Evidence map›Paper›PMID 39763751›Full record

ArticlebioRxiv : the preprint server for biology2024

Molecular and spatial analysis of ganglion cells on retinal flatmounts: diversity, topography, and perivascularity.

Nicole Y Tsai, Kushal Nimkar, Mengya Zhao, Matthew R Lum, Yujuan Yi, Tavita R Garrett, Yixiao Wang, Kenichi Toma, Franklin Caval-Holme, Nikhil Reddy and 6 more

Abstract readPreprint
PubMed Full text at PMC Publisher
In one paragraph

Article in bioRxiv : the preprint server for biology, 2024. 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

5 · Who and what money

Authors and funding

16 authors.

Nicole Y TsaiDepartment of Ophthalmology, School of Medicine, University of California San Francisco, San Francisco, CA, USA.ORCID 0000-0002-1944-0327
Kushal NimkarDepartment of Chemical and Biomolecular Engineering, University of California, Berkeley, Berkeley, CA, USA.
Mengya ZhaoDepartment of Ophthalmology, School of Medicine, University of California San Francisco, San Francisco, CA, USA.
Matthew R LumDepartment of Ophthalmology, School of Medicine, University of California San Francisco, San Francisco, CA, USA.
Yujuan YiDepartment of Ophthalmology, School of Medicine, University of California San Francisco, San Francisco, CA, USA.
Tavita R GarrettCasey Eye Institute, Oregon Health and Science University, Portland, OR, USA.
Yixiao WangDepartment of Ophthalmology, School of Medicine, University of California San Francisco, San Francisco, CA, USA.
Kenichi TomaDepartment of Ophthalmology, School of Medicine, University of California San Francisco, San Francisco, CA, USA.
Franklin Caval-HolmeF. M. Kirby Neurobiology Center and Department of Neurology, Boston Children's Hospital and Harvard Medical School. Boston, MA, USA.
Nikhil ReddyDepartment of Chemical and Biomolecular Engineering, University of California, Berkeley, Berkeley, CA, USA.
Aliza T EhrlichDepartment of Psychiatry and Behavioral Sciences, University of California, San Francisco, San Francisco, CA, USA.
Arnold R KriegsteinDepartment of Neurology and The Eli and Edythe Broad Center of Regeneration Medicine and Stem Cell Research, University of California San Francisco, San Francisco, CA, USA.ORCID 0000-0001-5742-2990
Michael Tri H DoF. M. Kirby Neurobiology Center and Department of Neurology, Boston Children's Hospital and Harvard Medical School. Boston, MA, USA.ORCID 0000-0001-6418-0977
Benjamin SivyerCasey Eye Institute, Oregon Health and Science University, Portland, OR, USA.ORCID 0000-0002-4537-5768
Karthik ShekharDepartment of Chemical and Biomolecular Engineering, University of California, Berkeley, Berkeley, CA, USA.ORCID 0000-0003-4349-6600
Xin DuanDepartment of Ophthalmology, School of Medicine, University of California San Francisco, San Francisco, CA, USA.ORCID 0000-0001-5260-8972

Funding

Viral ModuleP30EY012196 · NEI · HARVARD UNIVERSITY (MEDICAL SCHOOL) · PI ZHIGANG HE · 1998 to 2026
$21.3M
Rapid-Prototyping and Design CoreP30EY002162 · NEI · UNIVERSITY OF CALIFORNIA, SAN FRANCISCO · PI LAKKARAJU, APARNA · 1985 to 2024
$16.8M
Genetic Analysis and Manipulation Core (GAEC)P50HD105351 · NICHD · BOSTON CHILDREN'S HOSPITAL · PI SCOTT Loren POMEROY, MUSTAFA SAHIN · 2021 to 2026
$9.4M
Development and Expansion of the Human Cerebral CortexR35NS097305 · NINDS · UNIVERSITY OF CALIFORNIA, SAN FRANCISCO · PI KRIEGSTEIN, ARNOLD · 2017 to 2024
$8.5M
BRAIN CONNECTS: Scalable Approaches for Bidirectional Brain-wide Trans-Neuronal Connectivity Mapping of Defined Cell TypesU01NS136405 · NINDS · UNIVERSITY OF CALIFORNIA, SAN FRANCISCO · PI Xin Duan, Evan Harriman Feinberg · 2024 to 2026
$5.9M
Regulation of the intrinsic melanopsin-based light response in ipRGCsR01EY027202 · NEI · UNIVERSITY OF MARYLAND BALTIMORE COUNTY · PI RONALD Lane BROWN, Joseph Leffler · 2017 to 2026
$5.3M
Properties and Mechanisms of Melanopsin PhotoreceptionR01EY023648 · NEI · BOSTON CHILDREN'S HOSPITAL · PI DO, MICHAEL TRI HOANG · 2013 to 2022
$4.5M
MAPPING RETINOTECTAL CIRCUITS FOR VISUAL-EVOKED INNATE BEHAVIORSR01NS123912 · NINDS · UNIVERSITY OF CALIFORNIA, SAN FRANCISCO · PI DUAN, XIN, SCANZIANI, MASSIMO · 2021 to 2025
$3.6M
Mechanisms Underlying Type II Cadherin Guided Assembly of Retinal CircuitsR01EY030138 · NEI · UNIVERSITY OF CALIFORNIA, SAN FRANCISCO · PI Xin Duan · 2020 to 2026
$3.2M
Downstream Actions of Biophysical Mechanisms in the Visual System-Diversity SupplementR01EY034089 · NEI · BOSTON CHILDREN'S HOSPITAL · PI Michael Tri Hoang Do · 2022 to 2026
$3.0M
Functional subtypes of retinal ganglion cell photoreceptorsR01EY032564 · NEI · OREGON HEALTH & SCIENCE UNIVERSITY · PI Joseph Leffler · 2022 to 2026
$2.2M
Signal Generation and Processing in the Retinohypothalamic PathwayR01EY036071 · NEI · BOSTON CHILDREN'S HOSPITAL · PI Michael Tri Hoang Do · 2024 to 2026
$2.1M
NEI NIH HHS F30 EY033201NEI NIH HHS F32 EY033639NEI NIH HHS P30 EY002162NEI NIH HHS P30 EY012196NEI NIH HHS R01 EY023648NEI NIH HHS R01 EY027202NEI NIH HHS R01 EY030138NEI NIH HHS R01 EY032564NEI NIH HHS R01 EY034089NEI NIH HHS R01 EY036071NEI NIH HHS R01 EY036430NICHD NIH HHS P50 HD105351NIMH NIH HHS K01 MH123757NINDS NIH HHS R01 NS123912NINDS NIH HHS R35 NS097305NINDS NIH HHS U01 NS136405
6 · The paper itself

Abstract

Diverse retinal ganglion cells (RGCs) transmit distinct visual features from the eye to the brain. Recent studies have categorized RGCs into 45 types in mice based on transcriptomic profiles, showing strong alignment with morphological and electrophysiological properties. However, little is known about how these types are spatially arranged on the two-dimensional retinal surface-an organization that influences visual encoding-and how their local microenvironments impact development and neurodegenerative responses. To address this gap, we optimized a workflow combining imaging-based spatial transcriptomics (MERFISH) and immunohistochemical co-staining on thin flatmount retinal sections. We used computational methods to register

Indexed as

MERFISHneuronal typesneuroprotectionperivascular neuronsretinal ganglion cellsspatial transcriptomics

Identifiers

PMID39763751
PMCPMC11702564

What OpenQuestion 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 OpenQuestion graph.