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Drug Discovery Platforms

Drug discovery platforms are the tools used to find the next drug: gene screens, organoids, models in mice, and AI.

CRISPR functional genomics (DepMap), patient-derived organoids and xenografts, ex vivo drug sensitivity testing, structure-based and AI-driven design, degrader platforms, and conjugation chemistry.

Drug Discovery Platforms: how this front works · animated schematic, not to scale

Technologies

49top
Emerging
AI compute and model platforms for oncology

AI compute platforms are the GPUs, model libraries, and cloud services that pathology, radiology, and drug-design AI run on.

Phase 2
AI-driven drug & target discovery

Using machine learning to pick targets, design molecules and antibodies, and predict which ADC will work.

Established
AlphaFold 3

Predicts the 3D shape of proteins together with DNA, RNA, small molecules and antibodies, the starting point for much modern drug design.

Preclinical
Bacteriophage-based tumour delivery

Using viruses that infect bacteria, not human cells, as programmable delivery shells for cancer drugs and vaccines.

Emerging
BH3 profiling (functional apoptosis testing)

A lab test that measures how close a leukaemia cell is to self-destructing, and which survival protein is holding it back, to predict response to venetoclax-type drugs.

Established
Biobanking and tissue procurement

Freezers full of consented tumour samples with matched clinical data, which every biomarker and drug programme depends on.

Emerging
BioEmu (Microsoft)

Predicts the many shapes a protein moves between, not just one, thousands of times faster than simulation.

Emerging
Boltz-1 / Boltz-2 (MIT, open)

Open-source structure models that match AlphaFold 3, with Boltz-2 also predicting how strongly a drug binds.

Emerging
Chai-1 / Chai-2

Structure and antibody-design models from Chai Discovery, with Chai-2 reporting high zero-shot antibody hit rates.

Emerging
Chemistry42 and Pharma.AI (Insilico)

Generative chemistry platform behind the first AI-discovered drug to reach phase 2, plus oncology candidates.

Established
CRISPR functional genomics

Knocking out every gene one at a time in cancer cells to find which ones they cannot live without.

Phase 1
De novo designed protein binders

Designing a protein from scratch on a computer to grip a chosen target, instead of finding one in an animal or a library.

Emerging
Digital twins and virtual control arms

Using a model of what would have happened to a patient on standard treatment, so fewer people have to be randomised to it.

Preclinical
DNA origami nanorobots

Folded DNA machines that open only when they touch a tumour, releasing a payload or clotting the tumour's blood supply.

Phase 2
Engineered bacteria as living cancer drugs

Bacteria that seek out the low-oxygen core of tumours, then manufacture a drug on the spot.

Phase 1
Engineered exosomes as drug carriers

Loading the tiny vesicles cells naturally use to talk to each other with a cancer drug, so the body treats the carrier as its own.

Emerging
ESM3 (EvolutionaryScale)

ESM3 is a generative protein model that designed a working fluorescent protein far from any natural sequence.

Emerging
Functional (ex vivo) drug testing

Growing a patient's own cancer cells in a dish and testing drugs on them directly, instead of guessing from genetics.

Emerging
Geneformer

The first widely used transformer trained on millions of single cells, able to predict which genes matter in a disease.

Established
Genomics cloud and secure research environments

Cloud systems where hospitals and researchers store and analyse genomic data securely at petabyte scale.

Established
High-throughput screening and DNA-encoded libraries

Testing millions or billions of chemical compounds against a cancer target automatically to find starting points for new drugs.

Concept
In vivo base and prime editing for cancer

In vivo base and prime editing would rewrite a cancer's DNA letter by letter inside the body. It works in the liver for inherited disease; nobody has yet corrected a cancer this way in a person.

Established
Long-read sequencing (PacBio, Oxford Nanopore)

Reading DNA in very long stretches, which reveals rearrangements and methylation that short-read machines miss.

Phase 1
Molecular glue discovery platforms

Molecular glues are small molecules that stick two proteins together so the cell destroys one of them. They are smaller and more drug-like than bifunctional degraders.

Emerging
N-of-1 and rapid platform trials

Building a trial around one patient, or letting one trial swap drugs in and out as evidence accumulates.

Established
NVIDIA BioNeMo

BioNeMo is the software stack many biology foundation models are trained and served with.

Phase 2
Organoid-guided therapy at scale

Organoid-guided therapy means routinely growing a piece of each patient's tumour and testing drugs on it before choosing, rather than relying on genetics alone.

Established
Patient-derived organoids

Patient-derived organoids are miniature 3D versions of a patient's tumour grown in the lab.

Established
Patient-derived xenografts

A patient-derived xenograft is a patient's tumour grown in a mouse, used to test drugs before they reach people.

Established
Payload-linker synthesis (high-potency API)

Making the microgram-potent toxins inside ADCs, in facilities built so a speck of dust cannot harm a worker.

Emerging
PDAC organoid pharmacotyping

Growing a patient's pancreatic tumour as mini-organs in a dish and testing chemotherapies on them to pick the regimen most likely to work.

Emerging
Phenom-2 and Recursion OS

A model trained on billions of cell microscopy images to read what a drug or gene knockout does to a cell.

Preclinical
Programmable DNA-targeting therapeutics

Programmable DNA-targeting therapeutics are an experimental idea: a drug that reads a cell's DNA, recognises a cancer-specific sequence, and kills only cells that carry it. Change the guide, and the same drug becomes a new drug.

Emerging
Proteomics & phosphoproteomics

Measuring the proteins in a tumour, which is what drugs actually hit, rather than the genes that encode them.

Established
Proteomics instruments and affinity platforms

Machines that measure thousands of proteins at once from tissue or blood, used to find drug targets and early-detection markers.

Emerging
RFdiffusion / RFdiffusion2 and ProteinMPNN (Baker Lab)

The tools that design entirely new proteins to bind a chosen target, now used for cancer binders and antibodies.

Emerging
scGPT

A GPT-style model for single-cell data that predicts cell types, perturbation responses, and gene networks.

Phase 1
Self-amplifying and circular RNA therapeutics

RNA drugs that copy themselves inside the cell, or are made as a loop so they last longer. Both aim to get more protein from a smaller dose.

Emerging
Single-cell & spatial profiling

Reading the genes of each individual cell, and mapping where each cell sits in the tumour.

Established
Site-specific conjugation & linker chemistry

Site-specific conjugation and linker chemistry decide exactly where and how many payloads attach to the antibody, which determines how safe and effective an ADC is.

Emerging
Spatial biology instruments

Spatial biology instruments are machines that map which genes and proteins are active in each part of a tumour slice.

Emerging
State (Arc Institute perturbation model)

Predicts how cells will respond to a drug or gene knockout, trained on over 100 million perturbed cells.

Established
Structural biology infrastructure (cryo-EM, synchrotrons, AlphaFold)

Structural biology infrastructure is the microscopes, X-ray sources, and prediction models that show what a cancer protein looks like so chemists can design a drug to fit it.

Approved
Synthetic lethality approaches

Finding a second gene that a cancer needs only because its first gene is broken, then hitting the second one.

Phase 3
Systematic drug repurposing

Testing cheap old drugs, aspirin, metformin, statins, beta-blockers, as cancer treatments, because they are safe, available and sometimes work.

Preclinical
Targeting the tumour's own microbes

Some tumours contain bacteria and fungi that shelter cancer cells and break down chemotherapy. Killing them may make treatment work.

Preclinical
Targeting tumour mechanics and pressure

Stiff, high-pressure tumours squeeze their own blood vessels shut, keeping drugs out. Softening them is a way in.

Established
Viral vector manufacturing (lentiviral, retroviral, AAV)

Producing the engineered viruses that carry a CAR gene into T cells. Viral vector manufacturing is a long-standing bottleneck for cell and gene therapy.

Established
Whole-exome & whole-genome sequencing

Reading all the genes (exome) or the entire DNA (genome) of a tumour, rather than a chosen panel.

Key papers

11top
reviewCancer Discovery 2022
Hallmarks of Cancer 2022: adding phenotypic plasticity, epigenetic reprogramming, microbiomes and senescent cells

Cancer is now understood to change its identity and behaviour without new mutations, to be shaped by bacteria inside and around it, and to be helped along by ageing cells. This explains why some tumours escape targeted drugs by changing cell type and why gut bacteria affect immunotherapy response.

methodsNature 2021
AlphaFold 2: predicting protein structures to near-experimental accuracy

The shape of nearly every protein is now available to any researcher in seconds instead of years, which shortens the path from a cancer target to a designed molecule. It does not by itself produce drugs: binding pockets, dynamics and cellular context still need experiment.

meta analysiseLife 2021
Reproducibility Project: Cancer Biology found that landmark preclinical results mostly shrank or vanished on replication

Many exciting laboratory findings that motivate drug programmes are weaker or less reliable than published, which helps explain the high failure rate of drugs entering clinical trials. It argues for pre-registration, detailed methods, data sharing and independent replication before major translational investment.

meta analysisJNCI: Journal of the National Cancer Institute 2019
Unger: most patients never get the chance to join a cancer trial, and when offered, half say yes

Patients are not the bottleneck; trial access is. Bringing trials to community practices, loosening restrictive eligibility criteria and reducing site burden would do more for enrolment than patient education. Trials today reflect the minority of patients who happen to be treated where trials exist.

basicCell 2018
TCGA Pan-Cancer Atlas: 10,000 tumours across 33 cancer types, classified by molecular features

Cancers are defined as much by the tissue they come from as by the mutations they carry, which is why the same drug can work in one organ and fail in another with the same mutation. TCGA is the shared public dataset behind most modern biomarkers and target discovery.

basicCell 2017
Defining a Cancer Dependency Map: which genes each cancer cell line cannot live without

DepMap is the lookup table drug hunters use to ask: which cancers would die if we blocked this gene, and how would we recognise them? It generated targets such as WRN and PRMT5-MTAP now in clinical trials, and it is public.

meta analysisJAMA Internal Medicine 2015
Prasad: most surrogate endpoints in cancer trials correlate poorly with survival

A drug that shrinks tumours or delays progression on scans has not necessarily been shown to help patients live longer or better. Patients and clinicians should ask what the endpoint was; regulators should insist on timely confirmatory trials; and trialists should validate surrogates before relying on them.

reviewScience 2013
Cancer genome landscapes: about 140 driver genes, and each tumour needs only a handful

There are not thousands of cancer genes, and any one patient's tumour is driven by only a few of them. That makes targeted sequencing panels sensible, but because most drivers are lost tumour suppressors, drugs exist for only a minority, which is why the same group turned to early detection.

basicNature 2013
Ostrem and Shokat: the hidden pocket that made KRAS G12C druggable

The most frequently mutated oncogene in cancer stopped being undruggable, and patients with KRAS G12C lung and bowel cancers now have targeted pills. The approach, exploiting a mutation-created chemical handle and an inactive-state pocket, has become a template for other hard targets.

basicPNAS 2001
The first PROTAC: a chimeric molecule that tags a protein for destruction

Instead of blocking a cancer protein, a drug can now remove it entirely, which works even for proteins without a druggable active site and can overcome resistance driven by target overexpression or mutation. Several degraders are in late-stage trials for breast and prostate cancer.

reviewCell 2000
The Hallmarks of Cancer: six capabilities every tumour must acquire

The hallmarks are the mental map most oncologists and researchers use to think about what cancer is and where drugs act. A newcomer can understand nearly every therapy as an attack on one hallmark: kinase inhibitors on proliferative signalling, checkpoint blockade on immune evasion, anti-VEGF drugs on angiogenesis.

Connected

133top

technologies

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AI compute and model platforms for oncologyAI-driven drug & target discoveryAlphaFold 3Bacteriophage-based tumour deliveryBH3 profiling (functional apoptosis testing)Biobanking and tissue procurementBioEmu (Microsoft)Boltz-1 / Boltz-2 (MIT, open)Chai-1 / Chai-2Chemistry42 and Pharma.AI (Insilico)CRISPR functional genomicsDe novo designed protein bindersDigital twins and virtual control armsDNA origami nanorobotsEngineered bacteria as living cancer drugsEngineered exosomes as drug carriersESM3 (EvolutionaryScale)Functional (ex vivo) drug testingGeneformerGenomics cloud and secure research environmentsHigh-throughput screening and DNA-encoded librariesIn vivo base and prime editing for cancerLong-read sequencing (PacBio, Oxford Nanopore)Molecular glue discovery platformsN-of-1 and rapid platform trialsNVIDIA BioNeMoOrganoid-guided therapy at scalePatient-derived organoidsPatient-derived xenograftsPayload-linker synthesis (high-potency API)PDAC organoid pharmacotypingPhenom-2 and Recursion OSProgrammable DNA-targeting therapeuticsProteomics & phosphoproteomicsProteomics instruments and affinity platformsRFdiffusion / RFdiffusion2 and ProteinMPNN (Baker Lab)scGPTSelf-amplifying and circular RNA therapeuticsSingle-cell & spatial profilingSite-specific conjugation & linker chemistrySpatial biology instrumentsState (Arc Institute perturbation model)Structural biology infrastructure (cryo-EM, synchrotrons, AlphaFold)Synthetic lethality approachesSystematic drug repurposingTargeting the tumour's own microbesTargeting tumour mechanics and pressureViral vector manufacturing (lentiviral, retroviral, AAV)Whole-exome & whole-genome sequencing

companies

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institutions

36
Advanced Centre for Treatment, Research and Education in CancerArc InstituteAuckland City Hospital / Te Pūriri o Te Ora Cancer and Blood ServiceBeatson West of Scotland Cancer Centre / CRUK Scotland InstituteCancer Center at IllinoisCancer Prevention and Research Institute of TexasCancer Research UK Manchester InstituteCentro Nacional de Investigaciones Oncológicas (CNIO)Damon Runyon Cancer Research FoundationDavid H. Koch Institute for Integrative Cancer Research at MITEMBL's European Bioinformatics InstituteEuropean Association for Cancer ResearchFondation ARC pour la recherche sur le cancerFondazione AIRC per la ricerca sul cancroFrederick National Laboratory for Cancer ResearchGarvan Institute of Medical Research / Kinghorn Cancer CentreHoward Hughes Medical InstituteInstitute for Protein Design (University of Washington)KWF Dutch Cancer SocietyMax Delbrück Center for Molecular MedicineNational University Hospital / National University Cancer Institute, SingaporeNewcastle Cancer Centre / Northern Centre for Cancer CareOntario Institute for Cancer ResearchPurdue Institute for Cancer ResearchRambam Health Care CampusRosalind and Morris Goodman Cancer Institute, McGill UniversitySalk Institute Cancer CenterSanford Burnham Prebys Medical Discovery InstituteThe Jackson Laboratory Cancer CenterThe Mark Foundation for Cancer ResearchThe V Foundation for Cancer ResearchWalter and Eliza Hall Institute of Medical ResearchWeizmann Institute of ScienceWellcomeWellcome Sanger InstituteWorldwide Cancer Research

roadmaps

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ideas

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people

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bottlenecks

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key papers

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