Evidence map›Paper›PMID 42734760›Full record

ArticleMethods in molecular biology (Clifton, N.J.)2027

Improving Image Quality in 10× Visium Spatial Transcriptomics Using Vispro.

Huifang Ma, Zhicheng Ji

Abstract read
PubMed Publisher
In one paragraph

Article in Methods in molecular biology (Clifton, N.J.), 2027. 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

2 authors.

Huifang MaDepartment of Biostatistics and Bioinformatics, Duke University School of Medicine, Durham, NC, 27705, USA.
Zhicheng JiDepartment of Biostatistics and Bioinformatics, Duke University School of Medicine, Durham, NC, 27705, USA. zhicheng.ji@duke.edu.

Funding

No grant is acknowledged in the PubMed record.

6 · The paper itself

Abstract

10× Visium is a widely used spatial transcriptomics platform that enables joint profiling of gene expression and the spatial locations of cells. However, the histology images generated by the 10× Visium platform often contain technical artifacts, including fiducial markers and background noise, which degrade image quality. Here, we describe how a computational method, Vispro, can be applied to process and enhance these images. The resulting high-quality images lead to improved performance across a range of downstream analyses.

Indexed as

Gene Expression ProfilingImage Processing, Computer-AssistedTranscriptomeAnimalsHumansSoftwareSpatial TranscriptomicsDeep learningHistology imagesImage processingSpatial transcriptomics

Identifiers

PMID42734760

What OpenQuestion holds

Textmetadata
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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.