Christophe Avenel
Bioinformatiker vid Institutionen för informationsteknologi; Vi3; Bildanalys
- Telefon:
- 018-471 54 26
- E-post:
- christophe.avenel@it.uu.se
- Besöksadress:
- Hus 10, Regementsvägen 10
- Postadress:
- Box 337
751 05 UPPSALA

Publikationer
Senaste publikationer
Ingår i Journal of Nanobiotechnology, 2025
- DOI för Machine learning framework for investigating nano- and micro-scale particle diffusion in colonic mucus
- Ladda ner fulltext (pdf) av Machine learning framework for investigating nano- and micro-scale particle diffusion in colonic mucus
Discovery of tumour indicating morphological changes in benign prostate biopsies through AI
Ingår i Scientific Reports, 2025
- DOI för Discovery of tumour indicating morphological changes in benign prostate biopsies through AI
- Ladda ner fulltext (pdf) av Discovery of tumour indicating morphological changes in benign prostate biopsies through AI
Combining spatial transcriptomics with tissue morphology
Ingår i Nature Communications, 2025
- DOI för Combining spatial transcriptomics with tissue morphology
- Ladda ner fulltext (pdf) av Combining spatial transcriptomics with tissue morphology
Optimizing Xenium In Situ data utility by quality assessment and best-practice analysis workflows
Ingår i Nature Methods, 2025
- DOI för Optimizing Xenium In Situ data utility by quality assessment and best-practice analysis workflows
- Ladda ner fulltext (pdf) av Optimizing Xenium In Situ data utility by quality assessment and best-practice analysis workflows
A clinical prostate biopsy dataset with undetected cancer
Ingår i Scientific Data, 2025
- DOI för A clinical prostate biopsy dataset with undetected cancer
- Ladda ner fulltext (pdf) av A clinical prostate biopsy dataset with undetected cancer
Alla publikationer
Artiklar i tidskrift
Ingår i Journal of Nanobiotechnology, 2025
- DOI för Machine learning framework for investigating nano- and micro-scale particle diffusion in colonic mucus
- Ladda ner fulltext (pdf) av Machine learning framework for investigating nano- and micro-scale particle diffusion in colonic mucus
Discovery of tumour indicating morphological changes in benign prostate biopsies through AI
Ingår i Scientific Reports, 2025
- DOI för Discovery of tumour indicating morphological changes in benign prostate biopsies through AI
- Ladda ner fulltext (pdf) av Discovery of tumour indicating morphological changes in benign prostate biopsies through AI
Combining spatial transcriptomics with tissue morphology
Ingår i Nature Communications, 2025
- DOI för Combining spatial transcriptomics with tissue morphology
- Ladda ner fulltext (pdf) av Combining spatial transcriptomics with tissue morphology
Optimizing Xenium In Situ data utility by quality assessment and best-practice analysis workflows
Ingår i Nature Methods, 2025
- DOI för Optimizing Xenium In Situ data utility by quality assessment and best-practice analysis workflows
- Ladda ner fulltext (pdf) av Optimizing Xenium In Situ data utility by quality assessment and best-practice analysis workflows
A clinical prostate biopsy dataset with undetected cancer
Ingår i Scientific Data, 2025
- DOI för A clinical prostate biopsy dataset with undetected cancer
- Ladda ner fulltext (pdf) av A clinical prostate biopsy dataset with undetected cancer
DEPICTER: Deep representation clustering for histology annotation
Ingår i Computers in Biology and Medicine, 2024
- DOI för DEPICTER: Deep representation clustering for histology annotation
- Ladda ner fulltext (pdf) av DEPICTER: Deep representation clustering for histology annotation
Points2Regions: Fast, interactive clustering of imaging-based spatial transcriptomics data
Ingår i Cytometry Part A, 2024
- DOI för Points2Regions: Fast, interactive clustering of imaging-based spatial transcriptomics data
- Ladda ner fulltext (pdf) av Points2Regions: Fast, interactive clustering of imaging-based spatial transcriptomics data
Cellular architecture of evolving neuroinflammatory lesions and multiple sclerosis pathology
Ingår i Cell, s. 1990-2009, 2024
- DOI för Cellular architecture of evolving neuroinflammatory lesions and multiple sclerosis pathology
- Ladda ner fulltext (pdf) av Cellular architecture of evolving neuroinflammatory lesions and multiple sclerosis pathology
Ingår i Heliyon, 2023
- DOI för TissUUmaps 3: Improvements in interactive visualization, exploration, and quality assessment of large-scale spatial omics data
- Ladda ner fulltext (pdf) av TissUUmaps 3: Improvements in interactive visualization, exploration, and quality assessment of large-scale spatial omics data
Ingår i Nature Neuroscience, 2023
- DOI för Profiling spatiotemporal gene expression of the developing human spinal cord and implications for ependymoma origin
- Ladda ner fulltext (pdf) av Profiling spatiotemporal gene expression of the developing human spinal cord and implications for ependymoma origin
Visualization and quality control tools for large-scale multiplex tissue analysis in TissUUmaps3
Ingår i Biological Imaging, 2023
A topographic atlas defines developmental origins of cell heterogeneity in the human embryonic lung
Ingår i Nature Cell Biology, s. 351-365, 2023
- DOI för A topographic atlas defines developmental origins of cell heterogeneity in the human embryonic lung
- Ladda ner fulltext (pdf) av A topographic atlas defines developmental origins of cell heterogeneity in the human embryonic lung
Ingår i Journal of Pathology, s. 4-11, 2022
- DOI för Automated detection of vascular remodeling in human tumor draining lymph nodes by the deep learning tool HEV-finder
- Ladda ner fulltext (pdf) av Automated detection of vascular remodeling in human tumor draining lymph nodes by the deep learning tool HEV-finder
Morphological Features Extracted by AI Associated with Spatial Transcriptomics in Prostate Cancer
Ingår i Cancers, 2021
- DOI för Morphological Features Extracted by AI Associated with Spatial Transcriptomics in Prostate Cancer
- Ladda ner fulltext (pdf) av Morphological Features Extracted by AI Associated with Spatial Transcriptomics in Prostate Cancer
Solving the Table Maker's Dilemma on current SIMD architectures
Ingår i Scalable computing, s. 237-250, 2016
Konferensbidrag
Learned morphological features guide cell type assignment of deconvolved spatial transcriptomics
Ingår i Proceedings of The 7nd International Conference on Medical Imaging with Deep Learning, PMLR, s. 220-233, 2024
Self-Supervised Learning for Genetically Relevant Domain Identification in Morphological Images
Ingår i IEEE INTERNATIONAL SYMPOSIUM ON BIOMEDICAL IMAGING, ISBI 2024, 2024
Blur detection and visualization in histological whole slide images
Ingår i Proc. 10th International Conference on Mass Data Analysis of Images and Signals, 2015
Picro-Sirius-HTX Stain for Blind Color Decomposition of Histopathological Prostate Tissue
Ingår i Proc, IEEE 11th International Symposium on Biomedical Imaging (ISBI) 2014, s. 282-285, 2014
2014