Evidence map›Paper›PMID 38335954›Full record

ArticleCell systems2024

Simple visualization of submicroscopic protein clusters with a phase-separation-based fluorescent reporter.

Thomas R Mumford, Diarmid Rae, Emily Brackhahn, Abbas Idris, David Gonzalez-Martinez, Ayush Aditya Pal, Michael C Chung, Juan Guan, Elizabeth Rhoades, Lukasz J Bugaj

Erratum issuedOpen access · greenAbstract read
In one paragraph

Article in Cell systems, 2024. The graph could read no effect estimate from its abstract, so it casts no vote on the map. An erratum has been issued. Cited by 14 papers.

0numbers the graph read from it
0cells of the map it votes in
14citing papers in PubMed
3.7field-weighted citation impact, top 6% of its field
1 · What the graph read from it

What it found

Each row is one number read from the abstract, on the scale the paper reported it, with its interval. Left of the dashed line favours the treatment, right favours the comparator. Under each row is the sentence it came from. New to these charts? A ten-minute tutorial.

The abstract states no effect estimate the extractor could read, or names no intervention and outcome on the map, so this paper lights no cell and moves no belief. It is still indexed, cited and linked below.

2 · The registry

The trial behind it

Trials whose registry record cites this paper, or whose number appears in the abstract. A trial that started after this paper was published is citing it as background, not reporting it.

Neither the registry nor the abstract names a trial number. If this is a trial report, that itself is worth knowing.

3 · Its place in the literature

Who cites it

14 citing papers in PubMed, 16 citations in OpenAlex.

  1. Review
  2. Distinguishing near- versus off-critical phase behaviors of intrinsically disordered proteins.Reports on progress in physics. Physical Society (Great Britain) · 2026
    Article
  3. Article
  4. Article
  5. Article
  6. Article
  7. Article
  8. Article
  9. Review
  10. Article
  11. Article
  12. Article
  13. Article
  14. Article
4 · The record

Corrections and comments

5 · Who and what money

Authors and funding

10 authors at 3 institutions in 1 country.

Thomas R MumfordDepartment of Bioengineering, University of Pennsylvania, Philadelphia, PA 19104, USA.
Diarmid RaeDepartment of Bioengineering, University of Pennsylvania, Philadelphia, PA 19104, USA.
Emily BrackhahnDepartment of Chemistry, University of Pennsylvania, Philadelphia, PA 19104, USA.
Abbas IdrisDepartment of Bioengineering, University of Pennsylvania, Philadelphia, PA 19104, USA.
David Gonzalez-MartinezDepartment of Bioengineering, University of Pennsylvania, Philadelphia, PA 19104, USA.
Ayush Aditya PalDepartment of Bioengineering, University of Pennsylvania, Philadelphia, PA 19104, USA.
Michael C ChungDepartment of Physics, University of Florida, Gainesville, FL 32611, USA.
Juan GuanDepartment of Physics, University of Florida, Gainesville, FL 32611, USA; Department of Anatomy and Cell Biology, University of Florida, Gainesville, FL 32611, USA.
Elizabeth RhoadesDepartment of Chemistry, University of Pennsylvania, Philadelphia, PA 19104, USA; Biochemistry and Molecular Biophysics Graduate Group, Perelman School of Medicine, University of Pennsylvania, Philadelphia, PA 19104, USA.
Lukasz J BugajDepartment of Bioengineering, University of Pennsylvania, Philadelphia, PA 19104, USA; Abramson Cancer Center, University of Pennsylvania, Philadelphia, PA 19104, USA; Institute of Regenerative Medicine, University of Pennsylvania, Philadelphia, PA 19104, USA. Electronic address: bugaj@seas.upenn.edu.
University of Pennsylvania · USUniversity of Florida · USCalifornia Institute for Regenerative Medicine · US

Funding

Harnessing protein clustering to understand, identify, and manipulate cellular systemsR35GM138211 · NIGMS · UNIVERSITY OF PENNSYLVANIA · PI Lukasz Bugaj · 2020 to 2026
$3.3M
Structural basis and physiological consequences of alpha-Synuclein binding to neurexin 1betaR01NS120625 · NINDS · UNIVERSITY OF PENNSYLVANIA · PI RHOADES, ELIZABETH · 2021 to 2025
$2.9M
Mechanisms of Assembly and Functional Regulation in Non-canonical Biomolecular CondensatesR35GM146877 · NIGMS · UNIVERSITY OF TEXAS AT AUSTIN · PI Juan Guan · 2022 to 2026
$2.0M
Acquisition of a Cell Sorter for Systems Biology and Cellular EngineeringS10OD026986 · OD · UNIVERSITY OF PENNSYLVANIA · PI BUGAJ, LUKASZ · 2020 to 2020
$439k
NIGMS NIH HHS R35 GM138211NIGMS NIH HHS R35 GM146877NIH HHS S10 OD026986NINDS NIH HHS R01 NS120625
6 · The paper itself

Abstract

Protein clustering plays numerous roles in cell physiology and disease. However, protein oligomers can be difficult to detect because they are often too small to appear as puncta in conventional fluorescence microscopy. Here, we describe a fluorescent reporter strategy that detects protein clusters with high sensitivity called CluMPS (clusters magnified by phase separation). A CluMPS reporter detects and visually amplifies even small clusters of a binding partner, generating large, quantifiable fluorescence condensates. We use computational modeling and optogenetic clustering to demonstrate that CluMPS can detect small oligomers and behaves rationally according to key system parameters. CluMPS detected small aggregates of pathological proteins where the corresponding GFP fusions appeared diffuse. CluMPS also detected and tracked clusters of unmodified and tagged endogenous proteins, and orthogonal CluMPS probes could be multiplexed in cells. CluMPS provides a powerful yet straightforward approach to observe higher-order protein assembly in its native cellular context. A record of this paper's transparent peer review process is included in the supplemental information.

Indexed as

Cell Physiological PhenomenaProteinsMicroscopy, FluorescenceProteinsclusterscondensatesfluorescentoligomersoptogeneticsphase-separationpunctareportersensorstochastic modeling

Identifiers

PMID38335954
PMCPMC10947474
OpenAlexW4391636429

What OpenQuestion holds

Textmetadata
LicenceTDM
Read underepoch 390

Registered trials

None linked

Read under generation 80e0d062 · epoch 390. Bibliography from PubMed, PubMed Central and OpenAlex; grants from NIH RePORTER; trial links from ClinicalTrials.gov; estimates, votes and beliefs from the OpenQuestion graph.