fuzzyLife
Life is Fuzzy, let’s try to deFuzzyify, bit by bit
I am a medical doctor with postgraduation in bioinformatics, currently working as a Senior Engineer at the Norwegian University of Science and Technology (NTNU) in Trondheim, Norway. My professional work focuses on bioinformatics, proteomics, modomics, mass-spectrometry data analysis, and computational research. I am very much interested in applying computational and AI-based methods to biomedical problems.
A health-data project
I am exploring how health data and computational methods can help doctors interpret symptoms and assess disease risk. The project currently uses a disease map, disease bar chart and drug interaction lookup. The aim is to develop an AI-assisted system that can help organise and interpret clinical information. The system is experimental. It is not a diagnostic tool and is not intended to replace clinical judgement.
The longer-term plan
The eventual aim is to combine disease information with demographic and locally sourced data. Some of the intended directions are:
- Probabilistic diagnosis, including interpretation of laboratory tests and imaging results in suspected infectious disease.
- Risk assessment for other conditions, including cancer.
- Integration with existing health infrastructure through APIs.
- Use of local data to support outbreak prediction and resource allocation.
- Support for Bhojpuri and Hindi, with the aim of making the system more accessible to healthcare providers in urban and rural settings.
The project is a work in progress. Its scope and implementation will evolve as the data and methods develop.
Professional profile
Current position
Senior Engineer — Bioinformatics, Proteomics and Modomics
PROMEC, NTNU, Trondheim, Norway
September 2012 – Present
I am responsible for bioinformatics and computational analysis supporting proteomics and modomics at PROMEC, an institutional mass-spectrometry core facility. My work includes:
- Development and maintenance of computational workflows for mass-spectrometry data, including DDA and DIA.
- Peptide and protein identification, quantification, post-translational modification analysis, and quality control.
- Reproducible workflows using tools such as FragPipe, DIA-NN, and MaxQuant/MaxDIA.
- Automated reporting and dashboards for monitoring data-processing workflows.
- Support for researchers in computational analysis, interpretation, and troubleshooting.
- Research data stewardship in an environment managing approximately 400–450 TB of data.
- Contribution to public proteomics data deposition through PRIDE.
Research project
Project Lead — Proteogenomics of Cancer Cells
Sigma2 projects NS9036K / NN9036K
June 2017 – Present
I lead the computational component of a large-scale proteogenomics project focused on cancer cells. The project works with large international cancer datasets and computational methods to identify biological patterns relevant to cancer development.
Teaching and research support
I contribute to teaching and practical instruction in bioinformatics and computational analysis, including NTNU courses BT2100 and MOL3024. I also support bachelor’s, master’s, and PhD students, as well as medical researchers, with research design, data analysis, bioinformatics, and interpretation.
Software and machine-learning work
I develop and share computational tools, workflows, and technical explanations through public repositories and writing. One example is RawRead, a software project for working with Thermo Scientific mass-spectrometry raw files. I have also implemented a minimal character-level transformer language model in NumPy. This involved working directly with token and positional embeddings, causal self-attention, multilayer perceptrons, cross-entropy loss, backpropagation, and autoregressive generation and more shared at Substack.
Research output
My research contributions span cancer biology, immunology, HIV, neurodegeneration, antimicrobial resistance, aquaculture, proteomics, and related biomedical fields. For publications and the latest research profile, see ResearchGate.
Education
M.B.B.S. — Bachelor of Medicine and Bachelor of Surgery
Maulana Azad Medical College, University of Delhi, India
1995–2001
Advanced Postgraduation in Bioinformatics
Jawaharlal Nehru University (JNU), India
2001–2002
Doctoral studies in Informatics
University of Bergen, Norway
2007–2011
Doctoral studies pursued; degree not completed.
Professional development
- Missing Data and Imputation Methods, Swiss Institute of Bioinformatics (SIB), June 2026.
- Bayesian Statistics with R, Swiss Institute of Bioinformatics (SIB), May 2025.
Patent
“Insecticidal XnGroEL protein of Xenorhabdus nematophila”
Publication: WO2008142707A2
Indian application: 1092/DEL/2007.
Contact
For questions, collaboration, or discussion about my work, contact me at:
Licence
Unless otherwise stated, I make the copyrightable content on this website available under the Creative Commons Attribution 4.0 International (CC BY 4.0) licence.
You may share and adapt this material, including for commercial purposes, provided that you give appropriate credit, link to the licence, and indicate if changes were made.
© fuzzyLife
This licence applies only to content for which I hold the necessary rights. It does not automatically apply to third-party material, external datasets, software, images, or other content that may be subject to separate licences or restrictions.
Disclaimer
I make no warranties regarding the accuracy, completeness, or reliability of the information and data presented on this website. You use the material at your own risk. I am not liable for damages or losses resulting from its use.
Some data or material may be subject to patents, third-party rights, or other restrictions. The licence above does not grant permission to use material when I do not hold the necessary rights.
Any medical or genetic information on this website is provided for research, educational, and informational purposes only. It is not intended as a substitute for professional medical advice, diagnosis, treatment, or care. Do not use this information to make medical decisions without consulting an appropriately qualified healthcare professional.