Evidence map›Paper›PMID 39071434›Full record

ArticlebioRxiv : the preprint server for biology2025

A SMARTTR workflow for multi-ensemble atlas mapping and brain-wide network analysis.

Michelle Jin, Simon O Ogundare, Marcos Lanio, Sophia Sorid, Alicia R Whye, Sofia Leal Santos, Alessandra Franceschini, Christine A Denny

Abstract readPreprint
PubMed Full text at PMC Publisher
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

5 · Who and what money

Authors and funding

8 authors.

Michelle JinMedical Scientist Training Program (MSTP), Columbia University Irving Medical Center (CUIMC), New York, NY, 10032, USA.ORCID 0000-0002-8696-1958
Simon O OgundareMedical Scientist Training Program (MSTP), Columbia University Irving Medical Center (CUIMC), New York, NY, 10032, USA.ORCID 0000-0002-6243-2779
Marcos LanioMedical Scientist Training Program (MSTP), Columbia University Irving Medical Center (CUIMC), New York, NY, 10032, USA.ORCID 0000-0003-3000-1592
Sophia SoridColumbia College, New York, NY, 10027, USA.ORCID 0009-0008-7926-1225
Alicia R WhyeColumbia College, New York, NY, 10027, USA.ORCID 0009-0008-0865-8882
Sofia Leal SantosLife and Health Sciences Research Institute (ICVS), School of Medicine, University of Minho, Braga, 4710-057, Portugal.ORCID 0000-0001-5552-2517
Alessandra FranceschiniDepartment of Psychiatry, Columbia University Irving Medical Center (CUIMC), New York, NY, 10032, USA.ORCID 0000-0003-0909-8852
Christine A DennyDepartment of Psychiatry, Columbia University Irving Medical Center (CUIMC), New York, NY, 10032, USA.ORCID 0000-0002-6926-2020

Funding

MEDICAL SCIENTIST TRAINING PROGRAMT32GM007367 · NIGMS · COLUMBIA UNIV NEW YORK MORNINGSIDE · PI REINER, STEVEN L · 1985 to 2021
$25.1M
Medical Scientist Training ProgramT32GM145440 · NIGMS · COLUMBIA UNIVERSITY HEALTH SCIENCES · PI STEVEN L REINER · 2022 to 2026
$7.3M
Single-cell and target-specific resolution of multiple memories across the brainR01HD101402 · NICHD · NEW YORK STATE PSYCHIATRIC INSTITUTE DBA RESEARCH FOUNDATION FOR MENTAL HYGIENE, INC · PI DENNY, CHRISTINE ANN, RAMIREZ, STEVE · 2019 to 2023
$3.8M
Identification and manipulation of the neural ensembles mediating sundowning in an Alzheimer's disease mouse modelR21AG064774 · NIA · NEW YORK STATE PSYCHIATRIC INSTITUTE DBA RESEARCH FOUNDATION FOR MENTAL HYGIENE, INC · PI DENNY, CHRISTINE ANN · 2019 to 2020
$446k
Identification and Pharmacological Manipulation of Fear Overgeneralization Neural Ensembles following Traumatic Brain Injury (TBI)R21NS114870 · NINDS · NEW YORK STATE PSYCHIATRIC INSTITUTE DBA RESEARCH FOUNDATION FOR MENTAL HYGIENE, INC · PI DENNY, CHRISTINE ANN · 2020 to 2020
$446k
Investigating the Impacts of Pharmacological Slow Wave Sleep Enhancement on Cognition and Memory Traces in an Alzheimers Disease ModelF30AG084312 · NIA · COLUMBIA UNIVERSITY HEALTH SCIENCES · PI Michelle Jin · 2024 to 2026
$157k
NIA NIH HHS F30 AG084312NIA NIH HHS R21 AG064774NICHD NIH HHS R01 HD101402NIGMS NIH HHS T32 GM007367NIGMS NIH HHS T32 GM145440NINDS NIH HHS R21 NS114870
6 · The paper itself

Abstract

In the last decade, activity-dependent strategies for labelling multiple immediate early gene (IEG) ensembles in mice have generated unprecedented insight into the mechanisms of memory encoding, storage, and retrieval. However, few strategies exist for brain-wide mapping of multiple ensembles, including their overlapping population, and none incorporate capabilities for downstream network analysis. Here, we introduce a scalable workflow to analyze traditionally coronally-sectioned datasets produced by activity-dependent tagging systems. Intrinsic to this pipeline is

Indexed as

activity mappingArcdepressionengramimmediate early genelearned helplessnessnetwork

Identifiers

PMID39071434
PMCPMC11275872

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.