Marek Wodzinski

Mr. Marek Wodzinski

AGH UST
orcid

Research Focus & Metrics

Academic Career Length

10Years (2017-Present)

(Calculated once Scilit publication data is synced: current year − year of first publication + 1)

Representative Publications

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20 October 2022 in IEEE Transactions on Medical Imaging
Verified
Journal Article
Open access
AHAlessa Hering
Alessa Hering
LHLasse Hansen
Lasse Hansen
TMTony C. W. Mok
Tony C. W. Mok
ACAlbert Chi Shing Chung
Albert Chi Shing Chung
HSHanna Siebert
Hanna Siebert
MHMattias P. Heinrich
Mattias P. Heinrich
Image registration is a fundamental medical image analysis task, and a wide variety of approaches have been proposed. However, only a few studies have comprehensively compared medical image registration approaches on a wide range of clinically relevant tasks. This limits the development of registration methods, the adoption of research advances into practice, and a fair benchmark across competing approaches. The Learn2Reg challenge addresses these limitations by providing a multi-task medical image registration data set for comprehensive characterisation of deformable registration algorithms. A continuous evaluation will be possible at https:// learn2reg.grand-challenge.org. Learn2Reg covers a wide range of anatomies (brain, abdomen, and thorax), modalities (ultrasound, CT, MR), availability of annotations, as well as intra- and inter-patient registration evaluation. We established an easily accessible framework for training and validation of 3D registration methods, which enabled the compilation of results of over 65 individual method submissions from more than 20 unique teams. We used a complementary set of metrics, including robustness, accuracy, plausibility, and runtime, enabling unique insight into the current state-of-the-art of medical image registration. This paper describes datasets, tasks, evaluation methods and results of the challenge, as well as results of further analysis of transferability to new datasets, the importance of label supervision, and resulting bias. While no single approach worked best across all tasks, many methodological aspects could be identified that push the performance of medical image registration to new state-of-the-art performance. Furthermore, we demystified the common belief that conventional registration methods have to be much slower than deep-learning-based methods.

7 April 2020 in IEEE Transactions on Medical Imaging
Verified
Journal Article
Closed access
JBJiri Borovec
Jiri Borovec
JKJan Kybic
Jan Kybic
IAIgnacio Arganda-Carreras
Ignacio Arganda-Carreras
DSDmitry V. Sorokin
Dmitry V. Sorokin
Gloria  BuenoGloria Bueno
Gloria Bueno
AMArrate Muñoz-Barrutia
Arrate Muñoz-Barrutia
Automatic Non-rigid Histological Image Registration (ANHIR) challenge was organized to compare the performance of image registration algorithms on several kinds of microscopy histology images in a fair and independent manner. We have assembled 8 datasets, containing 355 images with 18 different stains, resulting in 481 image pairs to be registered. Registration accuracy was evaluated using manually placed landmarks. In total, 256 teams registered for the challenge, 10 submitted the results, and 6 participated in the workshop. Here, we present the results of 7 well-performing methods from the challenge together with 6 well-known existing methods. The best methods used coarse but robust initial alignment, followed by non-rigid registration, used multiresolution, and were carefully tuned for the data at hand. They outperformed off-the-shelf methods, mostly by being more robust. The best methods could successfully register over 98% of all landmarks and their mean landmark registration accuracy (TRE) was 0.44% of the image diagonal. The challenge remains open to submissions and all images are available for download.

1 July 2019
Verified
Conference Paper
Closed access
MWMarek Wodzinski
Marek Wodzinski
ASAndrzej Skalski
Andrzej Skalski
DHDaria Hemmerling
Daria Hemmerling
JOJuan Rafael Orozco-Arroyave
Juan Rafael Orozco-Arroyave
ENElmar Noth
Elmar Noth
This study presents an approach to Parkinson’s disease detection using vowels with sustained phonation and a ResNet architecture dedicated originally to image classification. We calculated spectrum of the audio recordings and used them as an image input to the ResNet architecture pre-trained using the ImageNet and SVD databases. To prevent overfitting the dataset was strongly augmented in the time domain. The Parkinson’s dataset (from PC-GITA database) consists of 100 patients (50 were healthy / 50 were diagnosed with Parkinson’s disease). Each patient was recorded 3 times. The obtained accuracy on the validation set is above 90% which is comparable to the current state-of-the-art methods. The results are promising because it turned out that features learned on natural images are able to transfer the knowledge to artificial images representing the spectrogram of the voice signal. What is more, we showed that it is possible to perform a successful detection of Parkinson’s disease using only frequency-based features. A spectrogram enables visual representation of frequencies spectrum of a signal. It allows to follow the frequencies changes of a signal in time.

24 January 2025 in Diagnostics
Verified
Journal Article
Open access
PDF file
Rafał ObuchowiczRafał Obuchowicz
Rafał Obuchowicz
JLJulia Lasek
Julia Lasek
MWMarek Wodzinski
Marek Wodzinski
Adam PiórkowskiAdam Piórkowski
Adam Piórkowski
Michał StrzeleckiMichał Strzelecki
Michał Strzelecki
KNKarolina Nurzynska
Karolina Nurzynska
Humanity stands at a pivotal moment of technological revolution, with artificial intelligence (AI) reshaping fields traditionally reliant on human cognitive abilities. This transition, driven by advancements in artificial neural networks, has transformed data processing and evaluation, creating opportunities for addressing complex and time-consuming tasks with AI solutions. Convolutional networks (CNNs) and the adoption of GPU technology have already revolutionized image recognition by enhancing computational efficiency and accuracy. In radiology, AI applications are particularly valuable for tasks involving pattern detection and classification; for example, AI tools have enhanced diagnostic accuracy and efficiency in detecting abnormalities across imaging modalities through automated feature extraction. Our analysis reveals that neuroimaging and chest imaging, as well as CT and MRI modalities, are the primary focus areas for AI products, reflecting their high clinical demand and complexity. AI tools are also used to target high-prevalence diseases, such as lung cancer, stroke, and breast cancer, underscoring AI’s alignment with impactful diagnostic needs. The regulatory landscape is a critical factor in AI product development, with the majority of products certified under the Medical Device Directive (MDD) and Medical Device Regulation (MDR) in Class IIa or Class I categories, indicating compliance with moderate-risk standards. A rapid increase in AI product development from 2017 to 2020, peaking in 2020 and followed by recent stabilization and saturation, was identified. In this work, the authors review the advancements in AI-based imaging applications, underscoring AI’s transformative potential for enhanced diagnostic support and focusing on the critical role of CNNs, regulatory challenges, and potential threats to human labor in the field of diagnostic imaging.

22 July 2022 in npj Digital Medicine
Verified
Journal Article
Open access
PDF file
NMNiccolo Marini
Niccolo Marini
SMStefano Marchesin
Stefano Marchesin
SOSebastian Otálora
Sebastian Otálora
MWMarek Wodzinski
Marek Wodzinski
ACAlessandro Caputo
Alessandro Caputo
Manfredo AtzoriManfredo Atzori
Manfredo Atzori
The digitalization of clinical workflows and the increasing performance of deep learning algorithms are paving the way towards new methods for tackling cancer diagnosis. However, the availability of medical specialists to annotate digitized images and free-text diagnostic reports does not scale with the need for large datasets required to train robust computer-aided diagnosis methods that can target the high variability of clinical cases and data produced. This work proposes and evaluates an approach to eliminate the need for manual annotations to train computer-aided diagnosis tools in digital pathology. The approach includes two components, to automatically extract semantically meaningful concepts from diagnostic reports and use them as weak labels to train convolutional neural networks (CNNs) for histopathology diagnosis. The approach is trained (through 10-fold cross-validation) on 3’769 clinical images and reports, provided by two hospitals and tested on over 11’000 images from private and publicly available datasets. The CNN, trained with automatically generated labels, is compared with the same architecture trained with manual labels. Results show that combining text analysis and end-to-end deep neural networks allows building computer-aided diagnosis tools that reach solid performance (micro-accuracy = 0.908 at image-level) based only on existing clinical data without the need for manual annotations.

17 February 2021 in Scientific Reports
Verified
Journal Article
Open access
PDF file
TBTommaso Banzato
Tommaso Banzato
MWMarek Wodzinski
Marek Wodzinski
SBSilvia Burti
Silvia Burti
VOValentina Longhin Osti
Valentina Longhin Osti
VRValentina Rossoni
Valentina Rossoni
AZAlessandro Zotti
Alessandro Zotti
The interpretation of thoracic radiographs is a challenging and error-prone task for veterinarians. Despite recent advancements in machine learning and computer vision, the development of computer-aided diagnostic systems for radiographs remains a challenging and unsolved problem, particularly in the context of veterinary medicine. In this study, a novel method, based on multi-label deep convolutional neural network (CNN), for the classification of thoracic radiographs in dogs was developed. All the thoracic radiographs of dogs performed between 2010 and 2020 in the institution were retrospectively collected. Radiographs were taken with two different radiograph acquisition systems and were divided into two data sets accordingly. One data set (Data Set 1) was used for training and testing and another data set (Data Set 2) was used to test the generalization ability of the CNNs. Radiographic findings used as non mutually exclusive labels to train the CNNs were: unremarkable, cardiomegaly, alveolar pattern, bronchial pattern, interstitial pattern, mass, pleural effusion, pneumothorax, and megaesophagus. Two different CNNs, based on ResNet-50 and DenseNet-121 architectures respectively, were developed and tested. The CNN based on ResNet-50 had an Area Under the Receive-Operator Curve (AUC) above 0.8 for all the included radiographic findings except for bronchial and interstitial patterns both on Data Set 1 and Data Set 2. The CNN based on DenseNet-121 had a lower overall performance. Statistically significant differences in the generalization ability between the two CNNs were evident, with the CNN based on ResNet-50 showing better performance for alveolar pattern, interstitial pattern, megaesophagus, and pneumothorax.