Evidence map›Paper›PMID 41144676›Full record

ArticleProceedings of the National Academy of Sciences of the United States of America2025

Optimizing multifunctional fluorescent ligands for intracellular labeling.

Pratik Kumar, Jason D Vevea, Ariana N Tkachuk, Kirby R Campbell, Emma T Watson, Anthony X Ayala, Jonathan B Grimm, Edwin R Chapman, David J Solecki, Luke D Lavis

Abstract read
In one paragraph

Article in Proceedings of the National Academy of Sciences of the United States of America, 2025. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 1 paper.

0numbers the graph read from it
0cells of the map it votes in
1citing papers in PubMed
–field-weighted citation impact
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

1 citing paper in PubMed.

  1. Article
4 · The record

Corrections and comments

PubMed lists nothing against this paper. Absence here is not a guarantee, only a check that was made.

5 · Who and what money

Authors and funding

10 authors.

Pratik KumarJanelia Research Campus, HHMI, Ashburn, VA 20147.ORCID 0000-0002-9516-0212
Jason D VeveaNeuronal Cell Biology Division, Department of Developmental Neurobiology, St. Jude Children's Research Hospital, Memphis, TN 38104.
Ariana N TkachukJanelia Research Campus, HHMI, Ashburn, VA 20147.ORCID 0000-0001-8991-9643
Kirby R CampbellNeuronal Cell Biology Division, Department of Developmental Neurobiology, St. Jude Children's Research Hospital, Memphis, TN 38104.
Emma T WatsonDepartment of Neuroscience, University of Wisconsin-Madison, Madison, WI 53705.ORCID 0000-0002-5336-8170
Anthony X AyalaJanelia Research Campus, HHMI, Ashburn, VA 20147.
Jonathan B GrimmJanelia Research Campus, HHMI, Ashburn, VA 20147.ORCID 0000-0003-0331-4200
Edwin R ChapmanDepartment of Neuroscience, University of Wisconsin-Madison, Madison, WI 53705.ORCID 0000-0001-9787-8140
David J SoleckiNeuronal Cell Biology Division, Department of Developmental Neurobiology, St. Jude Children's Research Hospital, Memphis, TN 38104.
Luke D LavisJanelia Research Campus, HHMI, Ashburn, VA 20147.ORCID 0000-0002-0789-6343

Funding

Synaptotagmin C2B Domain as a Ca2+ Sensing ModuleR01MH061876 · NIMH · UNIVERSITY OF WISCONSIN-MADISON · PI Edwin R Chapman · 2002 to 2026
$7.7M
Structure and dynamics of exocytotic fusion poresR35NS097362 · NINDS · UNIVERSITY OF WISCONSIN-MADISON · PI CHAPMAN, EDWIN R · 2017 to 2024
$4.6M
Polarity Signals Coordinate Neuronal Migration and Germinal Zone ExitR01NS066936 · NINDS · ST. JUDE CHILDREN'S RESEARCH HOSPITAL · PI SOLECKI, DAVID JOSEPH · 2011 to 2021
$3.9M
Siah2: an E3 ligase organizes polarity and cytoskeletal links in neuron migrationR01NS104029 · NINDS · ST. JUDE CHILDREN'S RESEARCH HOSPITAL · PI SOLECKI, DAVID JOSEPH · 2018 to 2022
$2.0M
Polarity Signals Coordinate Neuronal Differentiation & Nuclear OrganizationR01NS139519 · NINDS · ST. JUDE CHILDREN'S RESEARCH HOSPITAL · PI David Joseph Solecki · 2025 to 2026
$1.4M
Fusion pore structure and dynamicsR35NS136306 · NINDS · UNIVERSITY OF WISCONSIN-MADISON · PI Edwin R Chapman · 2025 to 2026
$1.3M
Mechanisms regulating mitochondrial polarity in neurons: regional distribution and specializationF32NS098604 · NINDS · UNIVERSITY OF WISCONSIN-MADISON · PI VEVEA, JASON DANIEL · 2017 to 2019
$179k
American Lebanese Syrian Associated Charities (ALSAC) n/aHHS | NIH | National Institute of Mental Health (NIMH) MH061876HHS | NIH | National Institute of Neurological Disorders and Stroke (NINDS) 1R01NS066936 R01NS104029 and R01NS139519HHS | NIH | National Institute of Neurological Disorders and Stroke (NINDS) NS097362HHS | NIH | National Institute of Neurological Disorders and Stroke (NINDS) NS098604Howard Hughes Medical Institute (HHMI) n/aNIMH NIH HHS R01 MH061876NINDS NIH HHS F32 NS098604NINDS NIH HHS R01 NS066936NINDS NIH HHS R01 NS104029NINDS NIH HHS R01 NS139519NINDS NIH HHS R35 NS097362NINDS NIH HHS R35 NS136306
6 · The paper itself

Abstract

Enzyme-based self-labeling tags enable the covalent attachment of synthetic molecules to proteins inside living cells. A frontier of this field is designing cell-permeable multifunctional ligands that contain fluorophores in combination with affinity tags or pharmacological agents. This is challenging since attachment of additional chemical moieties onto fluorescent ligands can adversely affect membrane permeability. To address this problem, we examined the chemical properties of rhodamine-based self-labeling tag ligands through the lens of medicinal chemistry. We found that the lactone-zwitterion equilibrium constant (

Indexed as

Fluorescent DyesRhodaminesStaining and LabelingBromodomain Containing ProteinsCell Cycle ProteinsHumansLigandsMitochondriaNuclear ProteinsTranscription FactorsBRD4 protein, humanBromodomain Containing ProteinsCell Cycle ProteinsFluorescent DyesLigandsNuclear ProteinsRhodaminesTranscription Factorschemical biologychemistryfluorescenceHaloTagprotein purification

Identifiers

PMID41144676
PMCPMC12595484

What OpenQuestion holds

Textmetadata
LicenceCC BY
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.