Evidence map›Paper›PMID 41309493›Full record

ArticleAdvanced science (Weinheim, Baden-Wurttemberg, Germany)2026

Construction of a Multitissue Cell Atlas Reveals Cell-Type-Specific Regulation of Molecular and Complex Phenotypes in Pigs.

Lijuan Chen, Houcheng Li, Jinyan Teng, Zhen Wang, Xiaolu Qu, Zhe Chen, Xiaodian Cai, Haonan Zeng, Zhonghao Bai, Jinghui Li and 22 more

Abstract read
PubMed Full text at PMC Publisher
In one paragraph

Article in Advanced science (Weinheim, Baden-Wurttemberg, Germany), 2026. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 13 papers.

0numbers the graph read from it
0cells of the map it votes in
13citing 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

13 citing papers in PubMed.

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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

32 authors.

Lijuan ChenShenzhen Branch, Guangdong Laboratory of Lingnan Modern Agriculture, Key Laboratory of Livestock and Poultry Multi-omics of MARA, Kunpeng Institute of Modern Agriculture at Foshan, Agricultural Genomics Institute at Shenzhen, Chinese Academy of Agricultural Sciences, Shenzhen, 518124, China.ORCID https://orcid.org/0000-0002-8676-2377
Houcheng LiCenter for Quantitative Genetics and Genomics, Aarhus University, Aarhus, 8000, Denmark.
Jinyan TengState Key Laboratory of Livestock and Poultry Breeding, National Engineering Research Center for Breeding Swine Industry, Guangdong Provincial Key Lab of Agro-Animal Genomics and Molecular Breeding, College of Animal Science, South China Agricultural University, Guangzhou, 510642, China.
Zhen WangShenzhen Branch, Guangdong Laboratory of Lingnan Modern Agriculture, Key Laboratory of Livestock and Poultry Multi-omics of MARA, Kunpeng Institute of Modern Agriculture at Foshan, Agricultural Genomics Institute at Shenzhen, Chinese Academy of Agricultural Sciences, Shenzhen, 518124, China.
Xiaolu QuShenzhen Branch, Guangdong Laboratory of Lingnan Modern Agriculture, Key Laboratory of Livestock and Poultry Multi-omics of MARA, Kunpeng Institute of Modern Agriculture at Foshan, Agricultural Genomics Institute at Shenzhen, Chinese Academy of Agricultural Sciences, Shenzhen, 518124, China.
Zhe ChenKey Laboratory for Crop and Animal Integrated Farming, Ministry of Agriculture and Rural Affairs, Institute of Animal Science, Jiangsu Academy of Agricultural Sciences, Nanjing, 210014, China.
Xiaodian CaiState Key Laboratory of Livestock and Poultry Breeding, National Engineering Research Center for Breeding Swine Industry, Guangdong Provincial Key Lab of Agro-Animal Genomics and Molecular Breeding, College of Animal Science, South China Agricultural University, Guangzhou, 510642, China.
Haonan ZengState Key Laboratory of Livestock and Poultry Breeding, National Engineering Research Center for Breeding Swine Industry, Guangdong Provincial Key Lab of Agro-Animal Genomics and Molecular Breeding, College of Animal Science, South China Agricultural University, Guangzhou, 510642, China.
Zhonghao BaiCenter for Quantitative Genetics and Genomics, Aarhus University, Aarhus, 8000, Denmark.
Jinghui LiDepartment of Animal Science, University of California, Davis, CA, 95616, USA.
Xiangchun PanState Key Laboratory of Livestock and Poultry Breeding, National Engineering Research Center for Breeding Swine Industry, Guangdong Provincial Key Lab of Agro-Animal Genomics and Molecular Breeding, College of Animal Science, South China Agricultural University, Guangzhou, 510642, China.
Leyan YanKey Laboratory for Crop and Animal Integrated Farming, Ministry of Agriculture and Rural Affairs, Institute of Animal Science, Jiangsu Academy of Agricultural Sciences, Nanjing, 210014, China.
Fei WangDepartment of Biomedicine, Aarhus University, Aarhus, 8000, Denmark.
Lin LinDepartment of Biomedicine, Aarhus University, Aarhus, 8000, Denmark.
Yonglun LuoDepartment of Biomedicine, Aarhus University, Aarhus, 8000, Denmark.
Goutam SahanaCenter for Quantitative Genetics and Genomics, Aarhus University, Aarhus, 8000, Denmark.
Mogens Sandø LundCenter for Quantitative Genetics and Genomics, Aarhus University, Aarhus, 8000, Denmark.
Maria BallesterAnimal Breeding and Genetics Program, Institut de Recerca i Tecnologia Agroalimentàries (IRTA), Torre Marimon, Caldes de Montbui, Barcelona, 08140, Spain.
Daniel Crespo-PiazueloAnimal Breeding and Genetics Program, Institut de Recerca i Tecnologia Agroalimentàries (IRTA), Torre Marimon, Caldes de Montbui, Barcelona, 08140, Spain.
Peter Karlskov-MortensenAnimal Genetics and Breeding, Department of Veterinary and Animal Sciences, University of Copenhagen, Frederiksberg, C 1870, Denmark.
Merete FredholmAnimal Genetics and Breeding, Department of Veterinary and Animal Sciences, University of Copenhagen, Frederiksberg, C 1870, Denmark.
Alex ClopDepartment of Animal Genetics, Centre for Research in Agricultural Genomics (CRAG), CSIC-IRTA-UAB-UB, Campus de la Universitat Autònoma de Barcelona, Bellaterra, 08193, Spain.
Marcel AmillsDepartment of Animal Genetics, Centre for Research in Agricultural Genomics (CRAG), CSIC-IRTA-UAB-UB, Campus de la Universitat Autònoma de Barcelona, Bellaterra, 08193, Spain.
Crystal LovingUSDA-ARS-National Animal Disease Center, Ames, IA, 50011, USA.
Christopher K TuggleDepartment of Animal Science, Iowa State University, Ames, IA, 50011, USA.
Ole MadsenAnimal Breeding and Genomics, Wageningen University & Research, PO Box 338, Wageningen, 6700 AH, The Netherlands.
Jiaqi LiState Key Laboratory of Livestock and Poultry Breeding, National Engineering Research Center for Breeding Swine Industry, Guangdong Provincial Key Lab of Agro-Animal Genomics and Molecular Breeding, College of Animal Science, South China Agricultural University, Guangzhou, 510642, China.
Zhe ZhangState Key Laboratory of Livestock and Poultry Breeding, National Engineering Research Center for Breeding Swine Industry, Guangdong Provincial Key Lab of Agro-Animal Genomics and Molecular Breeding, College of Animal Science, South China Agricultural University, Guangzhou, 510642, China.
George E LiuAnimal Genomics and Improvement Laboratory, Henry A. Wallace Beltsville Agricultural Research Center, Agricultural Research Service, Agricultural Research Service, USDA, Beltsville, Maryland, 20705, USA.
Jicai JiangDepartment of Animal Science, North Carolina State University, Raleigh, NC, 27695, USA.
Lingzhao FangCenter for Quantitative Genetics and Genomics, Aarhus University, Aarhus, 8000, Denmark.
Guoqiang YiShenzhen Branch, Guangdong Laboratory of Lingnan Modern Agriculture, Key Laboratory of Livestock and Poultry Multi-omics of MARA, Kunpeng Institute of Modern Agriculture at Foshan, Agricultural Genomics Institute at Shenzhen, Chinese Academy of Agricultural Sciences, Shenzhen, 518124, China.ORCID https://orcid.org/0000-0001-8248-9126

Funding

Agricultural Science and Technology Innovation Program of the Chinese Academy of Agricultural Sciences CAAS-SCAB-202302China Agriculture Research System CARS-35Independent Research Fund Denmark 8048-00072AKey Research and Development projects in Yangzhou City YZ2021037Local Innovative and Research Teams Project of Guangdong Province 2019BT02N630Lundbeck Foundation R396-2022-350National Key Research and Development Program of China 2021YFF1000600National Natural Science Foundation of China 32002150National Natural Science Foundation of China 32022078Novo Nordisk Foundation NNF21OC0068988Novo Nordisk Foundation NNF21OC0071031Novo Nordisk Foundation NNF21OC0071718
6 · The paper itself

Abstract

The systematic characterization of cellular heterogeneity among tissues and cell-type-specific regulation underlying complex phenotypes remains elusive in pigs. Within the Pig Genotype-Tissue Expression (PigGTEx) project, this work presents a single-cell transcriptome atlas of adult pigs encompassing 229 268 high-quality nuclei from 19 tissues, annotated to 67 major cell types. Besides cellular heterogeneity within and across tissues, this work further characterizes prominent tissue-specific features and functions of muscle, epithelial, and immune cells. Through deconvoluting 3921 bulk RNA-seq samples from 17 matching tissues, this work dissects thousands of genetic variants with cell-type interaction effects on gene expression (ieQTL). By colocalizing these ieQTL with variants associated with 268 complex traits, new insights into the cellular mechanisms behind these traits are provided. Moreover, this work highlights that orthologous genes with cell-type-specific regulation in pigs exhibit significant heritability enrichment for some human complex phenotypes. Altogether, this work provides a valuable resource and highlights novel insights in cellular regulation of complex traits for accelerating pig precision breeding and human biomedical research.

Indexed as

TranscriptomeAnimalsGene Expression ProfilingPhenotypeQuantitative Trait LociSingle-Cell AnalysisSwinecell‐type‐trait associationcellular deconvolutiongene regulationPigGTExsingle‐nucleus RNA‐seq

Identifiers

PMID41309493
PMCPMC12884822

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