Evidence map›Paper›PMID 37984127›Full record

ArticleMedical image analysis2024

DeepSSM: A blueprint for image-to-shape deep learning models.

Riddhish Bhalodia, Shireen Elhabian, Jadie Adams, Wenzheng Tao, Ladislav Kavan, Ross Whitaker

Abstract read
In one paragraph

Article in Medical image analysis, 2024. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 11 papers.

0numbers the graph read from it
0cells of the map it votes in
11citing papers in PubMed
–field-weighted citation impact
1 · What the graph read from it

What it found

Each row is one number read from the abstract, on the scale the paper reported it, with its interval. Left of the dashed line favours the treatment, right favours the comparator. Under each row is the sentence it came from. New to these charts? A ten-minute tutorial.

The abstract states no effect estimate the extractor could read, or names no intervention and outcome on the map, so this paper lights no cell and moves no belief. It is still indexed, cited and linked below.

2 · The registry

The trial behind it

Trials whose registry record cites this paper, or whose number appears in the abstract. A trial that started after this paper was published is citing it as background, not reporting it.

Neither the registry nor the abstract names a trial number. If this is a trial report, that itself is worth knowing.

3 · Its place in the literature

Who cites it

11 citing papers in PubMed.

  1. A Clinical Primer on Computer Vision.Calcified tissue international · 2026
    Review
  2. Article
  3. Review
  4. MASSM: An End-to-End Deep Learning Framework for Multi-Anatomy Statistical Shape Modeling Directly From Images.Shape in medical imaging : International Workshop, ShapeMI 2024, held in conjunction with MICCAI 2024, Marrakesh, Morocco, October 6, 2024, Proceedings. ShapeMI (Workshop) (2024 : Marrakech, Morocco) · 2025
    Article
  5. Probabilistic 3D Correspondence Prediction from Sparse Unsegmented Images.Machine learning in medical imaging. MLMI (Workshop) · 2025
    Article
  6. Weakly Supervised Bayesian Shape Modeling from Unsegmented Medical Images.Shape in medical imaging : International Workshop, ShapeMI 2024, held in conjunction with MICCAI 2024, Marrakesh, Morocco, October 6, 2024, Proceedings. ShapeMI (Workshop) (2024 : Marrakech, Morocco) · 2025
    Article
  7. SCorP: Statistics-Informed Dense Correspondence Prediction Directly from Unsegmented Medical Images.Medical Image Understanding and Analysis. Medical Image Understanding and Analysis (Conference) · 2024
    Article
  8. ADASSM: Adversarial Data Augmentation in Statistical Shape Models From Images.Shape in medical imaging : International Workshop, ShapeMI 2023, held in conjunction with MICCAI 2023, Vancouver, BC, Canada, October 8, 2023, Proceedings. ShapeMI (Workshop) (2023 : Vancouver, B.C.) · 2023
    Article
  9. Image2SSM: Reimagining Statistical Shape Models from Images with Radial Basis Functions.Medical image computing and computer-assisted intervention : MICCAI ... International Conference on Medical Image Computing and Computer-Assisted Intervention · 2023
    Article
  10. Progressive DeepSSM: Training Methodology for Image-To-Shape Deep Models.Shape in medical imaging : International Workshop, ShapeMI 2023, held in conjunction with MICCAI 2023, Vancouver, BC, Canada, October 8, 2023, Proceedings. ShapeMI (Workshop) (2023 : Vancouver, B.C.) · 2023
    Article
  11. From Images to Probabilistic Anatomical Shapes: A Deep Variational Bottleneck Approach.Medical image computing and computer-assisted intervention : MICCAI ... International Conference on Medical Image Computing and Computer-Assisted Intervention · 2022
    Article
4 · The record

Corrections and comments

PubMed lists nothing against this paper. Absence here is not a guarantee, only a check that was made.

5 · Who and what money

Authors and funding

6 authors.

Riddhish BhalodiaScientific Computing and Imaging Institute, 72 Central Campus Dr, University of Utah, Salt Lake City, UT 84112, USA; School of Computing, 50 Central Campus Dr, University of Utah, Salt Lake City, UT 84112, USA. Electronic address: riddhishb@sci.utah.edu.
Shireen ElhabianScientific Computing and Imaging Institute, 72 Central Campus Dr, University of Utah, Salt Lake City, UT 84112, USA; School of Computing, 50 Central Campus Dr, University of Utah, Salt Lake City, UT 84112, USA.
Jadie AdamsScientific Computing and Imaging Institute, 72 Central Campus Dr, University of Utah, Salt Lake City, UT 84112, USA; School of Computing, 50 Central Campus Dr, University of Utah, Salt Lake City, UT 84112, USA.
Wenzheng TaoScientific Computing and Imaging Institute, 72 Central Campus Dr, University of Utah, Salt Lake City, UT 84112, USA; School of Computing, 50 Central Campus Dr, University of Utah, Salt Lake City, UT 84112, USA.
Ladislav KavanSchool of Computing, 50 Central Campus Dr, University of Utah, Salt Lake City, UT 84112, USA.
Ross WhitakerScientific Computing and Imaging Institute, 72 Central Campus Dr, University of Utah, Salt Lake City, UT 84112, USA; School of Computing, 50 Central Campus Dr, University of Utah, Salt Lake City, UT 84112, USA.

Funding

TRD - VisualizationP41GM103545 · NIGMS · UNIVERSITY OF UTAH · PI JURRUS, ELIZABETH · 2012 to 2019
$9.7M
Population-Based Shape and Biomechanical Analysis of Hip PathoanatomyR01EB016701 · NIBIB · UNIVERSITY OF UTAH · PI ANDERSON, ANDREW EDWARD · 2013 to 2023
$3.6M
ShapeWorks in the CloudR01AR076120 · NIAMS · UNIVERSITY OF UTAH · PI ELHABIAN, SHIREEN YOUSSEF · 2019 to 2024
$2.7M
New 3D and 4D Image-Based Clinical Measures of Atrial Structural and Functional Remodeling in Atrial FibrillationR01HL135568 · NHLBI · UNIVERSITY OF UTAH · PI CATES, JOSHUA E, ELHABIAN, SHIREEN YOUSSEF · 2017 to 2020
$1.4M
ShapeWorksStudio: An Integrative, User-Friendly, and Scalable Suite for Shape Representation and AnalysisU24EB029011 · NIBIB · UNIVERSITY OF UTAH · PI ELHABIAN, SHIREEN YOUSSEF · 2019 to 2023
$1.4M
Data-Driven Shape Analysis for Quantitative Severity Stratification in Patients with Metopic CraniosynostosisR21EB026061 · NIBIB · UNIVERSITY OF UTAH · PI GOLDSTEIN, JESSE AARON, WHITAKER, ROSS T · 2018 to 2019
$625k
NHLBI NIH HHS R01 HL135568NIAMS NIH HHS R01 AR076120NIBIB NIH HHS R01 EB016701NIBIB NIH HHS R21 EB026061NIBIB NIH HHS U24 EB029011NIGMS NIH HHS P41 GM103545
6 · The paper itself

Abstract

Statistical shape modeling (SSM) characterizes anatomical variations in a population of shapes generated from medical images. Statistical analysis of shapes requires consistent shape representation across samples in shape cohort. Establishing this representation entails a processing pipeline that includes anatomy segmentation, image re-sampling, shape-based registration, and non-linear, iterative optimization. These shape representations are then used to extract low-dimensional shape descriptors that are anatomically relevant to facilitate subsequent statistical analyses in different applications. However, the current process of obtaining these shape descriptors from imaging data relies on human and computational resources, requiring domain expertise for segmenting anatomies of interest. Moreover, this same taxing pipeline needs to be repeated to infer shape descriptors for new image data using a pre-trained/existing shape model. Here, we propose DeepSSM, a deep learning-based framework for learning the functional mapping from images to low-dimensional shape descriptors and their associated shape representations, thereby inferring statistical representation of anatomy directly from 3D images. Once trained using an existing shape model, DeepSSM circumvents the heavy and manual pre-processing and segmentation required by classical models and significantly improves the computational time, making it a viable solution for fully end-to-end shape modeling applications. In addition, we introduce a model-based data-augmentation strategy to address data scarcity, a typical scenario in shape modeling applications. Finally, this paper presents and analyzes two different architectural variants of DeepSSM with different loss functions using three medical datasets and their downstream clinical application. Experiments showcase that DeepSSM performs comparably or better to the state-of-the-art SSM both quantitatively and on application-driven downstream tasks. Therefore, DeepSSM aims to provide a comprehensive blueprint for deep learning-based image-to-shape models.

Indexed as

Deep LearningHumansImage Processing, Computer-AssistedImaging, Three-DimensionalModels, StatisticalCorrespondence modelsDeep learningStatistical shape modeling

Identifiers

PMID37984127
PMCPMC11087075

What OpenQuestion holds

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Registered trials

None linked

Read under generation 80e0d062 · epoch 390. Bibliography from PubMed, PubMed Central and OpenAlex; grants from NIH RePORTER; trial links from ClinicalTrials.gov; estimates, votes and beliefs from the OpenQuestion graph.