Evidence map›Paper›PMID 42427676›Full record

ArticlebioRxiv : the preprint server for biology2026

A uniform tissue-clearing framework and mesoSPIM-ultra enable cm-scale single-neuron tracing.

Marko Pende, Jared M Cregg, Saiedeh Saghafi, Samuel Broadbent, Alma Avdibasic, Johannes Roeles, Sofia-Christina Papadopoulos, Ryan P Seaman, Nika Pende, Marta Solano Mateos and 25 more

Abstract readPreprint
In one paragraph

Article in bioRxiv : the preprint server for biology, 2026. 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

35 authors.

Marko PendeMDI Biological Laboratory, Bar Harbor, Maine, USA.ORCID 0000-0001-9372-390X
Jared M CreggDepartment of Neuroscience, Faculty of Health and Medical Sciences, University of Copenhagen, Copenhagen, Denmark.ORCID 0000-0002-0027-9748
Saiedeh SaghafiMeso Aspheric Optics & Light Sheet Fluorescence Microscopy, FKE, TU Wien, Vienna, Austria.ORCID 0000-0002-7598-541X
Samuel BroadbentMDI Biological Laboratory, Bar Harbor, Maine, USA.ORCID 0009-0001-5556-313X
Alma AvdibasicSection of Bioelectronics, Center for Brain Research, Medical University of Vienna, Vienna, Austria.
Johannes RoelesMDI Biological Laboratory, Bar Harbor, Maine, USA.ORCID 0009-0009-3409-2605
Sofia-Christina PapadopoulosMDI Biological Laboratory, Bar Harbor, Maine, USA.ORCID 0000-0001-9955-6807
Ryan P SeamanMDI Biological Laboratory, Bar Harbor, Maine, USA.ORCID 0009-0006-1204-4176
Nika PendeArchaea Physiology & Biotechnology Group, Department of Functional and Evolutionary Ecology, University of Vienna, Vienna, Austria.ORCID 0000-0001-6986-0090
Marta Solano MateosDivision of Cognitive Neurobiology, Center for Brain Research, Medical University of Vienna, Vienna, Austria.
Katelyn JamwalMDI Biological Laboratory, Bar Harbor, Maine, USA.
Melody WunchThe Jackson Laboratory, Bar Harbor, Maine, USA.
Pawel PasierbekInstitute of Molecular Biotechnology of the Austrian Academy of Sciences, Vienna BioCenter, Vienna, Austria.ORCID 0009-0004-1044-9466
Alberto Moreno-CencerradoResearch Institute of Molecular Pathology, Vienna BioCenter, Vienna, Austria.ORCID 0000-0002-2468-5070
Solomiia KorchynskaSection of Bioelectronics, Center for Brain Research, Medical University of Vienna, Vienna, Austria.ORCID 0000-0002-9991-3699
Romana HauerDivision of Cognitive Neurobiology, Center for Brain Research, Medical University of Vienna, Vienna, Austria.
Paul AndersonDivision of Cognitive Neurobiology, Center for Brain Research, Medical University of Vienna, Vienna, Austria.ORCID 0000-0003-2716-6556
Paul SupperDepartment of Plastic, Reconstructive and Aesthetic Surgery, Medical University of Vienna, Vienna, Austria.ORCID 0000-0001-9998-262X
Maria Eleni KastritiDivision of Neuroimmunology, Center for Brain Research, Medical University of Vienna, Vienna, Austria.ORCID 0000-0002-0563-7399
Daniel ReumannInstitute of Molecular Biotechnology of the Austrian Academy of Sciences, Vienna BioCenter, Vienna, Austria.ORCID 0000-0002-4594-8212
Michael MoorheadSyGlass Inc., Morgantown, WV, USA.
Joel H GraberMDI Biological Laboratory, Bar Harbor, Maine, USA.ORCID 0000-0001-5137-4553
Petra ScholzeDivision of Pathobiology of the Nervous System, Center for Brain Research, Medical University of Vienna, Vienna, Austria.ORCID 0000-0003-4984-6034
Julia U HenschkeLeibniz Institute for Neurobiology, Magdeburg, Germany.ORCID 0000-0002-2435-8627
Eike BudingerLeibniz Institute for Neurobiology, Magdeburg, Germany.ORCID 0000-0003-2420-8159
Jürgen A KnoblichInstitute of Molecular Biotechnology of the Austrian Academy of Sciences, Vienna BioCenter, Vienna, Austria.ORCID 0000-0002-6751-3404
Thomas KlausbergerDivision of Cognitive Neurobiology, Center for Brain Research, Medical University of Vienna, Vienna, Austria.ORCID 0000-0001-7269-3158
Igor AdameykoDivision of Neuroimmunology, Center for Brain Research, Medical University of Vienna, Vienna, Austria.ORCID 0000-0001-5471-0356
Tibor HarkanyDepartment of Molecular Neurosciences, Center for Brain Research, Medical University of Vienna, Vienna, Austria.ORCID 0000-0002-6637-5900
Vivek KumarThe Jackson Laboratory, Bar Harbor, Maine, USA.ORCID 0000-0001-6643-7465
Mary Teena JoyThe Jackson Laboratory, Bar Harbor, Maine, USA.ORCID 0000-0002-3120-2022
Ole KiehnDepartment of Neuroscience, Faculty of Health and Medical Sciences, University of Copenhagen, Copenhagen, Denmark.ORCID 0000-0002-5954-469X
Hans-Ulrich DodtSection of Bioelectronics, Center for Brain Research, Medical University of Vienna, Vienna, Austria.ORCID 0000-0002-9784-9689
Fabian F VoigtMDI Biological Laboratory, Bar Harbor, Maine, USA.ORCID 0000-0002-7108-2176
Prayag MurawalaMDI Biological Laboratory, Bar Harbor, Maine, USA.ORCID 0000-0002-0607-1059

Funding

Understanding the role of thyroid hormone signaling during axolotl limb regenerationP20GM104318 · NIGMS · MOUNT DESERT ISLAND BIOLOGICAL LAB · PI DRUMMOND, IAIN A. · 2013 to 2023
$23.0M
The MDIBL Center for Comparative Biology of Tissue Repair, Regeneration and AgingP30GM154610 · NIGMS · MOUNT DESERT ISLAND BIOLOGICAL LAB · PI IAIN A. DRUMMOND · 2024 to 2026
$5.0M
Molecular Mechanisms of Limb and Tail Regeneration in AxolotlR35GM161492 · NIGMS · MOUNT DESERT ISLAND BIOLOGICAL LAB · PI Prayag Murawala · 2026 to 2026
$423k
NIGMS NIH HHS P20 GM104318NIGMS NIH HHS P30 GM154610NIGMS NIH HHS R35 GM161492
6 · The paper itself

Abstract

Tissue-clearing and light-sheet microscopy have transformed volumetric imaging of intact organs, yet limited mechanistic understanding of dehydration-based clearing continues to constrain rational protocol design and broader applicability. Here, we define the cardinal chemical and physical principles underlying dehydration-based tissue-clearing and establish a new pipeline for large-volume imaging. To maximize imaging performance, we developed the "mesoSPIM-ultra", an upgraded mesoSPIM platform with a temperature-controlled sample chamber, a large field-of-view (FoV) camera and specialized optics to achieve long-working-distance, high-resolution imaging of cleared samples. We applied this approach to investigate the projectome of

Identifiers

PMID42427676
PMCPMC13345053

What Socratic 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 Socratic graph.