Impact of Cattle Breed in scRNA-Seq Reference on Muscle Fiber Type Deconvolution from Bulk RNA-Seq: A Comparison of Software Tools.

Raphael P Moreira, Marcelo R Vicari, Henrique A Mulim, Theresa M Casey, Jacquelyn Boerman, Xing Fu, Hinayah R Oliveira

Abstract read

In one paragraph

Article in Biotech (Basel (Switzerland)), 2025. 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

7 authors.

Raphael P MoreiraGraduate Program in Genetics, Federal University of Paraná, Curitiba 81531-980, PR, Brazil.

Marcelo R VicariDepartment of Structural Biology, Molecular and Genetics, State University of Ponta Grossa, Ponta Grossa 84030-000, PR, Brazil.ORCID 0000-0003-3913-9889

Henrique A MulimDepartment of Animal Sciences, Purdue University, West Lafayette, IN 47907, USA.ORCID 0000-0001-8798-8899

Theresa M CaseyDepartment of Animal Sciences, Purdue University, West Lafayette, IN 47907, USA.ORCID 0000-0002-8835-3550

Jacquelyn BoermanDepartment of Animal Sciences, Purdue University, West Lafayette, IN 47907, USA.

Xing FuSchool of Animal Science, Louisiana State University Agricultural Center, Baton Rouge, LA 70803, USA.

Hinayah R OliveiraDepartment of Animal Sciences, Purdue University, West Lafayette, IN 47907, USA.ORCID 0000-0002-0355-8902

Funding

No grant is acknowledged in the PubMed record.

6 · The paper itself

Abstract

While bulk RNA sequencing provides a comprehensive view of transcriptomes, it lacks cell type specificity. Single-cell RNA sequencing (scRNA-seq) overcomes this limitation by providing detailed insights at the individual cell level, though it involves higher costs. Deconvolution methods can estimate cell type proportions in bulk RNA-seq data, but their results may vary based on the scRNA-seq reference data and software used. This study investigates the estimation of muscle fiber type proportions through deconvolution analysis of

Indexed as

BrahmanHolsteinLongissimus dorsimyofiber compositiontranscriptomeWagyu

Identifiers

PMID40843779

DOI10.3390/biotech14030056

PMCPMC12372003

What OpenQuestion holds

Textmetadata

LicenceCC BY

Read underepoch 390

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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.