Evidence map›Paper›PMID 41889976›Full record

ArticlebioRxiv : the preprint server for biology2026

CellPheno: A High-throughput Computational Platform for Quantifying Cellular Resolution Whole Brain Microscopy Images.

Ziquan Wei, Ian Curtin, Felix A Kyere, David Borland, Hong Yi, Minjeong Kim, Mustafa Dere, Carolyn M McCormick, Oleh Krupa, Yen-Yu Ian Shih and 3 more

Abstract readPreprint
PubMed Full text at PMC Publisher
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

13 authors.

Ziquan WeiDepartment of Computer Science, University of North Carolina, Chapel Hill, NC, 27599, USA.ORCID 0000-0001-6553-4482
Ian CurtinUNC Neuroscience Center, University of North Carolina, Chapel Hill, NC, 27599, USA.ORCID 0000-0001-6650-7574
Felix A KyereUNC Neuroscience Center, University of North Carolina, Chapel Hill, NC, 27599, USA.
David BorlandRENCI, University of North Carolina at Chapel Hill, 100 Europa Drive, Suite 540, Chapel Hill, NC 27517 USA.
Hong YiRENCI, University of North Carolina at Chapel Hill, 100 Europa Drive, Suite 540, Chapel Hill, NC 27517 USA.
Minjeong KimDepartment of Computer Science, University of North Carolina at Greensboro, Greensboro, NC, 27412, USA.
Mustafa DereDepartment of Psychiatry, University of North Carolina, Chapel Hill, NC, 27599, USA.
Carolyn M McCormickUNC Neuroscience Center, University of North Carolina, Chapel Hill, NC, 27599, USA.
Oleh KrupaUNC Neuroscience Center, University of North Carolina, Chapel Hill, NC, 27599, USA.
Yen-Yu Ian ShihCenter for Animal Magnetic Resonance Imaging, University of North Carolina, Chapel Hill, NC, 27599, USA.
Mark J ZylkaUNC Neuroscience Center, University of North Carolina, Chapel Hill, NC, 27599, USA.
Jason L SteinUNC Neuroscience Center, University of North Carolina, Chapel Hill, NC, 27599, USA.
Guorong WuDepartment of Computer Science, University of North Carolina, Chapel Hill, NC, 27599, USA.

Funding

Environmental-use chemicals that target pathways linked to autism and other neurodevelopmental disordersR35ES028366 · NIEHS · UNIV OF NORTH CAROLINA CHAPEL HILL · PI Mark J. Zylka · 2019 to 2026
$6.8M
The influence of common genetic variation on brain overgrowth pathwaysR01MH120125 · NIMH · UNIV OF NORTH CAROLINA CHAPEL HILL · PI STEIN, JASON LOUIS · 2019 to 2023
$2.5M
pathQTL: Integrative Multi-Omics Causal Inference of Molecular Mechanisms Leading to Neuropsychiatric IllnessR01MH118349 · NIMH · UNIV OF NORTH CAROLINA CHAPEL HILL · PI LOVE, MICHAEL ISAIAH, STEIN, JASON LOUIS · 2019 to 2023
$2.4M
Quantifying the developmental trajectory of autism-associated brain overgrowth using 3D cellular resolution imagingR01MH121433 · NIMH · UNIV OF NORTH CAROLINA CHAPEL HILL · PI STEIN, JASON LOUIS · 2019 to 2023
$2.2M
A Scalable Platform for Exploring and Analyzing Whole Brain Tissue Cleared ImagesR01NS110791 · NINDS · UNIV OF NORTH CAROLINA CHAPEL HILL · PI WU, GUORONG · 2019 to 2023
$1.9M
NIEHS NIH HHS R35 ES028366NIMH NIH HHS R01 MH118349NIMH NIH HHS R01 MH120125NIMH NIH HHS R01 MH121433NINDS NIH HHS R01 NS110791
6 · The paper itself

Abstract

Advances in tissue clearing and light-sheet microscopy enable cellular resolution whole-brain 3D imaging. However, whole-brain quantification tools do not yet meet demands for efficiency or assess morphometry. Here we present

Indexed as

3D Nuclei instance segmentationCellular phenotypingLight-sheet fluorescence microscopy imageMachine learningWhole-brain analysis

Identifiers

PMID41889976
PMCPMC13015524

What OpenQuestion holds

Textmetadata
LicenceCC BY-NC
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.