Code to preprocess, segment, and fuse glioma MRI scans based on the BraTS Toolkit manuscript.
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- Python
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glioblastoma
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Code used to create the core and extended GBmap, including downstream analyses (cell-cell interactions, spatial transcriptomics deconvolution) and how to produce the figures.
single-cell-rna-seq glioblastoma spatial-transcriptomics cell-cell-communication large-scale-data-analytics
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- Jupyter Notebook
Software for automatic segmentation and generation of standardized clinical reports of brain tumors from MRI volumes
deep-learning mri medical-imaging segmentation glioblastoma brain-tumor onnxruntime meningioma raidionics diffuse-lower-grade-glioma brain-metastasis
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- Python
Methods for training and interpreting deep radiogenomic neural networks
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- Python
Validating glioblastoma immune cell immunohistochemsitry using computational deconvolution of TCGA tumors
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- R
The work presented explains how to segment the brain tumour area in absence of interaction with user basing his technique on a saliency map constructed from three different resonance techniques.
matlab threshold tumor gbm salience adaptive mri-images thresholding superpixels saliency-map saliency glioblastoma superpixel-segmentation tumor-segmentation pseudocolor
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- MATLAB
Tools for image processing, brain segmentation and evaluation of glioblastoma growth models
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- Python
https://doi.org/10.5281/zenodo.6941367 - Spatiotemporal-Aware Glioblastoma Multiforme Tumor Growth Modeling with Deep Encoder-Decoder Networks
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- MATLAB
3D Slicer extension for glioma response assessment according to the RANO 2.0 criteria
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- Python
The official implementations of our BIBM'24 paper: Focus on Focus: Focus-oriented Representation Learning and Multi-view Cross-modal Alignment for Glioma Grading
tcga multimodality tcga-data glioblastoma cancer-grading glioma histopathology-images ieee-bibm pathology-images pathology-classification bibm-2024 tcga-gbm tcga-lgg
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- Python
[AAAS 2025] NEXT 3D is a preclinical tool to optimize nanoparticle designs for BBB penetration in the treatment of glioblastoma multiforme, a proliferative central nervous system cancer.
cancer cancer-imaging-research cancer-research nanoparticles glioblastoma glioma nanoparticle nanoparticle-analysis glioblastoma-drug-discovery
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Contribution to the BraTS-Path 2024 Challenge
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- Python
Glioblasted is a machine learning model to assist in the detection of glioblastoma multiforme, a high-grade, aggressive form of central nervous system cancer.
cancer cancer-research cancer-detection glioblastoma glioma cancer-diagnosis cancer-prediction cancer-classification
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- Python
MPS-accelerated Brain Tumour Segmentation task based on BraTS '21 task dataset. Uses a hybrid Swin-UNETR + CNN architecture. Optimized for Apple Silicon (M-chip) systems using MPS.
pytorch metalperformanceshaders glioblastoma cnn-classification pytorch-implementation braintumour 3dsegmentation swin-transformer brats2021 visiontransformer swin-unetr
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- Python
Glioblastoma multiforme (GBM) biomarker knowledge base
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- JavaScript
Gene expression (RNA-seq) prediction from an initial glioblastoma stem cell epigenetic measurement dataset (H3K27Ac, CTCF, ATAC-seq, and RNAPII) to another.
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- Python
A geometry-based framework that models spatial transcriptomics as a gene-weighted manifold. Using Ollivier–Ricci curvature, it identifies thermodynamic instability in tumors. Negative curvature predicts proteotoxic or ER stress, while positive curvature marks structurally stable tissue across cancers.
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- Jupyter Notebook
Accurate Early Detection of GBM Brain Cancer With Deep Learning (AI) - Silver Medal Finalist at GVRSF 2019
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- Python
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