Drug Discovery · Molecular Pharmacology · Oncology & Immunology

RezaBeheshti Zavareh

Ph.D., Medical Biophysics · University of Toronto

Twenty years spent asking the same question — does this molecule change biology in a way that matters to a patient? — across every scale from a test tube to a clinical trial.

Principal Scientist, Early Discovery Biology — Montai Therapeutics, Cambridge MACurrent
Associate Director — Trotana Therapeutics, San Diego
Scientist — Janssen / Johnson & Johnson, San Diego
Fellow — Calibr / The Scripps Research Institute, La Jolla
Career at a glance
20+Years in Discovery
24Publications
1,461Citations
3Therapeutic Areas
Career Institutions
Montai Therapeutics · Cambridge, MA
Trotana Therapeutics · San Diego, CA
Janssen / Johnson & Johnson · San Diego, CA
Calibr / The Scripps Research Institute · La Jolla, CA
Ferring Research Institute · San Diego, CA
Princess Margaret Cancer Centre · Toronto, Canada
Chapter I

The Boy With the Microscope — Isfahan, Iran and the First Revelation

Before the publications, before the pharmaceutical companies, before the million-compound screens and the machine-learning platforms — there was a ten-year-old in Isfahan, Iran crouching over a microscope, watching pond water. Not because anyone told him to. Because what was in that water was, quite simply, impossible to believe.

Reza Beheshti Zavareh grew up in Isfahan — a city of extraordinary beauty, of ancient bridges and turquoise domes, of a culture that has always prized learning and inquiry — with the kind of curiosity that doesn't wait for school to catch up with it. His first microscope was a revelation in the most literal sense: a device that revealed an entire civilization invisible to the naked eye. Paramecia moving with apparent intention. Algae in geometries no human had designed. The developmental stages of goldfish — a creature he knew from a bowl on a shelf, now unfolding in front of him through a lens, transparent and extraordinary, all its future complexity packed into a cluster of dividing cells.

This was his first lesson in what science actually is: not the memorization of facts, but the experience of a world you didn't know existed until you looked more carefully. He wasn't yet thinking about drug discovery or molecular pharmacology or cancer biology. He was thinking about the pond. About what else was in it. About what the goldfish embryo would look like in three more hours.

"The microscope didn't make me a scientist. It made me someone who couldn't stop asking what was underneath the next layer. The rest followed from that."

Nature was his first teacher in a broader sense too. The animal kingdom, evolution, the branching logic of how life diversifies across millions of years — these were not abstract subjects in a textbook but a framework that made everything else make sense. The evolutionary instinct — to ask why a biological system is the way it is, not just what it is — would become the hallmark of his scientific thinking decades later in the drug discovery laboratory.

Chapter II

University of Toronto — First Experiments, First Patients, First Reckoning With Complexity

The University of Toronto's program in Genes, Genetics and Biotechnology gave Reza his first formal laboratory experiences — and they were not gentle introductions. One of the earliest and most formative was participation in LD50 determination studies: the systematic measurement of the dose of a compound lethal to fifty percent of a test population. It is a protocol that strips away sentimentality. A molecule is not good or bad; it has a dose-response relationship, a therapeutic window, a margin. Learning to think in those terms — rigorously quantitative, biologically grounded, clinically aware — shaped how he would approach pharmacology for the rest of his career.

In vivo testing followed. The experience of working with animal models early in one's training does something particular to a scientist: it imposes a moral weight that in vitro work does not. The question ceases to be whether the assay reads correctly and becomes whether the biology is real, whether the dose translates, whether the mechanism will survive contact with a whole organism. Reza internalized that weight rather than setting it aside — and it became the instinct that would later drive him to insist on disease-relevant cellular models and translational pharmacology endpoints throughout his career.

The most consequential undergraduate experience, however, was his involvement in a multiple myeloma clinical trial — a glimpse, at the very beginning of his scientific life, of where all the assays and the compounds and the animal models were ultimately supposed to lead. Multiple myeloma is a cancer of plasma cells, devastating and at the time largely incurable. Being part of a team working at the clinical interface — where the data was not fluorescence units in a plate reader but patient outcomes — left a mark that has never faded.

"You can spend years optimizing an assay and never think about who it's for. That clinical trial experience made it impossible for me to forget."
Chapter III

The Glycan Years — When Sugar Molecules Turned Out to Matter Enormously

His Ph.D. thesis, "Investigation of the Role of the N-Glycosylation Pathway in Malignancy," emerged from a hypothesis that the field had underestimated. N-glycosylation — the attachment of complex sugar chains to proteins — had been characterized as a structural phenomenon, wallpaper on the surface of proteins. Reza's work helped reframe it as a functional regulator of cancer progression.

The papers that came from this period established the intellectual signature of his career: mechanistic precision combined with translational ambition. His 2008 Cancer Research publication demonstrated that inhibition of the sodium/potassium ATPase impairs N-glycan expression and function — a finding that linked a familiar ion transporter to an entirely unexpected biology. His 2012 PLoS One paper showed that suppression of N-glycan branching by GnTI knockdown inhibits cancer cell migration and metastasis.

Selected doctoral publications: Beheshti Zavareh R. et al., "Inhibition of the sodium/potassium ATPase impairs N-glycan expression and function." Cancer Research, 2008 · Beheshti Zavareh R. et al., "Suppression of N-glycan branching by GnTI knockdown inhibits cell migration and metastasis." PLoS One, 2012

"The N-glycan pathway isn't decoration — it's infrastructure. Change the glycosylation state of a cancer cell and you change how it migrates, how it evades, how it dies. That became my obsession."
Chapter IV

Scripps and the Million-Compound Quest — Learning to Listen at Scale

Postdoctoral training at the California Institute for Biomedical Research (Calibr) and The Scripps Research Institute in La Jolla transformed Reza from a mechanistic cell biologist into something rarer: a scientist who can design experiments at the scale of a million compounds without losing the biological intuition that makes the data mean something.

At Calibr he designed assay cascades for both target-based and phenotypic lead discovery, applied high-content imaging and flow cytometry to compound profiling, and contributed to multiple high-impact programs. Among them: work on serine biosynthesis inhibitors published in PNAS (Mullarky et al., 2016), GOT1 enzyme inhibitors, and a landmark study on HSP90 inhibition and immune checkpoint modulation published in Cell Chemical Biology in 2020.

The HSP90 paper deserves special attention. Using a phenotype-based discovery approach, the team identified that small-molecule HSP90 inhibitors can directly decrease the expression of multiple immune checkpoint proteins — including PD-L1 and PD-L2 — at clinically relevant concentrations both in vitro and in vivo. In an era of intense interest in checkpoint blockade therapy, this was a finding with real translational stakes.

"High-throughput screening taught me humility. You can screen a million compounds and find twenty that work, and still not know why. The discipline is learning how to ask the question before you press the button."
Chapter V

Big Pharma, Big Problems — Janssen and the Art of Building Platforms

Joining Janssen Pharmaceutical Companies of Johnson & Johnson as a Scientist in Lead Discovery and Profiling marked Reza's transition from the academic-adjacent world of research institutes into the demanding operational reality of pharmaceutical drug discovery. Here, assays don't just need to work — they need to work reproducibly across hundreds of plates, transferred to CROs, scaled to automation, and defended to project teams who need answers on a Monday morning.

His signature contribution at Janssen was establishing and scaling high-throughput flow cytometry as a discovery platform — a methodological expansion that enabled hit identification, lead optimization, mechanism-of-action studies, and translational pharmacology across immunology, neuroscience, infectious disease, and virology. Building it into a true HTS platform required rethinking sample preparation, data acquisition, QC frameworks, and automation interfaces simultaneously.

His Janssen years also produced the NKG2D publication in PNAS (Thompson et al., 2023) — the identification of first-in-class small-molecule inhibitors for an NK cell receptor with significant implications for immune checkpoint biology and autoimmune disease.

Chapter VI

Building the Future — Trotana, Montai, and the AI-Enabled Discovery Era

As Associate Director at Trotana Therapeutics, Reza built a discovery biology function from the ground up — strategy, infrastructure, operating model, and the team itself. Managing four direct reports and executing multiple programs from target validation through candidate nomination, he operated at the intersection of scientific leadership and organizational architecture.

His current role as Principal Scientist at Montai Therapeutics places him at the frontier of what drug discovery is becoming. Montai's machine-learning-enabled platform integrates multimodal AI models with wet-lab biology to accelerate the design-make-test cycle beyond what any purely human team could achieve. Reza leads biological and molecular pharmacology strategy for immunology programs, defining assay cascades that must be robust enough to feed AI models with high-quality, minimally biased data — a fundamentally new scientific demand.

"The scientists who will define the next decade of drug discovery are the ones who can speak both languages — who can design a flow cytometry panel and explain to a machine-learning engineer why batch effects will corrupt their training data."
Chapter VII

On Teaching Science — Why the Mentorship Question Matters as Much as the Research Question

Across every institution in his career, a pattern recurs in Reza's colleagues' descriptions of him: they learned something. At Princess Margaret, at Calibr, at Janssen, at Trotana, at Montai — the lab notebooks fill with data, but so do the careers of the scientists who worked alongside him. Mentorship, in his view, is not a soft skill appended to the real work. It is the real work, scaled.

His approach to teaching science is direct: scientists should understand not just what a protocol says, but why every step exists, what it assumes, and under what conditions it fails. A junior scientist who understands why DMSO at 0.5% changes the assay window, why the plate map controls matter, and why a Z′-factor of 0.62 on a poorly designed assay is more dangerous than one of 0.45 on a well-designed one — that scientist becomes a force multiplier.

This site exists partly as an extension of that philosophy: a place where the reasoning behind the methods is written down, made searchable, and offered freely to the community of practitioners who are figuring it out right now.

Curriculum Vitae

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Professional Experience
Apr 2025 — Present● Current
Principal Scientist, Early Discovery Biology
Montai Therapeutics · Cambridge, MA
Leads biological and molecular pharmacology strategy for immunology discovery programs within a machine-learning-enabled platform. Defines integrated assay cascades, biomarker strategies, and progression criteria linking in vitro pharmacology, SAR interpretation, and in vivo endpoints. Internal expert for flow-cytometry-based ligand/receptor binding, receptor occupancy, and functional assays.
Sep 2024 — Apr 2025
Independent Consultant / Visiting Scientist
Loma Linda University Cancer Center · Yatiri Bio · Chemotactics
Scientific leadership and translational support across academic and startup environments in oncology and immunology. Visiting Scientist in myelodysplastic syndromes; AI-enabled biomarker analytics at Yatiri Bio; chemokine/receptor signaling assay consulting at Chemotactics.
Nov 2021 — Sep 2024
Associate Director, Lead Discovery & Molecular Pharmacology
Trotana Therapeutics · San Diego, CA
Built and led discovery biology and molecular pharmacology function from inception. Directed multiple programs from target validation through candidate nomination in RNA biology, oncology, and immunology. Recruited and managed multidisciplinary team of 5 scientists; drove cross-functional alignment across biology, chemistry, DMPK, and computational teams.
Jan 2021 — Nov 2021
Senior Scientist, Lead Finding Platform & Technology
Ferring Research Institute · San Diego, CA
Led an inflammatory bowel disease discovery program. Built a discovery team of 3 direct reports supporting HTS and in vitro pharmacology for autoimmune targets.
Dec 2017 — Jan 2021
Scientist, Lead Discovery and Profiling
Janssen Pharmaceutical / Johnson & Johnson · San Diego, CA
Established and scaled high-throughput flow cytometry as a discovery platform across immunology, neuroscience, infectious disease, and virology. Developed miniaturized cell-based and biochemical assays compatible with automation and HTS workflows.
Oct 2012 — Dec 2017
Postdoctoral / Institute Fellow
Calibr / The Scripps Research Institute · La Jolla, CA
Translational research in oncology and immunology. Developed HTS biochemical and cellular assays for target validation, hit discovery, and mechanism-of-action studies. Contributed to publications in Cell Chemical Biology, PNAS, and Cell Reports.
Selected Publications · 24 total · 1,461 citations
2024
Myeloid reprogramming by JAK inhibition enhances checkpoint blockade therapy
Zak J. et al. (contributing author)
Science
2023
Identification of small-molecule inhibitors for NKG2D
Thompson A.A. et al., Beheshti Zavareh R. et al.
Proceedings of the National Academy of Sciences
2020
HSP90 inhibition enhances cancer immunotherapy by modulating surface expression of immune checkpoint proteins
Beheshti Zavareh R., Spangenberg S.H., Woods A., Martinez-Pena F., Lairson L.L.
Cell Chemical Biology
2019
Discovery of Small Molecules for the Reversal of T Cell Exhaustion
Marro B.S. et al., Beheshti Zavareh R. et al.
Cell Reports
2018
Biochemical characterization and mutational analysis of novel aspartate aminotransferase inhibitors
Holt M.C., Assar Z., Beheshti Zavareh R., Lin L., Anglin J. et al.
Biochemistry
2016
Identification of a small molecule inhibitor of 3-phosphoglycerate dehydrogenase to target serine biosynthesis in cancers
Mullarky E. et al., Beheshti Zavareh R. et al.
Proceedings of the National Academy of Sciences
2012
Suppression of N-glycan branching by GnTI knockdown inhibits cell migration and metastasis
Beheshti Zavareh R., Sukhai M.A., Hurren R., Gronda M. et al.
PLoS One
2008
Inhibition of the sodium/potassium ATPase impairs N-glycan expression and function
Beheshti Zavareh R., Lau K.S., Hurren R., Datti A. et al.
Cancer Research
Core Expertise
In Vitro Pharmacology & Drug Discovery
Assay Cascade DesignTarget ValidationHit IdentificationLead OptimizationCandidate NominationSAR SupportMechanism of ActionBiophysical AssaysCRO Management
Cancer Biology & Immuno-Oncology
Tumor MicroenvironmentPD-1/PD-L1 BiologyT-cell ExhaustionNK Cell BiologyCancer MetabolismGlycobiologyHematologic Malignancies
Platforms & Methods
High-Throughput Flow CytometryHigh-Content ImagingTR-FRETAlphaScreenFluorescence Polarization1536-Well HTSqHTSReceptor OccupancyAI/ML-Integrated Discovery
Leadership
Team BuildingCross-functional AlignmentPortfolio StrategyMentorshipExecutive PresentationsStage-Gate Frameworks
Education
2005 — 2011
Ph.D., Medical Biophysics
University of Toronto · Princess Margaret Cancer Centre · Toronto, Canada
Thesis: "Investigation of the Role of the N-Glycosylation Pathway in Malignancy" — established N-glycosylation as a functional regulator of cancer cell migration, metastasis, and drug response.
2000 — 2004
B.Sc., Genes, Genetics and Biotechnology
University of Toronto · Toronto, Canada

Technical Writing

Articles on assay development, molecular pharmacology, and the craft of drug discovery — written for scientists who already know what an IC₅₀ is and want the reasoning behind the method, not just the method.

§
First articles in preparation
Oncology · Immunology · HTS Methodology
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Molecular Pharmacology · In Preparation
What HSP90 Inhibitors Taught Us About Immune Checkpoints — and What We Still Don't Understand
The Cell Chemical Biology paper showed that HSP90 inhibition modulates PD-L1 and PD-L2 expression at clinically relevant concentrations. But the mechanism beneath the mechanism remains underexplored. A deep read of what the data did and didn't prove.
Reza Beheshti Zavareh·Coming 2025
Notify Me When Published →
HTS Methodology
High-Throughput Flow Cytometry Is Not Just Fast Flow Cytometry
Building a true HTS flow platform requires rethinking sample prep, QC, and data architecture from scratch. Here's what changes and why it matters.
In preparation
Coming Soon →
Immunology · T-Cell Biology
T-Cell Exhaustion: What It Actually Is, and Why Reversing It Is Harder Than It Sounds
The Cell Reports paper on small molecules reversing T-cell exhaustion raised as many questions as it answered. An honest account of what we know and what the field still needs.
In preparation
Coming Soon →
Selective Availability

Scientific Consulting

While fully engaged at Montai Therapeutics, I take on a small number of consulting engagements each year where the scientific challenge is genuinely interesting and the fit is right. My focus is on early discovery problems that require both strategic thinking and deep experimental knowledge.

Assay Strategy & Cascade Design
Designing screening cascades from target validation through candidate nomination, with appropriate biochemical, biophysical, and cell-based triage logic.
Molecular Pharmacology Advisory
Mechanism-of-action characterization, target engagement strategies, and pharmacodynamic biomarker selection for small-molecule programs.
HTS & Flow Cytometry Platform Build
Establishing or optimizing high-throughput biochemical, cellular, or flow cytometry platforms for early-stage biotech and academic screening centers.
Translational Immunology & Oncology
Disease-relevant model selection, immune assay design, and alignment of in vitro pharmacology with in vivo translational endpoints.
Engagements considered on a selective basis · Typically 1–2 active projects at a time
Reach out at reza.beheshti@gmail.com with a brief description of the scientific challenge

Get in Touch

I'm reachable for scientific conversations, collaboration, consulting enquiries, peer review, and speaking invitations. I respond thoughtfully, though not always immediately.

Currently Open To
Collaboration,
Consulting & Science
  • Selective scientific consulting (see Consulting section)
  • Academic and startup research collaborations
  • Conference lectures and invited talks
  • Peer review (Cell Chem. Bio., PNAS, J. Med. Chem.)
  • Mentorship — postdocs and senior PhD students
  • Science communication and technical writing
Automation · HTS Flow Cytometry · High-Content Imaging · AI

The Technical Side

Twenty years of hands-on platform building — from a Biomek FX in a Toronto hematology lab to designing a first-of-its-kind high-throughput flow cytometry system at Janssen, and now integrating experimental biology with machine learning at Montai.

Chapter 01

Liquid Handling & Lab Automation

Most scientists encounter automation as something that already exists when they arrive. Reza has repeatedly been the person who built it.

~2004Beckman Coulter Biomek FX — first liquid handler, UofT Department of Hematology. Where automation instincts were formed.
2005–11Deepening fluency through doctoral work at Princess Margaret Cancer Centre.
2012–17Calibr / Scripps — GNF Systems dispensers, Labcyte Echo acoustic transfer, Agilent Bravo, full 1536-well HTS infrastructure.
2017–21Janssen — HighRes Biosolutions (HRB) integrated workcell; designed HT-FC platform from ground up.
OngoingSLAS participation and self-directed learning — tracking emerging automation and closed-loop experimentation platforms.

His first liquid handler was a Beckman Coulter Biomek FX — encountered in the University of Toronto's Department of Hematology. Learning a platform at that stage means internalizing something deeper than the protocol: how pipetting errors propagate, how dead volume behaves across tip types, how a CV of 3% in a 384-well plate means something entirely different from 3% in a 96-well plate.

At Calibr/Scripps, scale changed everything. The GNF Systems dispenser — purpose-built for 1536-well HTS — and the Labcyte Echo acoustic liquid handler together enabled compound dispensing at volumes previously impractical. The Agilent Bravo filled the gap for flexible cell-based workflows. At Janssen, the HighRes Biosolutions (HRB) modular robotic platform orchestrated multi-instrument integration — the backbone of the HT flow cytometry platform.

"The Echo changed compound dispensing the way PCR changed DNA amplification. Acoustic transfer eliminated tip contamination, DMSO carryover, and the small systematic errors that quietly corrupt dose-response data."
Self-Directed Development
I continue to explore and develop methods independently — tracking emerging platforms through SLAS, literature, and direct evaluation. Staying current with automation isn't institutional; it's a personal commitment.
Liquid Handler
Biomek FX
Beckman Coulter · ~2004
The original. UofT Hematology. Where the instinct for automation was built — before it was called a skill.
Origin Story
Liquid Handler
Biomek i5 / i7
Beckman Coulter · Later Generations
Evolved span arm design, improved throughput and multi-tip flexibility. Used across multiple sites.
Liquid Handler
Bravo / VPrep
Agilent (formerly Velocity11)
Flexible 96/384-well pipetting for complex cell-based and biochemical workflows. Calibr/Scripps and Janssen.
Deep Expertise
Acoustic Dispenser
Echo 550 / 650
Labcyte (now Beckman Coulter)
Contactless nanoliter acoustic transfer. Transformed compound management and eliminated tip-based carryover artifacts.
Deep Expertise
Robotic Integration
HRB Modular Workcell
HighRes Biosolutions
Modular robotic platform at Janssen orchestrating the HT-FC system — integrating liquid handlers, plate movers, readers, and cytometers into a single automated workflow.
Deep Expertise
Liquid Handler
STARlet / STAR
Hamilton Robotics
High-precision multi-channel liquid handling. Encountered across multiple discovery sites and CRO collaborations.
Chapter 02

Flow Cytometry — Every Platform, Every Application

Training in the University of Toronto's Department of Hematology instills a particular discipline. Clinical flow cytometry demands panel reproducibility at a standard wet-lab research cytometry rarely meets.

Two decades of cytometry breadth — from analytical benchtop instruments to high-throughput screening cytometers — have produced genuine expertise in platform selection, panel design, compensation and unmixing strategy, QC frameworks, and the translation of cytometry readouts into pharmacological conclusions. The right cytometer for a given biology is a scientific decision, not a procurement one.

A defining early experience was working with a pre-commercial version of the IQue Screener (Intellicyt/Sartorius) before it had a commercial name or established workflows. Building HT cytometry methods from scratch — before field standards existed — became a recurring theme, culminating in the Janssen HT-FC platform design.

"At Janssen we designed the entire HT-FC platform from scratch — instrument configuration, HRB robotic integration, plate workflow, staining automation, gating templates, and data pipeline — in collaboration with engineers, software teams, and instrument manufacturers. The most complex platform build of my career."
HT Cytometer
IQue Screener / iQue3
Intellicyt / Sartorius
Used pre-commercially. Built foundational HT-FC methods before field standards existed. The instrument that made cell-based screening at cytometric depth feasible.
Pre-Commercial
High-Parameter
FACSymphony A5 / LSRFortessa
BD Biosciences
Multi-laser high-parameter immunophenotyping. Extensive panel design and compensation experience across oncology and immunology programs.
Deep Expertise
Analytical / Sorting
FACSCanto II / FACSAria
BD Biosciences
Analytical and sorting workhorses. Extensive use from UofT hematology training onward through every career phase.
Deep Expertise
Spectral Cytometry
Aurora / Northern Lights
Cytek Biosciences
Full-spectrum unmixing removes compensation artifacts and enables very high panel density. Significantly expands multiparameter immune profiling capability.
Analytical
CytoFLEX S / Navios
Beckman Coulter
CytoFLEX for compact high-sensitivity work. Navios for clinical-adjacent multiparameter applications.
Benchtop
Attune NxT
Thermo Fisher Scientific
Acoustic focusing improves sensitivity at low cell numbers. Particularly useful for rare immune populations and primary patient samples.
Janssen HT-FC Platform — Designed 2018–2020 · HRB Integrated Workcell
Compound & Cell Preparation
Echo acoustic dispensing for compound transfer + Agilent Bravo for cell seeding and staining across 96/384-well formats with per-plate QC.
HRB Robotic Orchestration
HighRes Biosolutions modular workcell coordinating plate handling, incubation scheduling, and instrument routing across the integrated system.
HT Cytometry Acquisition
IQue-based acquisition — multiparameter flow readouts at screening throughput across target engagement, receptor occupancy, phenotyping, and functional assays.
Data Pipeline & Hit ID
Automated gating templates + activity scoring built cross-functionally with data science teams. SAR integration for medicinal chemistry. Multi-day campaign QC monitoring.
Chapter 03

High-Content Imaging & Phenotypic Screening

The instrument generates images. The science lives in deciding what to measure from them — a decision that cannot be undone after the experiment runs.

Experience spans the full arc of the field's development, from early ArrayScan campaigns at Calibr to confocal Opera Phenix workflows and morphological profiling with Cell Painting. The discipline is not operating the microscope; it's designing the assay before a single plate is imaged.

Cell Painting represents a philosophical shift in how imaging is used in drug discovery. Rather than asking "does compound X activate pathway Y?", it asks "what does compound X do to the cell — globally, without prior hypothesis?" Six-channel morphological profiling generates thousands of features per cell. Applied to mechanism-of-action studies, it reveals polypharmacology, toxicity signatures, and pathway engagement that target-focused assays miss entirely.

"Cell Painting doesn't tell you what a compound is doing. It tells you everything the compound is doing — and then the hard work of interpretation begins."
HCS System
ArrayScan VTI / XTI
Cellomics / Thermo Fisher
Workhorse of phenotypic HCS campaigns at Calibr/Scripps. Hit characterization, nuclear translocation, multi-parameter cellular response profiling.
Deep Expertise
Confocal HCS
Opera Phenix / Operetta CLS
PerkinElmer / Revvity
Spinning-disk confocal for high-resolution phenotypic screening. Superior Z-resolution for 3D cellular models and subcellular localization readouts.
Deep Expertise
HCS System
ImageXpress Micro Confocal
Molecular Devices
High-throughput widefield and confocal imaging with MetaXpress analysis. Applied in compound profiling and phenotypic screening campaigns.
Morphological Profiling
Cell Painting
Broad Institute / JUMP-CP Consortium
Six-channel unbiased morphological profiling. Applied for MOA classification, compound characterization, and phenotypic clustering in discovery programs.
Deep Expertise
Image Analysis
CellProfiler / CellPose
Broad Institute / Open Source
Open-source pipelines for cell segmentation, feature extraction, and morphological profiling. Core tools for Cell Painting workflows.
Kinetic Imaging
FLIPR Tetra
Molecular Devices
Fluorescent kinetic plate reader for calcium flux, GPCR signaling, and ion channel assays. Simultaneous 384-well imaging with real-time readout.
Chapter 04

Detection Platforms — Biochemical & Biophysical Readouts

The plate reader is the workhorse of biochemical HTS. Knowing which reader to reach for — and which detection mode fits the assay biology — is the difference between a clean Z′ and a noise floor.

HTS Reader
PHERAstar FSX
BMG Labtech
Gold standard for AlphaScreen, TR-FRET, and FP-based HTS biochemical assays. Fast 1536-well read times and excellent sensitivity-to-noise ratio.
Deep Expertise
Multimode Reader
EnVision
PerkinElmer / Revvity
Multimode detection for TR-FRET, AlphaScreen, luminescence, and absorbance. Standard in pharma HTS environments. Extensive use at Janssen and Calibr.
Deep Expertise
Multimode Reader
SpectraMax Paradigm / i3x
Molecular Devices
Flexible cartridge-based multimode reader. Applied in biochemical assay development and secondary screening workflows.
Chapter 05

AI & Machine Learning — Across All Platforms

AI in biology is only as good as the experimental design that generated its training data. The scientist who built the platform is the one who can ensure the model has something real to learn from.

Engagement with AI/ML spans three distinct application layers, each requiring different expertise and each carrying specific failure modes when the underlying data is flawed.

"An automated gating algorithm trained on poorly compensated flow data will learn the artifact, not the biology. A morphological profiling model trained on inconsistent staining will cluster by plate rather than by compound. You cannot outsource experimental design to the algorithm."
High-Content Imaging
Deep Learning for Image Analysis
CNN-based cell segmentation, phenotype classification, and morphological feature extraction from Cell Painting and HCS datasets. Moving beyond rule-based analysis toward learned representations that capture what rules miss.
Flow Cytometry · In Development
Automated Gating & Population Discovery
ML-assisted gating for high-parameter panels and unsupervised population discovery in spectral and high-dimensional datasets — an area I am actively developing independently, self-taught and self-motivated, as a natural extension of two decades of cytometry expertise.
Drug Discovery Platform
AI-Enabled Biology (Montai)
Designing assay cascades that feed multimodal AI models with high-quality pharmacology data. Understanding how batch effects, assay variability, and biological noise corrupt training sets is now a core scientific competency.
Translational Analytics
Biomarker & Proteomics AI
AI-enabled proteomics-driven biomarker discovery in consulting context (Yatiri Bio). Pattern identification across complex multi-analyte clinical and translational datasets where human pattern recognition fails at scale.
Self-Directed Development
Much of this AI/ML integration work is self-inspired and self-taught — driven by the conviction that a biologist who understands machine learning well enough to collaborate effectively with data scientists is a fundamentally different kind of scientist. Building that fluency deliberately, one tool and one dataset at a time.