration: The φ-Index.

Clinical cancer research : an official journal of the American Association for Cancer Research
2017-08 | Journal article
DOI: 10.1158/1078-0432.ccr-16-1871
PMID: 28428190
Source: Self-asserted source
Spyridon Bakas via Europe PubMed Central

Correlations of atrial diameter and frontooccipital horn ratio with ventricle size in fetal ventriculomegaly.

Journal of neurosurgery. Pediatrics
2017-03 | Journal article
DOI: 10.3171/2016.9.peds16210
PMID: 28059680
Source: Self-asserted source
Spyridon Bakas via Europe PubMed Central

GLISTRboost: Combining Multimodal MRI Segmentation, Registration, and Biophysical Tumor Growth Modeling with Gradient Boosting Machines for Glioma Segmentation.

Brainlesion: Glioma, Multiple Sclerosis, Stroke and Traumatic Brain Injuries : First International Workshop, Brainles 2015, Held in Conjunction with MICCAI 2015, Munich, Germany, October 5, 2015, Revised Selected Papers
2016 | Journal article
DOI: 10.1007/978-3-319-30858-6_1
PMID: 28725877
PMC: PMC5513179
Source: Self-asserted source
Spyridon Bakas via Europe PubMed Central

Segmentation of Gliomas in Pre-operative and Post-operative Multimodal Magnetic Resonance Imaging Volumes Based on a Hybrid Generative-Discriminative Framework.

Brainlesion : glioma, multiple sclerosis, stroke and traumatic brain injuries : second International Workshop, BrainLes 2016, with the challenges on BRATS, ISLES and mTOP 2016, held in conjunction with MICCAI 2016, Athens, Greece, Octob...
2016-10 | Journal article
DOI: 10.1007/978-3-319-55524-9_18
PMID: 28725878
PMC: PMC5512606
Source: Self-asserted source
Spyridon Bakas via Europe PubMed Central

NIMG-05IDENTIFICATION OF IMAGING SIGNATURES OF THE EPIDERMAL GROWTH FACTOR RECEPTOR VARIANT III (EGFRvIII) IN GLIOBLASTOMA.

Neuro-oncology
2015-11 | Journal article
PMC: PMC4639028
Source: Self-asserted source
Spyridon Bakas via Europe PubMed Central
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