Chia-Chi, Chang (張家齊)

Bioinformatics Analyst @ Vizuro — Life Science Division (Apotek)
Formerly Postdoctoral Researcher, National Health Research Institutes (NHRI), Taiwan

About Me

My research background spans stem cell biology and 3D culture systems — I spent years studying the effects of 3D spheroid culture on embryonic stem cells, mesenchymal stem cells (MSCs), and cancer cells, with a focus on conserved pathways that enhance cellular function and antioxidant capacity.

I’ve since transitioned into bioinformatics, where I now work as an analyst at Vizuro — a company building trustworthy agentic AI solutions with Causal GenAI technologies. I’m part of the Life Science division (Apotek), applying computational approaches to drug discovery and translational research.

About This Blog

TPOW Lab documents tutorials, research notes, and tools across three domains:

  • Bioinformatics — RNA-seq analysis, genomic pipelines, protein structure prediction, scRNA-seq workflows
  • AI Agents — Claude Code, Codex, Gemini CLI, agent orchestration, prompt engineering, MCP integrations
  • Drug Discovery & Pharma R&D — translational research, regulatory workflows, patent preparation

AI-Knowledge Template (AIKT)

This blog is powered by my side project: the AI-Knowledge Template — a multi-layer CLI tooling system built on top of AI coding agents. It grew organically from a simple need into a comprehensive knowledge management infrastructure:

Phase 1 — Input Automation
Auto-save web content, GitHub repos, and daily knowledge feeds from technical communities and academic preprint servers.

Phase 2 — RAG & Knowledge Graphs
When auto-saved content became too much to read manually, I adopted retrieval-augmented generation (RAG) and knowledge graph tools for efficient navigation and Q&A.

Phase 3 — Specialized Workflows
Academic paper search, PDF/Office deep parsing, document publishing, meeting preparation, and multi-pipeline research workflows — each layer emerged from real project needs.

The system currently covers 20+ layers spanning knowledge ingestion, document processing, academic research, structured output, and automated publishing.

Education

  • PhD, Institute of Life Sciences, National Defense Medical Center (NDMC), Taiwan, 2023
  • M.S., Institute of Physiology, NDMC, Taiwan, 2010
  • B.S., Department of Life Science, National University of Kaohsiung, 2008

Selected Publications

  1. Li-Tzu Wang, Hsiu-Huan Wang, Shih-Sheng Jiang, Chia-Chi Chang, et al. (2025). Lack of IFN-γ response of human uterine myometrium-derived MSCs significantly improve multiple IBD parameters compared to bone marrow MSCs. Pharmacological Research, 107716.

  2. B Linju Yen, Li-Tzu Wang, Hsiu-Huang Wang, et al., Chia-Chi Chang, et al. (2024). Excess glucose alone depress young MSC osteogenesis and mitochondria activity within hours/days via NAD+/SIRT1 axis. Journal of Biomedical Science, 31(1):49.

  3. Chen-Chan Hsieh, Chia-Chi Chang, et al. (2023). Protocol for efficient human MSC chondrogenesis via Wnt antagonism instead of TGF-β. STAR Protocols, 4(4), 102728.

  4. Chia-Chi Chang (first author), Shih-Sheng Jiang, et al. (2023). Targeting Conserved Pathways in 3D Spheroid Formation of Diverse Cell Types for Translational Application. Cells, 12(16), 2050.

  5. B Linju Yen, Chen-Chan Hsieh, Pei-Ju Hsu, Chia-Chi Chang, et al. (2023). Three-Dimensional Spheroid Culture of Human Mesenchymal Stem Cells. STEM CELLS Translational Medicine, 12(5), 235-244.

  6. Chen-Chan Hsieh, B Linju Yen, Chia-Chi Chang, et al. (2022). Wnt antagonism without TGFβ induces rapid MSC chondrogenesis. iScience, 26(1), 105713.

  7. Kai-Yen Peng, Shih-Sheng Jiang, et al., Chia-Chi Chang, et al. (2021). Stromal Galectin-1 Promotes Colorectal Cancer Cancer-Initiating Cell Features. Frontiers in Oncology, 11, 716055.

  8. Li-Tzu Wang, Shih-Sheng Jiang, et al., Chia-Chi Chang, et al. (2018). Differentiation of MSCs from Human iPSCs Results in Downregulation of c-Myc and DNA Replication Pathways. STEM CELLS, 36(6), 903-914.