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The IBEX knowledge-base a community resource enabling adoption and development of immunofluorescence imaging methods.

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Affiliations

  • 1. Bioinformatics and Computational Bioscience Branch, National Institute of Allergy and Infectious Diseases, National Institutes of Health, Bethesda, United States.
      Authors
    • Yaniv Z 1
    (1 author)
  • 2. Critical Care Medicine and Pulmonary Branch, National Heart, Lung and Blood Institute, National Institutes of Health, Bethesda, United States.
      Authors
    • Anidi IU 2
    • Lunich A 2
    • Williams M 2
    (3 authors)
  • 3. Lymphocyte Biology Section, Laboratory of Immune System Biology, NIAID, NIH, Bethesda, United States.
      Authors
    • Arakkal L 3
    • Arroyo-Mejías AJ 3
    • Beuschel RT 3
    • Clark BH 3
    • Hor JL 3
    • Ichise H 3
    • Jing Z 3
    • Kandov E 3
    • Lamborn IT 3
    • Padhan K 3
    • Schrom EC 3
    • Shang W 3
    • Shih RM 3
    • Verse TZ 3
    • Wade-Vallance AK 3
    • Germain RN 3
    • Radtke AJ 3
    (17 authors)
  • 4. Department of Intelligent Systems Engineering, Indiana University, Bloomington, United States.
      Authors
    • Börner K 4
    (1 author)
  • 5. UCL Institute of Ophthalmology and NIHR Moorfields Biomedical Research Centre, London, United Kingdom.
      Authors
    • Chu CJ 5
    • Kothurkar A 5
    • MacDonald RB 5
    (3 authors)
    • Show all (30)

ORCIDs linked to this article

Show all (26)

Elife, 23 Jan 2026, 14:RP105737
https://doi.org/10.7554/elife.105737 PMID: 41575186 

Abstract 

The iterative bleaching extends multiplexity (IBEX) Knowledge-Base is a central portal for researchers adopting IBEX and related 2D and 3D immunofluorescence imaging methods. The design of the Knowledge-Base is modeled after efforts in the open-source software community and includes three facets: a development platform (GitHub), static website, and service for data archiving. The Knowledge-Base facilitates the practice of open science throughout the research life cycle by providing validation data for recommended and non-recommended reagents, such as primary and secondary antibodies. In addition to reporting negative data, the Knowledge-Base empowers method adoption and evolution by providing a venue for sharing protocols, videos, datasets, software, and publications. A dedicated discussion forum fosters a sense of community among researchers while addressing questions not covered in published manuscripts. Together, scientists from around the world are advancing scientific discovery at a faster pace, reducing wasted time and effort, and instilling greater confidence in the resulting data.

Full text links 

Read article at publisher's site: https://doi.org/10.7554/elife.105737

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    Funding 

    Funders who supported this work.

    Biotechnology and Biological Sciences Research Council (1)

    • Grant ID: BB/S010386/1

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    CIHR (1)

    • Grant ID: 170793

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    CNPq, FAPEMIG, FAPESP (1)

    • Grant ID: #2021/00408-6

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    Damon Runyon Cancer Research Foundation (1)

    • Grant ID: DRG 2409-20

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    European Research Council (2)

    • Grant ID: 819329-STEP2

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    • Grant ID: 771883

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    NIH HHS (9)

    • Grant ID: 75N93019C00070

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    • Grant ID: HHSN316201300006W/75N93022F00001

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    • Grant ID: K99/R00 4R00GM147841-02

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    • Grant ID: OT2OD033756

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    • Grant ID: R01AR077019

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    • Grant ID: U2CDK114886

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    • Grant ID: R01AI134713

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    • Grant ID: U24DK135157

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    • Grant ID: U24CA268108

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    NIHR Blood and Transplant Research Unit in Organ Donation and Transplantation (1)

    • Grant ID: NIHR203332

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    NIHR Cambridge Biomedical Research Centre (1)

    • Grant ID: NIHR203312

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    National Council of Humanities, Science and Technology (Conahcyt) (2)

    • Grant ID: B210344

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    • Grant ID: CVU: 10008

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    National Polytechnic Institute (IPN) of Mexico (1)

    • Grant ID: DRI/DII/0445/2024

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    São Paulo Research Foundation (1)

    • Grant ID: FAPESP fellowship 2023/01697-7

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    Wellcome Trust (3)

    • Grant ID: 10.35802/224586

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    • Grant ID: 222096/Z/20/Z

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    • Grant ID: 10.35802/220268

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