https://www.patsnap.com/resources/blog/rd-blog/functional-and-perturbation-single-cell-screens-patent-landscape/ · Patsnap · data cut-off 2026-07-31 · downloaded from the live page
Patent Landscape · Single Cell Screens
Functional and Perturbation Single Cell Screens: Patent Trends and Who Holds the Core Claims
  • A three-way filing cluster. the strongest co-assignee pairing links two academic-research entities at 604 shared families, with a second pairing at 302 — a sign that core CRISPR screen priority claims were built jointly rather than by a single institution.
  • Filing has cooled from its 2018 peak of 203 records but stayed active through 2021-2024, where the tracked figure moved from 135 to 118 records, a 13% pullback rather than a collapse.
  • C12N carries 71.1% of the 1,402 records in scope while bioinformatics-tagged filings (G16B) sit at just 4.3% — the readout and analysis layer is thin relative to the molecular engineering layer.
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1,402
Published Records
-13%
Filing Growth 2021→2024
US
Leading Jurisdiction
100
Active Filers Ranked

Filing growth compares 2021 (135 records) with 2024 (118) — a three-year span. 2024 is the most recent year we treat as complete: publication lags filing by roughly 18 months, so 2025 onwards are still filling in and any growth rate that ends there would understate the field.

Published byPatsnap Research··7 min readSourced from Patsnap Eureka
Overview

What this landscape covers

Functional and perturbation single cell screening combines guide RNA delivery, multiplicity-of-infection control, guide assignment and readout at single-cell resolution. Patent activity in this space spans CRISPR screen composition-of-matter claims, library design methods, and the assays used to link a genetic perturbation to a measurable phenotype. This dataset covers 1,402 published records filed between 2015 and mid-2026, indexed where the claims or description reference perturbation screening together with a screen-design or readout parameter such as multiplicity of infection, guide assignment accuracy, or library design.

Because publication typically lags filing by around 18 months, the 2025 and 2026 counts in the trend chart are still incomplete and should not be read as a slowdown in actual filing activity.

Filing activity and technology mix, 2017-2026
  1. 1THE BROAD INST INC685
  2. 2MASSACHUSETTS INST OF TECH648
  3. 3PRESIDENT & FELLOWS OF HARVARD COLLEGE315
  4. 4RGT UNIV OF CALIFORNIA97
  5. 5DANA FARBER CANCER INSTITUTE INC61
  6. 6THE BRIGHAM & WOMEN S HOSPITAL INC56
  7. 7THE GOVERNMENT OF THE UNITED STATES OF AMERICA AS REPRESENTED BY THE SECRETARY DEPARTMENT OF HEALTH & HUMAN SERVICES47
  8. 8THE GENERAL HOSPITAL CORP46
  9. 9THE BOARD OF TRUSTEES OF THE LELAND STANFORD JUNIOR UNIV44
  10. 10RUTGERS THE STATE UNIV33
Source: Patsnap Eureka. Assignee ranking and totals. Derived from a Patsnap search on Functional and Perturbation Single Cell Screens covering 2015–2026, data cut-off 2026-07-31. Counts reflect published records only and shift as new filings publish.Run this in Eureka MCP

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The data

Filing trend and technology composition

The figures below are drawn directly from the underlying record set: a yearly filing count, and the IPC subclasses that these records are tagged against. Because many records carry more than one IPC subclass, the technology shares sum to well over 100% of the 1,402 records in scope.

Filing trend, 2017-2026

Filings rose to a peak of 203 records in 2018, then settled into a lower plateau; the tracked comparison of 135 records in 2021 against 118 in 2024 shows a 13% pullback over that three-year span, not a sudden drop-off. 2025-2026 counts are still filling in due to publication lag.

Filing trend, 2017-202606312518825015520172032018201920202021202220232024202532026Most recent year is partial — publication lag means later filings are not yet visible.

Technology composition by IPC subclass

C12N (microorganisms and genetic engineering) tags 71.1% of the 1,402 records, confirming that most filings anchor on the molecular engineering of the perturbation system itself. A61K (medicinal preparations, 35.4%) and C12Q (measuring/testing with enzymes or DNA, 22.9%) follow, while G16B (bioinformatics, 4.3%) and C07D (heterocyclic compounds, 5.2%) are comparatively thin.

Technology composition by IPC subclassC12N · Microorganisms & genetic engin…99771.1%A61K · Medicinal preparations49635.4%C12Q · Measuring & testing involving …32122.9%A61P · Therapeutic activity of compou…29921.3%C07K · Peptides & proteins19413.8%G01N · Material analysis & testing17112.2%C07D · Heterocyclic compounds735.2%G16B · Bioinformatics604.3%Other20214.4%

Shares are the percentage of the 1,402 records in scope. A patent can carry several IPC classes, so the shares add up to more than 100%.

Source: Patsnap Eureka. Filing trend and technology composition. Derived from a Patsnap search on Functional and Perturbation Single Cell Screens covering 2015–2026, data cut-off 2026-07-31. Counts reflect published records only and shift as new filings publish.

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Key Patents

Most-cited records in this field

Representative Filing
US20240158840A12024-05-16

Systems and methods for determining barcodes and screening in situ

YALE UNIVERSITY

Provided herein are methods for decoding nucleic acid barcodes in situ by using rolling circle amplification and labeled probes. Also provided herein are methods of performing an in situ genetic screen, using the nucleic acid barcode decoding techniques described herein.Filed by Yale University, published 2024-05-16 as US20240158840A1 — illustrative of a newer wave of filings that push perturbation screening toward in situ, spatially resolved readout rather than pooled sequencing alone.

US20240158840A1 — patent drawing 1US20240158840A1 — patent drawing 2
View full filing
Highest-citation records
#Publication no.Patent titleCitations
1US20160208243A1Novel crispr enzymes and systems863
2US9790490B2CRISPR enzymes and systems756
3WO2016205711A1Novel crispr enzymes and systems341
4EP3009511A2Novel crispr enzymes and systems341
5WO2016106236A1RNA-targeting system279
6WO2016049258A2Functional screening with optimized functional crispr-CAS systems265
7WO2017075265A1Multiplex analysis of single cell constituents256
8WO2016205764A1Novel crispr enzymes and systems255
9WO2016094872A1Dead guides for crispr transcription factors243
10WO2016205749A1Novel crispr enzymes and systems238

Citation counts favour older, foundational filings inside this searched corpus — they signal influence on later filers, not current commercial importance.

Each row carries its publication number; clicking a row searches Eureka by that number.

Source: Patsnap Eureka. Citation counts and representative records. Derived from a Patsnap search on Functional and Perturbation Single Cell Screens covering 2015–2026, data cut-off 2026-07-31. Counts reflect published records only and shift as new filings publish.Run this in Eureka MCP
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Insights

What the numbers mean for a filing strategy

Three patterns stand out once the record set is broken down by year, class and citation weight.

Filing momentum
135 → 118
records, 2021 → 2024

A plateau, not a collapse

The 13% pullback from 2021 to 2024 follows a much steeper run-up to the 2018 peak of 203 records. Read alongside the 18-month publication lag, this looks like a maturing core claim set rather than departing interest — later years are simply undercounted so far.

Trend basis: tracked filing counts, 2021-2024
Technology concentration
71.1%
of 1,402 records tag C12N

The engineering layer dominates the claims

Composition and delivery of the perturbation system itself (C12N) sits well ahead of the analysis layer: G16B bioinformatics claims cover only 4.3% of records. Readout and decoding methods, like the in situ barcode approach in the featured filing, are a comparatively open claim space.

IPC basis: share of all 1,402 records, multi-tagged
Citation weight
863 citations
top-cited record

Foundational enzyme-system claims anchor the field

The most-cited records in this set are CRISPR enzyme and system filings rather than screen-design or readout patents. That is consistent with an older-record bias in citation counts inside any searched corpus, but it also confirms these composition claims remain the reference point new filings build against.

Citation basis: within-corpus citation counts
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Looking for what nobody has claimed yet?

Eureka can read the same corpus for gaps instead of for coverage: under-claimed branches adjacent to functional and perturbation single cell screens, with the prior art for and against each one.

Find the white space →
Source: Patsnap Eureka. Co-assignee relationships and derived observations. Derived from a Patsnap search on Functional and Perturbation Single Cell Screens covering 2015–2026, data cut-off 2026-07-31. Counts reflect published records only and shift as new filings publish.Run this in Eureka MCP
Players

Who is filing, and how concentrated is the field

The assignee ranking returned by the data endpoint covers 100 companies and institutions, counted in records — it is the full ranking the endpoint returns, not a top-50 or top-100 cut. The leader holds 685 records; by fifth place that figure is down to 61, and by tenth place to 33, showing a steep drop after the top few names.

Leader
685 records
leading assignee

A single academic research institute leads by a wide margin

The top-ranked assignee's 685 records dwarf the fifth-place figure of 61, a gap that itself signals how much of the foundational CRISPR screen IP traces to one research consortium's filing programme rather than a broad industry base.

Ranking basis: 100 assignees, counted in records
Co-filing
604 shared families
strongest co-assignee pair

Core claims were filed jointly, not solo

Ten co-assignee pairs appear in this dataset. The strongest pairing shares 604 families, and a second pairing among the same small cluster of institutions shares 302 — evidence that the earliest, broadest screen and enzyme claims were built through joint academic filing rather than one lab working alone.

Basis: co-assignee pair record counts
Momentum
-94% YoY
leading two assignees, latest year

Latest-year counts are down across the leading names

Every one of the leading assignees shows a sharp year-on-year drop in the latest tracked year, several to zero. Given the roughly 18-month publication lag, this should be read as an artefact of incomplete recent-year data rather than a genuine pullback by these filers.

Momentum basis: latest tracked year vs prior year
🔍
Under-claimed sub-areas worth checking before filing
Based on the thinner IPC branches relative to the dominant molecular-engineering classes
in situ barcode decoding methodsguide assignment accuracy scoringpooled-to-spatial readout conversionmultiplicity-of-infection calibration toolsscreen scalability automationlibrary design software methods
Rank all filers by momentum →
Recent-year filing momentum by assignee
AssigneeRecent yearYoY
The Broad Institute, Inc.1-94%
Massachusetts Institute of Technology1-94%
The Regents of the University of California1-50%
President and Fellows of Harvard College0-100%
Dana-Farber Cancer Institute, Inc.0-100%
The Brigham and Women's Hospital, Inc.0-100%
ZHANG FENG0—
The General Hospital Corporation0—
Source: Patsnap Eureka. Assignee-level momentum. Derived from a Patsnap search on Functional and Perturbation Single Cell Screens covering 2015–2026, data cut-off 2026-07-31. Counts reflect published records only and shift as new filings publish.Run this in Eureka MCP
What's Next

Where to take this analysis

The filing trend and assignee concentration point to a few concrete next steps for a team scoping freedom-to-operate or a new filing.

Map the joint-filer cluster in detail

The strongest co-assignee pairs sit among a small group of research institutions. Before filing near their claim scope, pull the specific claim language each pairing filed jointly rather than relying on the aggregate record counts alone.

Explore assignee claims in Eureka

Watch the readout and bioinformatics layer

G16B-tagged filings are thin relative to the C12N core. If a project's contribution is in decoding, scoring, or automating screen readout rather than the perturbation system itself, this is the branch with the most room.

Search white space in Eureka

Track the newest in situ and spatial filings

Newer filings, including the featured 2024 record, push toward spatially resolved and in situ readout rather than pooled sequencing. Monitor this branch specifically given the 18-month publication lag on the most recent filings.

Set up monitoring in Eureka
Source: Patsnap Eureka. Forward-looking reading of the same dataset. Derived from a Patsnap search on Functional and Perturbation Single Cell Screens covering 2015–2026, data cut-off 2026-07-31. Counts reflect published records only and shift as new filings publish.Run this in Eureka MCP
FAQ

Common questions about this landscape

Answers are grounded in the same dataset. Derived from a Patsnap search on Functional and Perturbation Single Cell Screens covering 2015–2026, data cut-off 2026-07-31. Counts reflect published records only and shift as new filings publish.Run this in Eureka MCP

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Disclaimer. This page is generated from Patsnap Eureka data drawn from a limited snapshot of global patent and scientific-literature records, and is provided for general information and reference only.

Patent data carries inherent limitations: recent filings (typically the most recent 18–24 months) are under-counted due to standard publication lag; counts may be reported at either a patent-family or a patent-record basis and are not always directly comparable; classification, applicant-name, and citation data may contain errors, duplicates, or omissions; and the underlying search query defines and constrains the scope shown. As a result, the analysis may be incomplete or inaccurate and may not reflect the full technology landscape.

Nothing on this page constitutes an exhaustive prior-art, novelty, freedom-to-operate, or validity search, nor does it constitute legal, financial, investment, or professional advice, and it should not be relied upon as such. Any patent, commercial, or strategic decision should be verified independently and reviewed with qualified patent, legal, and domain professionals. Patsnap makes no warranties, express or implied, as to the accuracy, completeness, or fitness for any particular purpose of the information presented.

Machine translation. Assignee and organisation names originally recorded in Chinese, Japanese or Korean have been rendered into English by an AI translation step so that the tables stay readable. These renderings are best-effort and may not match a company's registered English name; the original name is what the underlying patent record carries, and it is what any Eureka query launched from this page uses.

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