Evidence map›Paper›PMID 40510133›Full record

ArticleiScience2025

Global analysis of excitotoxicity-induced alterations in RNA structure and RNA-protein binding in neurons.

Elena Alvarez-Periel, Marianne C Kramer, Cagla Akay-Espinoza, Daniel P Jackson, Julia A Tasca, Benjamin A Garcia, Brian D Gregory, Kelly L Jordan-Sciutto

Abstract read
In one paragraph

Article in iScience, 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. Review
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

8 authors.

Elena Alvarez-PerielDepartment of Oral Medicine, School of Dental Medicine, University of Pennsylvania, Philadelphia, PA 19104, USA.
Marianne C KramerDepartment of Biology, University of Pennsylvania, Philadelphia, PA 19104, USA.
Cagla Akay-EspinozaDepartment of Oral Medicine, School of Dental Medicine, University of Pennsylvania, Philadelphia, PA 19104, USA.
Daniel P JacksonDepartment of Oral Medicine, School of Dental Medicine, University of Pennsylvania, Philadelphia, PA 19104, USA.
Julia A TascaEpigenetics Institute, Department of Biochemistry and Biophysics, The Perelman School of Medicine, University of Pennsylvania, Philadelphia, PA 19104, USA.
Benjamin A GarciaEpigenetics Institute, Department of Biochemistry and Biophysics, The Perelman School of Medicine, University of Pennsylvania, Philadelphia, PA 19104, USA.
Brian D GregoryDepartment of Biology, University of Pennsylvania, Philadelphia, PA 19104, USA.
Kelly L Jordan-SciuttoDepartment of Oral Medicine, School of Dental Medicine, University of Pennsylvania, Philadelphia, PA 19104, USA.

Funding

Penn Mental Health AIDS Research CenterP30MH097488 · NIMH · UNIVERSITY OF PENNSYLVANIA · PI Karine Dube, Kelly L Jordan-Sciutto · 2013 to 2026
$23.5M
NIMH NIH HHS P30 MH097488
6 · The paper itself

Abstract

Excitotoxicity and altered RNA regulation by RNA-binding proteins (RBPs) are two prevalent hallmarks in multiple neurodegenerative disorders. However, global effects of excitotoxicity on RNA secondary structure and RNA-protein interactions are largely unknown. To address this, we have performed protein interaction profile sequencing (PIP-seq) in NMDA-treated primary neurons. Our results show that NMDA treatment alters RNA structure, which correlates, in opposite directions depending on the intragenic region, with changes in mRNA abundance. Moreover, NMDA treatment increases and alters RNA-protein binding sites defining subsets of transcripts functionally associated with synaptic functions and neurodegenerative disorders. Finally, we identify two RNA motifs enriched in protein binding after NMDA treatment, and several RBPs binding to them

Indexed as

Molecular biologyNeuroscience

Identifiers

PMID40510133
PMCPMC12159502

What OpenQuestion holds

Textmetadata
LicenceCC BY-NC-ND
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.