Sanatan Upmanyu
AI for Biomedicine — Hypothesis to Patient · GenAI · LLM-RAG · Knowledge Graphs · Digital Twins
Summary
Data-science executive with 18+ years spanning wet-lab biology, AI/ML engineering, and cross-site leadership across pharma, biotech, and consumer health. Architect of the AlphaMeld™ platform — an end-to-end AI stack that accelerates target triage and indication selection for global drug-makers. Deep experience in clinical-trial design and enrollment prediction, digital-twin modelling, and large-scale knowledge-graph analytics. Known for converting multimodal data into real business value, scaling cross-functional teams, and forging industry partnerships that redefine R&D.
Experience
Apxora GmbHnow
Dec 2024 – Present- — Drives development and deployment of the ResearchNexus and Clinical Navigator platforms.
- — Leads strategic AI/ML initiatives for detecting early innovation signals for emerging targets, novel therapeutics, and healthcare solutions.
- — Supports the Asset Lifecycle Manager and Portfolio Management platforms.
RenaissThera Pvt Ltdnow
Sep 2024 – Present- — Advising on AI-driven strategies for early-stage drug discovery and translational research.
- — Shaping the future of health through regulatory-aware innovation in digital and data sciences.
AlphaMeld GmbH (formerly InveniAI GmbH)now
Dec 2020 – Present- — Leads development and deployment of the AlphaMeld Platform.
- — Spearheads strategic AI/ML initiatives to enhance AlphaMeld/AlphaCompass capacity.
- — Advises pharma/biotech companies on leveraging data science methodologies.
- — Applied deep molecular biology expertise for MOA analyses and therapeutic target viability.
- — Manages a data science team of 5 members.
ArtiXio Pvt Ltdnow
Sep 2017 – Present- — Owns technology strategy, architecture, and delivery of Artixio's digital product portfolio — from concept to production.
- — Conceptualized and built QuriousRI, a secure role-based regulatory intelligence platform covering pharmaceuticals, biologics, biosimilars, and generics across 12+ agencies (FDA, EMA, PMDA, NMPA, Health Canada, MHRA, Swissmedic, and more), with LLM-powered document analysis.
- — Architected additional technology applications for the company, including an AI assistant that mines global regulatory updates and auto-drafts submission dossiers — opening a new non-pharma revenue channel.
- — Directs enterprise-level data science and AI product development using Agile methodologies, ensuring adherence to global regulatory standards (FDA, EMA, ICH) across the drug development lifecycle.
Kstych Pvt Ltd
Jul 2012 – Aug 2023- — Co-founded and led data sciences, applying statistical, mathematical, and predictive modeling to build algorithms for life-science research questions.
- — Advised pharma and biotech firms on de novo, reformulation, repurposing, and drug-rescue strategies using real-world data.
- — Built statistical predictive models using NLP and machine learning on RWD; led therapeutic target assessment and MOA analysis.
- — Hands-on expertise in Python, R, KNIME, MongoDB, Hadoop, MySQL/MariaDB, Tableau, Gephi, and Cytoscape.
InveniAI LLC
Sep 2017 – Nov 2020- — Conceptualized, built, and executed innovative solutions throughout the drug development lifecycle.
- — Managed enterprise-level data science products using Agile methodologies.
- — Established short- to long-term strategies for Data Science and AI teams.
BioXcel Corporation
Nov 2010 – Jul 2017- — Directed drug repurposing and novel target hypothesis generation using big data and statistical techniques.
- — Advised pharma and biotech firms on diverse scientific strategic projects, surveys, and future opportunity mapping (de novo, reformulation, repurposing, drug rescue) using real-world data.
- — Managed and mentored a team of data scientists; partnered closely with US-based pharma and biotech clients.
- — Led project management and strategy consulting efforts, providing scientific support to business development.
Ranbaxy
Jan 2008 – Nov 2010- — Conducted siRNA targeted gene silencing for target-based drug discovery.
- — Cloning, expression, purification, and activity analysis of human kinases, cytochrome P450 proteins, GPCRs, and bacterial enzymes — supporting enzyme- and cell-based NCE screening assays.
- — Managed experiments using mammalian, baculovirus, and Dictyostelium expression systems.
Selected Platforms & Initiatives
AlphaMeld® Operating System
LiveEnd-to-end AI stack combining a custom UI layer (Knowledge Graph, ChatAlphaMeld, Bioinformatics, Literature Analysis, AlphaClinMeld) with 12 ML models — including NER, RE, evidence scoring, digital-twin CT predictors and landscape assessment — running on PostgreSQL + Neo4j and self-hosted LLM APIs.
Discovery Navigator
Early accessGuided drug-discovery hypothesis-generation platform built on the AlphaMeld Knowledge Graph. Supports four starting points — disease-first, target-first, indication expansion, and combination therapy — through a step-by-step workflow (project → config → exploration → agent scoring → ranking → hypotheses). A project-aware Discovery Copilot accompanies every step. Multi-tenant SaaS with SSO, RBAC, and audit logging.
ChatAlphaMeld Benchmark Suite
ResearchTwo agentic workflow engines fine-tuned on biomedical tasks; outperformed leading general-purpose frontier LLMs; delivered richer step-by-step rationales critical for complex clinical questions.
SequenceFlow® ResearchNexus & Clinical Navigator
LiveEnd-to-end AI stack combining Knowledge Graph, Clinical Trial Prediction, Literature Analysis, Patient Digital Twin, TPP, TOP with 12 ML models running on PostgreSQL + Neo4j and self-hosted LLM APIs.
AlphaCompass Portfolio Intelligence
LiveClinical-trial–centric SaaS module on AlphaMeld® graph analytics; benchmarks pipeline assets and quantifies comparative risk. Adopted by two BD teams within six months, standardizing evidence-based indication-prioritization across 200 active programs.
Digital Twins for Systemic Sclerosis (EUSTAR)
ResearchOutcome-focused digital-twin framework built on the EUSTAR systemic sclerosis registry — longitudinal records for 23,000+ patients across 200+ centers. A PyTorch deep/generative stack (a mask- and time-aware GRU-D sequence forecaster plus a conditional sequence-VAE twin generator) produces prognostic scores and synthetic placebo trajectories for organ-specific and composite clinical outcomes. Designed as an ML-generated digital control arm — a PROCOVA/ANCOVA covariate that lifts trial power and cuts sample size — aligned with FDA digital-twin and EMA/ICH MIDD guidance.
Clinical-Trial Digital Twins
ResearchConditional variational auto-encoder (CVAE) pipeline that synthesizes patient-level digital twins for Phase II Type 2 Diabetes trials. Generated matched placebo trajectories and predicted drug-response curves — proving feasibility of in-silico arms for protocol optimization and hypothesis testing.
Publications
- DeAngelis, M., Wilkinson, E., Anant, M., Sharma, S., Vijayadamodar, G., Upmanyu, S., Ganjoo, A., Alesci, S., Kant, A., & Nandabalan, K. (2022). AI-based deconvolution of the gut-brain axis (GBA) and its therapeutic implications. Gastroenterology, 162(7-S), 760.
- Rastelli, L., Gupta, S., Dahiya, A., Jagga, Z., Nandabalan, K., & Upmanyu, S. (2017). The synergy between BXCL701, a DPP inhibitor, and immune checkpoint inhibitors discovered using AI and Big Data analytics. AACR; Cancer Res, 77(13 Suppl), Washington, DC.
- Sheetal, K., Upmanyu, S., Sharma, H., & Nandabalan, K. (2015). Targeting immune checkpoints: using a big data approach for their identification, prioritization and application. AACR 106th Annual Meeting, Philadelphia, PA.
- Tiwari, P., Saini, S., Upmanyu, S., Benjamin, B., Tandon, R., Saini, K. S., & Sahdev, S. (2010). Enhanced expression of recombinant proteins utilizing a modified baculovirus expression vector. Molecular Biotechnology, 46, 80-89.
- Tiwari, P., Saini, S., Upmanyu, S., Saini, K. S., & Sahdev, S. (2009). Enhanced expression of kinases and cyp-450 enzymes through a modified Baculovirus expression vector for oncology research. Poster, International Symposium on Cancer Chemoprevention, JNU, New Delhi.
Patents
- — Novel Immunomodulatory Therapeutic Strategies Targeting Tumors in Cancer (US20180134771, United States Patent and Trademark Office)
- — Immunomodulation Therapies for Cancer (US20190008918, United States Patent and Trademark Office)