Evidence map›Paper›PMID 37745592›Full record

ArticlebioRxiv : the preprint server for biology2024

A Single-cell and Spatial RNA-seq Database for Alzheimer's Disease (ssREAD).

Cankun Wang, Diana Acosta, Megan McNutt, Jiang Bian, Anjun Ma, Hongjun Fu, Qin Ma

Open access · greenAbstract 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, 9 citations in OpenAlex.

No citing paper in PubMed yet.

4 · The record

Corrections and comments

5 · Who and what money

Authors and funding

7 authors at 3 institutions in 1 country.

Cankun WangDepartment of Biomedical Informatics, The Ohio State University, OH 43210, USA.ORCID 0000-0002-0225-9855
Diana AcostaDepartment of Neuroscience, The Ohio State University, OH 43210, USA.
Megan McNuttDepartment of Biomedical Informatics, The Ohio State University, OH 43210, USA.ORCID 0009-0002-2946-5656
Jiang BianDepartment of Health Outcomes & Biomedical Informatics, University of Florida, FL 32606, USA.ORCID 0000-0002-2238-5429
Anjun MaDepartment of Biomedical Informatics, The Ohio State University, OH 43210, USA.ORCID 0000-0001-6269-398X
Hongjun FuDepartment of Neuroscience, The Ohio State University, OH 43210, USA.ORCID 0000-0001-5346-7075
Qin MaDepartment of Biomedical Informatics, The Ohio State University, OH 43210, USA.ORCID 0000-0002-3264-8392
The Ohio State University · USBrain Injury Association of America · USUniversity of Florida Health · US

Funding

Ectodermal-neural cortex 1 and neuronal vulnerability to tau pathology in Alzheimer's diseaseR01AG075092 · NIA · OHIO STATE UNIVERSITY · 2022 to 2025
$946k
NHGRI NIH HHS R21 HG012482NIA NIH HHS R01 AG075092
6 · The paper itself

Abstract

Alzheimer's Disease (AD) pathology has been increasingly explored through single-cell and single-nucleus RNA-sequencing (scRNA-seq & snRNA-seq) and spatial transcriptomics (ST). However, the surge in data demands a comprehensive, user-friendly repository. Addressing this, we introduce a single-cell and spatial RNA-seq database for Alzheimer's disease (ssREAD). It offers a broader spectrum of AD-related datasets, an optimized analytical pipeline, and improved usability. The database encompasses 1,053 samples (277 integrated datasets) from 67 AD-related scRNA-seq & snRNA-seq studies, totaling 7,332,202 cells. Additionally, it archives 381 ST datasets from 18 human and mouse brain studies. Each dataset is annotated with details such as species, gender, brain region, disease/control status, age, and AD Braak stages. ssREAD also provides an analysis suite for cell clustering, identification of differentially expressed and spatially variable genes, cell-type-specific marker genes and regulons, and spot deconvolution for integrative analysis. ssREAD is freely available at https://bmblx.bmi.osumc.edu/ssread/.

Indexed as

Alzheimer’s Diseasesingle-cell and single-nucleus RNA sequencingSpatial transcriptomicsWeb database

Identifiers

PMID37745592
PMCPMC10515769
OpenAlexW4386636936

What Socratic 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 Socratic graph.