Evidence map›Paper›PMID 35880860›Full record

ArticleeLife2022

A scalable and modular automated pipeline for stitching of large electron microscopy datasets.

Gayathri Mahalingam, Russel Torres, Daniel Kapner, Eric T Trautman, Tim Fliss, Shamishtaa Seshamani, Eric Perlman, Rob Young, Samuel Kinn, JoAnn Buchanan and 12 more

Open access · goldAbstract read
In one paragraph

Article in eLife, 2022. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 17 papers.

0numbers the graph read from it
0cells of the map it votes in
17citing papers in PubMed
16.1field-weighted citation impact, top 1% 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

17 citing papers in PubMed, 62 citations in OpenAlex.

  1. Article
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  6. Hebb's Vision: The Structural Underpinnings of Hebbian Assemblies.bioRxiv : the preprint server for biology · 2025
    Article
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  12. Review
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  16. Article
  17. Frontiers in neuroscience · 2023
    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

22 authors at 4 institutions in 2 countries.

Gayathri Mahalingam *Allen Institute for Brain Science, Seattle, United States.ORCID 0000-0003-3718-5013
Russel Torres *Allen Institute for Brain Science, Seattle, United States.ORCID 0000-0002-2876-4382
Daniel KapnerAllen Institute for Brain Science, Seattle, United States.
Eric T TrautmanHHMI Janelia Research Campus, Ashburn, United States.ORCID 0000-0001-8588-0569
Tim FlissAllen Institute for Brain Science, Seattle, United States.
Shamishtaa SeshamaniAllen Institute for Brain Science, Seattle, United States.
Eric PerlmanYikes LLC, Baltimore, United States.ORCID 0000-0001-5542-1302
Rob YoungAllen Institute for Brain Science, Seattle, United States.
Samuel KinnAllen Institute for Brain Science, Seattle, United States.
JoAnn BuchananAllen Institute for Brain Science, Seattle, United States.
Marc M TakenoAllen Institute for Brain Science, Seattle, United States.ORCID 0000-0002-8384-7500
Wenjing YinAllen Institute for Brain Science, Seattle, United States.
Daniel J BumbargerAllen Institute for Brain Science, Seattle, United States.
Ryder P GwinnEpilepsy Surgery and Functional Neurosurgery, Swedish Neuroscience Institute, Seattle, United States.
Julie NyhusAllen Institute for Brain Science, Seattle, United States.
Ed LeinAllen Institute for Brain Science, Seattle, United States.
Steven J SmithAllen Institute for Brain Science, Seattle, United States.ORCID 0000-0002-2290-8701
R Clay ReidAllen Institute for Brain Science, Seattle, United States.ORCID 0000-0002-8697-6797
Khaled A KhairySt. Jude Children's Research Hospital, Memphis, United States.ORCID 0000-0002-9274-5928
Stephan SaalfeldHHMI Janelia Research Campus, Ashburn, United States.ORCID 0000-0002-4106-1761
Forrest CollmanAllen Institute for Brain Science, Seattle, United States.ORCID 0000-0002-0280-7022
Nuno Macarico da CostaAllen Institute for Brain Science, Seattle, United States.ORCID 0000-0003-2001-4568
Allen Institute for Brain Science · USJanelia Research Campus · USNeuroscience Institute · ITSt. Jude Children's Research Hospital · US

Funding

No grant is acknowledged in the PubMed record.

6 · The paper itself

Abstract

Serial-section electron microscopy (ssEM) is the method of choice for studying macroscopic biological samples at extremely high resolution in three dimensions. In the nervous system, nanometer-scale images are necessary to reconstruct dense neural wiring diagrams in the brain, so -called

Indexed as

AlgorithmsDrosophila melanogasterAnimalsBrainHumansImage Processing, Computer-AssistedMiceMicroscopy, ElectronSoftwarecell biologyconnectomicshumanimage alignmentimage processingimage stitchinglarge-scale microscopymouseneuroscience

Identifiers

PMID35880860
PMCPMC9427110
OpenAlexW4288010040

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.