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A New Framework for Disease Biology

We study how disease in one part of the body reshapes physiology across the whole organism. By integrating whole-organism biology, evolutionary conservation, and cross-species experimentation, we seek to uncover fundamental mechanisms that drive disease and reveal new opportunities to improve human health.

Step 1

Mapping the Systemic Architecture of Disease

Disease does not respect organ boundaries. We use whole-organism single-cell genomics, genetics, and metabolic profiling to map how local pathology reshapes distant tissues and rewires communication across the body.

In cancer cachexia, our whole-body single-nucleus studies revealed widespread tumor–host signaling and metabolic reprogramming across multiple organs, creating a systems-level map from which causal mechanisms can be identified and tested.

We do not study organs in isolation—
we study the network that connects them.

Whole-body single-cell atlas UMAP with clusters labelled by organ
Whole-organism atlas of cancer cachexia
→
Chord diagram of predicted signaling from tumor cells to host tissues
Tumor-to-host signaling
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Metabolic map of the TCA cycle showing gluconeogenic rewiring via Pepck1 and Pdk
Metabolic reprogramming

Step 2

Evolution as a Discovery Engine

Disease produces thousands of molecular changes, but only a fraction are fundamental drivers.

We use evolutionary conservation as a filter to identify the mechanisms most likely to matter. Rather than asking only whether individual genes are conserved, we compare pathways, cell states, metabolic programs, and inter-organ circuits across species, then test the strongest candidates experimentally for causality.

Evolutionary distance is not a limitation of disease models—it is an experimental variable for discovery.

Conserved Upd3/IL-6–JAK-STAT signaling drives gluconeogenesis in fly fat body and mouse liver during cancer cachexia

Step 3

From Mechanism to Human Relevance

Drosophila enables rapid discovery and causal genetics. Mouse models test conserved mechanisms in mammalian physiology. Clinical data and biospecimens establish relevance to human disease.

Embedded within the CSHL–Northwell research ecosystem, the Liu Lab is uniquely positioned to connect these strengths in a bidirectional discovery pipeline. CSHL's NCI-designated Cancer Center provides world-class expertise in fundamental cancer biology and advanced experimental technologies, while Northwell provides access to a large and diverse clinical population, clinicians, biospecimens, and an extensive cancer clinical-trial program. By working across this continuum, we move from mechanistic discovery in tractable models to validation in mammalian and human systems—and bring clinically observed patterns back into the laboratory as experimentally testable questions.

Explore the CSHL–Northwell affiliation

Targeting PDK3 to alleviate cancer cachexia: hepatic PDK3 expression predicts patient survival, from fly discovery to mouse investigation to therapeutics

Discoveries & Perspectives

Nature Metabolism · 2025

Hepatic gluconeogenesis and PDK3 upregulation drive cancer cachexia in flies and mice

Liu Y et al.

Read the study

bioRxiv · 2025 · Preprint

Hepatic ceramide synthesis links systemic inflammation to organelle dysfunction in cancer

Liu Y et al.

Read the preprint

Nature Communications · 2024

Mechanistic characterization of a Drosophila model of paraneoplastic nephrotic syndrome

Xu J, Liu Y et al.

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Ying Liu Laboratory
Feinstein Institutes for Medical Research | Northwell Health

 

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