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USD 200 /hr

★★★★★

☆☆☆☆☆

Hire Dr. Anais J.

France

USD 200 /hr

Computational Biologist • Multi-omics & Spatial Transcriptomics • AI Data analyst

Profile Summary

Rigorous computational biologist with 12 years of experience bridging cellular biology and large-scale multi-omics data analysis (scRNAseq, scATACseq, spatial transcriptomics). Experienced in delivering end-to-end omics analyses — from experimental design and QC to biological interpretation and reporting — across diverse tissues and disease contexts including oncology, tissue regeneration, and diseases. Builder of reproducible Python and R pipelines, AI-driven annotation agents, and cell-type-specific predictive models. Proficient in interpreting and contextualizing results. Recent work includes building an AI agent for automated fibroblast atlas construction across CNS, regenerative (as bone or muscle) and non-regenerative (as heart) tissues, training predictive models for spatial transcriptomics resolution, and contributing to the development of a spinal cord-derived organoid model. Track record of project delivery under defined timelines, multiple national and international collaborations and mentoring and management.

Subject Matter Expertise

• ★ Computational Biology
• ★ Omics
• ★ Data Analysis
• ☆ Biostatistics
• ☆ Molecular Biology
• ☆ Transcriptomics
• ☆ Machine Learning
• ☆ Python
• ☆ R

Services

• Research
• Consulting
• Data & AI

Research Feasibility Study, Technology Scouting, Scientific and Technical Research, Systematic Literature Review, Secondary Data Collection

Consulting Scientific and Technical Consulting

Data & AI Predictive Modeling, Statistical Analysis, Image Analysis, Algorithm Design-Non ML, Algorithm Design-ML, Data Visualization, Big Data Analytics, Data Cleaning, Data Processing, Data Insights

Work Experience

Scientist (I - Senior Scientist)

Karolinska Institute

February 2020 - Present

Education

PhD in Cellular Biology

Paris Descartes

October 2014 - November 2018

Certifications

• Certification details not provided.

Publications

JOURNAL ARTICLE

Anais Julien, Yasmine Hachemi, Simon Perrin, Maria Ethel, Julia Vettese, Blandine Geisler, Christian Göritz, Céline Colnot (2024). Multimodal analyses of immune cells during bone repair identify macrophages as a therapeutic target in musculoskeletal trauma . Bone Research.

Anais Julien, Daniel Holl, Wing Fung Hau, Shervin Banitalebi, Jannis Kalkitsas, Soniya Savant, Enric Llorens-Bobadilla, Yann Herault, Guillaume Pavlovic, Mahmood Amiry-Moghaddam, et al. (2024). Distinct origin and region-dependent contribution of stromal fibroblasts to fibrosis following traumatic injury in mice . Nature Neuroscience.

Anais Julien, Sander van Riet, Andrea Atanasov, Åsa Nordling, Magnus Ingelman-Sundberg (2024). The role of sinusoidal endothelial cells and TIMP1 in the regulation of fibrosis in a novel human liver 3D NASH model . Hepatology Communications.

Anais Julien, Eduardo Linck Guimaraes, David Oliveira Dias, Wing Fung Hau, Daniel Holl, Maria Garcia-Collado, Soniya Savant, Evelina Vågesjö, Mia Phillipson, Lars Jakobsson, et al. (2024). Corpora cavernosa fibroblasts mediate penile erection . Science.

Anais Julien, Harald Lund, Matthew A. Hunt, Zerina Kurtović, Katalin Sandor, Paul B. Kägy, Noah Fereydouni, Christian Göritz, Elisa Vazquez-Liebanas, Maarja Andaloussi Mäe, et al. (2024). CD163+ macrophages monitor enhanced permeability at the blood–dorsal root ganglion barrier . Journal of Experimental Medicine.

Anais Julien, Anuya Kanagalingam, Ester Martínez-Sarrà, Jérome Megret, Marine Luka, Mickaël Ménager, Frédéric Relaix, Céline Colnot (2021). Direct contribution of skeletal muscle mesenchymal progenitors to bone repair . Nature Communications.

Anais Julien, Simon Perrin, Oriane Duchamp de Lageneste, Rana Abou-Khalil, Céline Colnot (2021). Mouse Periosteal Cell Culture, in vitro Differentiation, and in vivo Transplantation in Tibial Fractures . BIO-PROTOCOL.

Anais Julien, Simon Perrin, Ester Martínez-Sarrà, Anuya Kanagalingam, Caroline Carvalho, Marine Luka, Mickaël Ménager, Céline Colnot (2020). Skeletal Stem/Progenitor Cells in Periosteum and Skeletal Muscle Share a Common Molecular Response to Bone Injury . Journal of Bone and Mineral Research.

Anais Julien, Simon Perrin, Oriane Duchamp de Lageneste, Caroline Carvalho, Morad Bensidhoum, Laurence Legeai-Mallet, Céline Colnot (2020). FGFR3 in Periosteal Cells Drives Cartilage-to-Bone Transformation in Bone Repair . Stem Cell Reports.

Oriane Duchamp de Lageneste, Anaïs Julien, Rana Abou-Khalil, Giulia Frangi, Caroline Carvalho, Nicolas Cagnard, Corinne Cordier, Simon J. Conway, Céline Colnot (2018). Periosteum contains skeletal stem cells with high bone regenerative potential controlled by Periostin . Nature Communications.

Amalia Stantzou, Elija Schirwis, Sandra Swist, Sonia Alonso-Martin, Ioanna Polydorou, Faouzi Zarrouki, Etienne Mouisel, Cyriaque Beley, Anaïs Julien, Fabien Le Grand, et al. (2017). BMP signaling regulates satellite cell-dependent postnatal muscle growth . Development.

Anais Julien, Rana Abou-Khalil, Frank Yang, Shirley Lieu, Jaselle Perry, Catia Pereira, Frédéric Relaix, Theodore Miclau, Ralph Marcucio, Céline Colnot (2015). Role of Muscle Stem Cells During Skeletal Regeneration . Stem Cells.

BOOK CHAPTER

Anais Julien, Simon Perrin, Rana Abou-Khalil, Céline Colnot (2021). Renal Capsule Transplantation to Assay Angiogenesis in Skeletal Development and Repair . Methods in Molecular Biology.