Evidence map›Paper›PMID 41256431›Full record

ArticlebioRxiv : the preprint server for biology2025

Learning induces persistent chromatin loops underlying robust gene expression during memory recall.

Peibo Xu, Keerthivasan Raanin Chandradoss, Bradley Lukasak, Alekh Paranjapye, Abraham J Waldman, Kenneth Pham, Han-Seul Ryu, Constin Liu, Katelyn R Titus, Rahul Sureka and 3 more

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

13 authors.

Peibo XuDepartment of Genetics, Perelman School of Medicine, University of Pennsylvania, Philadelphia, PA 19104, USA.ORCID 0000-0001-7129-0445
Keerthivasan Raanin ChandradossDepartment of Genetics, Perelman School of Medicine, University of Pennsylvania, Philadelphia, PA 19104, USA.ORCID 0000-0002-1990-0194
Bradley LukasakDepartment of Genetics, Perelman School of Medicine, University of Pennsylvania, Philadelphia, PA 19104, USA.ORCID 0000-0002-8793-7773
Alekh ParanjapyeDepartment of Genetics, Perelman School of Medicine, University of Pennsylvania, Philadelphia, PA 19104, USA.ORCID 0000-0002-4069-1761
Abraham J WaldmanDepartment of Genetics, Perelman School of Medicine, University of Pennsylvania, Philadelphia, PA 19104, USA.ORCID 0000-0002-8896-0182
Kenneth PhamDepartment of Genetics, Perelman School of Medicine, University of Pennsylvania, Philadelphia, PA 19104, USA.ORCID 0000-0002-3352-9870
Han-Seul RyuDepartment of Genetics, Perelman School of Medicine, University of Pennsylvania, Philadelphia, PA 19104, USA.ORCID 0000-0001-9938-4902
Constin LiuDepartment of Genetics, Perelman School of Medicine, University of Pennsylvania, Philadelphia, PA 19104, USA.ORCID 0009-0006-1002-9714
Katelyn R TitusDepartment of Genetics, Perelman School of Medicine, University of Pennsylvania, Philadelphia, PA 19104, USA.ORCID 0000-0002-8594-729X
Rahul SurekaDepartment of Genetics, Perelman School of Medicine, University of Pennsylvania, Philadelphia, PA 19104, USA.ORCID 0000-0002-6743-5266
Jason ShepherdDepartment of Neurobiology, Spencer Fox Eccles School of Medicine, University of Utah, Salt Lake City, UT 84112, USA.ORCID 0000-0001-7384-8289
Erica KorbDepartment of Genetics, Perelman School of Medicine, University of Pennsylvania, Philadelphia, PA 19104, USA.ORCID 0000-0002-7064-8123
Jennifer E Phillips-CreminsDepartment of Genetics, Perelman School of Medicine, University of Pennsylvania, Philadelphia, PA 19104, USA.ORCID 0000-0002-4702-0450

Funding

From 3D genomes to neural connectomes: Higher-order chromatin mechanisms encoding long-term memoryDP1MH129957 · NIMH · WASHINGTON UNIVERSITY · PI PHILLIPS-CREMINS, JENNIFER ELIZABETH · 2021 to 2025
$5.7M
Engineering and Imaging 3D genome structure-function dynamics across time scalesU01DK127405 · NIDDK · UNIVERSITY OF PENNSYLVANIA · PI BLOBEL, GERD A, PHILLIPS-CREMINS, JENNIFER ELIZABETH · 2020 to 2024
$5.7M
Single-cell dissection of chromatin architecture mechanisms connecting pathologic instability and transcriptional silencingU01DA052715 · NIDA · UNIVERSITY OF PENNSYLVANIA · PI JAIN, RAJAN, JOYCE, ERIC F. · 2020 to 2024
$3.1M
Connecting 3D genome misfolding to transcriptional silencing in fragile X syndromeR01MH120269 · NIMH · UNIVERSITY OF PENNSYLVANIA · PI PHILLIPS-CREMINS, JENNIFER ELIZABETH · 2019 to 2024
$3.1M
Elucidating the 3-D epigenetic determinants of activity-dependent gene expression in mammalian neuronsR01NS114226 · NINDS · UNIVERSITY OF PENNSYLVANIA · PI PHILLIPS-CREMINS, JENNIFER ELIZABETH, SHEPHERD, JASON D · 2020 to 2024
$2.3M
Linking epigenetics to electrophysiology using high-throughput microelectrode array-based hardware with simultaneous optogenetic activationS10OD032363 · OD · UNIVERSITY OF PENNSYLVANIA · PI PHILLIPS-CREMINS, JENNIFER ELIZABETH · 2023 to 2023
$259k
Elucidating the spatially coordinated mechanisms of transcriptional silencing in fragile X syndromeF30HD114405 · NICHD · UNIVERSITY OF PENNSYLVANIA · PI Kenneth Pham · 2024 to 2026
$147k
NICHD NIH HHS F30 HD114405NIDA NIH HHS U01 DA052715NIDDK NIH HHS U01 DK127405NIH HHS S10 OD032363NIMH NIH HHS DP1 MH129957NIMH NIH HHS R01 MH120269NINDS NIH HHS R01 NS114226
6 · The paper itself

Abstract

Long-term memories are stored in neuronal ensembles called engrams, but the existence of persistent molecular traces in nuclei of engram neurons remain unknown. Using activity-dependent nuclear tagging

Identifiers

PMID41256431
PMCPMC12621875

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.