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Research · Peer-Reviewed

The science behind the platform.

CapyBio’s methods are published in Nature, Nature Biotechnology, Cell, Cell Stem Cell, and Stem Cell Reports. They anchor how we measure identity and predict fate.

01 · Publications indexed
08
02 · Foundational methods
3
03 · Years of work
2014–2025

Featured · Platform foundations

The three papers the platform is built on.

03 · foundational
Paper · 01PubMed ↗

Nature · 2023

Dissecting cell identity via network inference and in silico gene perturbation

Kamimoto et al.

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Paper · 02PubMed ↗

Cell Stem Cell · 2022

Capybara: A computational tool to measure cell identity and fate transitions

Kong et al.

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Paper · 03PubMed ↗

Cell Stem Cell · 2025

Comparative single-cell lineage tracing identifies distinct adipocyte precursor dynamics in skin and inguinal fat

Rivera-Gonzalez and Butka et al.

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Method & application papers.

05 · all
Filter · Year
Filter · Journal
  1. 01

    Single-cell lineage capture across genomic modalities with CellTag-multi reveals fate-specific gene regulatory changes

    Jindal et al.

    Nature Biotechnology2024 · PubMed ↗
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  2. 02

    Gene regulatory network reconfiguration in direct lineage reprogramming

    Kamimoto et al.

    Stem Cell Reports2023 · PubMed ↗
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  3. 03

    Single-cell mapping of lineage and identity in direct reprogramming

    Biddy et al.

    Nature2018 · PubMed ↗
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  4. 04

    Dissecting engineered cell types and enhancing cell fate conversion via CellNet

    Morris, Cahan, and Li et al.

    Cell2015 · PubMed ↗
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  5. 05

    CellNet: network biology applied to stem cell engineering

    Cahan, Morris, and Li et al.

    Cell2014 · PubMed ↗
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