Evidence map›Paper›PMID 40291650›Full record

ArticlebioRxiv : the preprint server for biology2025

Transcription factor hubs exhibit gene-specific properties that tune expression.

Samantha Fallacaro, Apratim Mukherjee, Meghan A Turner, Hernan G Garcia, Mustafa Mir

Abstract readPreprint
In one paragraph

Article in bioRxiv : the preprint server for biology, 2025. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Not yet cited in PubMed.

0numbers the graph read from it
0cells of the map it votes in
0citing 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

0 citing papers in PubMed.

No citing paper in PubMed yet.

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

5 authors.

Samantha FallacaroDepartment of Cell and Developmental Biology, Perelman School of Medicine, University of Pennsylvania; Philadelphia, PA 19104, USA.ORCID 0000-0001-7749-0034
Apratim MukherjeeDevelopmental, Stem Cell, and Regenerative Biology Graduate Group, Perelman School of Medicine; Philadelphia, PA 19104, USA.ORCID 0000-0002-1762-3277
Meghan A TurnerBiophysics Graduate Group, University of California at Berkeley, Berkeley, USA.ORCID 0000-0003-2451-5036
Hernan G GarciaBiophysics Graduate Group, University of California at Berkeley, Berkeley, USA.ORCID 0000-0002-5212-3649
Mustafa MirDepartment of Cell and Developmental Biology, Perelman School of Medicine, University of Pennsylvania; Philadelphia, PA 19104, USA.ORCID 0000-0001-8280-2821

Funding

Quantifying the dynamics of gene regulation and nuclear organization during embryogenesisDP2HD108775 · NICHD · CHILDREN'S HOSP OF PHILADELPHIA · PI MIR, MUSTAFA AIZED HASAN · 2021 to 2024
$2.6M
Predictive understanding of the temporal control of transcription in Drosophila developmentR01GM139913 · NIGMS · UNIVERSITY OF CALIFORNIA BERKELEY · PI GARCIA, HERNAN GUSTAVO · 2021 to 2024
$1.2M
In vivo mechanisms of Dorsal-mediated transcriptional control in developmentR01GM152815 · NIGMS · UNIVERSITY OF CALIFORNIA BERKELEY · PI GARCIA, HERNAN GUSTAVO · 2024 to 2024
$306k
NICHD NIH HHS DP2 HD108775NIGMS NIH HHS R01 GM139913NIGMS NIH HHS R01 GM152815
6 · The paper itself

Abstract

The spatial and temporal control of gene expression relies on transcription factors binding to and occupying their target sites. Transcription factor hubs-localized, high-concentration microenvironments-promote transcription by facilitating binding and recruitment of transcriptional machinery and co-factors. Hubs are often thought to have emergent nucleus-wide properties depending on transcription factor nuclear concentrations and intrinsic, protein sequence-dependent properties. This global model does not account for gene-specific hub regulation. Using high-resolution lattice light-sheet microscopy in

Identifiers

PMID40291650
PMCPMC12026892

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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.