Evidence map›Paper›PMID 35884861›Full record

ArticleBiomedicines2022

Challenges and Practical Solutions to MRI and Histology Matching and Measurements Using Available ImageJ Software Tools.

Marina Y Khodanovich, Tatyana V Anan'ina, Elena P Krutenkova, Andrey E Akulov, Marina S Kudabaeva, Mikhail V Svetlik, Yana A Tumentceva, Maria M Shadrina, Anna V Naumova

Open access · goldAbstract read
PubMed Full text at PMC Publisher
In one paragraph

Article in Biomedicines, 2022. 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
0.9field-weighted citation impact, top 29% of its field
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, 7 citations in OpenAlex.

  1. Article
  2. Revealing the MRI-Contrast in Optically Cleared Brains.Advanced science (Weinheim, Baden-Wurttemberg, Germany) · 2024
    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

9 authors at 2 institutions in 2 countries.

Marina Y KhodanovichLaboratory of Neurobiology, Research Institute of Biology and Biophysics, Tomsk State University, Russia. 36, Lenina Ave., 634050 Tomsk, Russia.ORCID 0000-0003-1856-0674
Tatyana V Anan'inaLaboratory of Neurobiology, Research Institute of Biology and Biophysics, Tomsk State University, Russia. 36, Lenina Ave., 634050 Tomsk, Russia.
Elena P KrutenkovaLaboratory of Neurobiology, Research Institute of Biology and Biophysics, Tomsk State University, Russia. 36, Lenina Ave., 634050 Tomsk, Russia.
Andrey E AkulovInstitute of Cytology and Genetics, The Siberian Branch of the Russian Academy of Sciences, 10 Lavrentyeva Avenue, 630090 Novosibirsk, Russia.
Marina S KudabaevaLaboratory of Neurobiology, Research Institute of Biology and Biophysics, Tomsk State University, Russia. 36, Lenina Ave., 634050 Tomsk, Russia.
Mikhail V SvetlikLaboratory of Neurobiology, Research Institute of Biology and Biophysics, Tomsk State University, Russia. 36, Lenina Ave., 634050 Tomsk, Russia.
Yana A TumentcevaLaboratory of Neurobiology, Research Institute of Biology and Biophysics, Tomsk State University, Russia. 36, Lenina Ave., 634050 Tomsk, Russia.
Maria M ShadrinaLaboratory of Neurobiology, Research Institute of Biology and Biophysics, Tomsk State University, Russia. 36, Lenina Ave., 634050 Tomsk, Russia.
Anna V NaumovaLaboratory of Neurobiology, Research Institute of Biology and Biophysics, Tomsk State University, Russia. 36, Lenina Ave., 634050 Tomsk, Russia.ORCID 0000-0002-4021-5343
National Research Tomsk State University · RUInstitute of Cytology and Genetics · RU

Funding

Quantitative myelin mapping in vivo for clinical and pre-clinical MRIR24NS104098 · NINDS · UNIVERSITY OF WASHINGTON · PI YARNYKH, VASILY L. · 2018 to 2021
$1.1M
NINDS NIH HHS R24 NS104098
6 · The paper itself

Abstract

Traditionally histology is the gold standard for the validation of imaging experiments. Matching imaging slices and histological sections and the precise outlining of corresponding tissue structures are difficult. Challenges are based on differences in imaging and histological slice thickness as well as tissue shrinkage and alterations after processing. Here we describe step-by-step instructions that might be used as a universal pathway to overlay MRI and histological images and for a correlation of measurements between imaging modalities. The free available (Fiji is just) ImageJ software tools were used for regions of interest transformation (ROIT) and alignment using a rat brain MRI as an example. The developed ROIT procedure was compared to a manual delineation of rat brain structures. The ROIT plugin was developed for ImageJ to enable an automatization of the image processing and structural analysis of the rodent brain.

Indexed as

brainhistologyImageJimmunofluorescencemagnetic resonance imagingMRIquantificationregistration

Identifiers

PMID35884861
PMCPMC9313422
OpenAlexW4283761749

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.