Evidence map›Paper›PMID 39911954›Full record

ArticleFree neuropathology2025

Preservation of cellular structure via immersion fixation in brain banking.

Macy Garrood, Emma L Thorn, Adam Goldstein, Allison Sowa, William Janssen, Alyssa Wilson, Claudia S López, Raakhee Shankar, Erin S Stempinski, Kurt Farrell and 2 more

Abstract read
In one paragraph

Article in Free neuropathology, 2025. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 3 papers.

0numbers the graph read from it
0cells of the map it votes in
3citing 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

3 citing papers in PubMed.

  1. Article
  2. Article
  3. 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

12 authors.

Macy GarroodApex Neuroscience, Salem, Oregon, USA.
Emma L ThornFriedman Brain Institute, Departments of Pathology, Neuroscience, and Artificial Intelligence & Human Health, Icahn School of Medicine at Mount Sinai, New York, New York, USA.
Adam GoldsteinFriedman Brain Institute, Departments of Pathology, Neuroscience, and Artificial Intelligence & Human Health, Icahn School of Medicine at Mount Sinai, New York, New York, USA.
Allison SowaMicroscopy and Advanced Bioimaging Core, Icahn School of Medicine at Mount Sinai, New York, New York, USA.
William JanssenMicroscopy and Advanced Bioimaging Core, Icahn School of Medicine at Mount Sinai, New York, New York, USA.
Alyssa WilsonDepartments of Neurology and Psychiatry, Icahn School of Medicine at Mount Sinai, New York, New York, USA.
Claudia S LópezMultiscale Microscopy Core, Oregon Health and Science University, Portland, Oregon, USA.
Raakhee ShankarMultiscale Microscopy Core, Oregon Health and Science University, Portland, Oregon, USA.
Erin S StempinskiMultiscale Microscopy Core, Oregon Health and Science University, Portland, Oregon, USA.
Kurt FarrellFriedman Brain Institute, Departments of Pathology, Neuroscience, and Artificial Intelligence & Human Health, Icahn School of Medicine at Mount Sinai, New York, New York, USA.
John F CraryFriedman Brain Institute, Departments of Pathology, Neuroscience, and Artificial Intelligence & Human Health, Icahn School of Medicine at Mount Sinai, New York, New York, USA.
Andrew T McKenzieApex Neuroscience, Salem, Oregon, USA.

Funding

Cell type atlasing of whole human brains using HOLiS: an optimized pipeline for staining, clearing, imaging, and analysisRF1MH128969 · NIMH · COLUMBIA UNIVERSITY HEALTH SCIENCES · PI HILLMAN, ELIZABETH M. C., OSTEN, PAVEL · 2021 to 2021
$9.1M
Novel artificial intelligence-based approaches to understand the pathological and genetic drivers of primary tauopathiesK01AG070326 · NIA · ICAHN SCHOOL OF MEDICINE AT MOUNT SINAI · PI FARRELL, KURT WILLIAM · 2022 to 2025
$503k
NIA NIH HHS K01 AG070326NIMH NIH HHS RF1 MH128969
6 · The paper itself

Abstract

Immersing the brain in a solution containing formaldehyde is a commonly used method for preserving the structure of human brain tissue in brain banking. However, there are questions about the quality of preservation using this method, as formaldehyde takes a relatively long period of time to penetrate a large organ such as the human brain. As a result, there is a critical need to determine whether immersion fixation is an adequate initial preservation method. To address this, we present exploratory histologic findings from our brain bank following the immersion fixation of hemi-sectioned brain specimens under refrigeration. Using light microscopy, we found that there was no significant change in the size of pericellular or perivascular rarefaction areas based on the postmortem interval (PMI) or on the progression from the outer (frontal cortex) to the inner (striatum) brain regions. Additionally, we did not identify any significant number of ghost cells - a state of late-stage cellular necrosis - in the light micrographs analyzed. Using transmission electron microscopy of tissue from the frontal cortex, we found that synapses could still be visualized, but there was vacuolization and variable degrees of myelin disbanding identified. Using serial section transmission electron microscopy, we found that identified synapses could be traced from one section to the next. Using serial block face scanning electron microscopy, we also found that myelinated axons on 2D images can be traced with high fidelity from one image to the next, even at PMIs of up to 27 hours. Collectively, our data corroborate previous findings that immersion fixation is effective for prevention of cellular necrosis and for visualizing many ultrastructural features in at least the surface areas of the brain. However, how structural preservation quality should best be assessed in brain banking is an open question that depends on the intended research applications.

Indexed as

Brain bankingHistology qualityImmersion fixationMyelinPostmortem intervalSynapseVacuolizationVolume electron microscopy

Identifiers

PMID39911954
PMCPMC11795511

What OpenQuestion holds

Textmetadata
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.