SMARCD3 Gene

Name	SWI/SNF related, matrix associated, actin dependent regulator of chromatin, subfamily d, member 3
Description	The protein encoded by this gene is a member of the SWI/SNF family of proteins, whose members display helicase and ATPase activities and which are thought to regulate transcription of certain genes by altering the chromatin structure around those genes. The encoded protein is part of the large ATP-dependent chromatin remodeling complex SNF/SWI and has sequence similarity to the yeast Swp73 protein. Multiple alternatively spliced transcript variants have been found for this gene, but the biological validity of some variants has not been determined. [provided by RefSeq, Jul 2008]
Summary	{"type": "root", "children": [{"type": "p", "children": [{"type": "t", "text": "\nSMARCD3, also known as BAF60c, is a key subunit of the SWI/SNF chromatin‐remodeling complex that integrates tissue‐specific transcriptional signals to drive diverse differentiation and metabolic programs. In skeletal muscle, for example, SMARCD3 interacts with the myogenic determination factor MyoD and becomes phosphorylated by p38α kinase to mark muscle loci for the recruitment of a Brg1‐based SWI/SNF complex, thereby activating myogenic gene expression. In parallel, isoforms of SMARCD3 act as coregulators for nuclear receptors such as PPARγ and RORα, modulating transcription in a ligand‐independent manner. Moreover, its regulatory function extends to lipogenesis in liver, where phosphorylation of SMARCD3 facilitates its interaction with USF‐1 and promotes the transcription of lipogenic enzymes in response to insulin signaling."}, {"type": "fg", "children": [{"type": "fg_fs", "start_ref": "1", "end_ref": "4"}]}, {"type": "t", "text": "\n"}]}, {"type": "t", "text": "\n\n"}, {"type": "p", "children": [{"type": "t", "text": "\nIn the context of lineage specification, SMARCD3 is indispensable for cardiomyocyte differentiation as demonstrated by its necessity—alongside transcription factors GATA4, TBX5, and NKX2.5—in the conversion of pluripotent or mesenchymal stem cells into beating heart cells. Likewise, during neural development, SMARCD3 is expressed robustly in neural progenitors where it maintains a proliferative state; its downregulation is then required as cells embark on differentiation to mature neuronal phenotypes."}, {"type": "fg", "children": [{"type": "fg_fs", "start_ref": "5", "end_ref": "7"}]}, {"type": "t", "text": "\n"}]}, {"type": "t", "text": "\n\n"}, {"type": "p", "children": [{"type": "t", "text": "\nBeyond normal development, aberrant SMARCD3 activity contributes to pathological processes. Forced expression of SMARCD3 in mammary epithelial cells triggers epithelial‐to‐mesenchymal transition (EMT) via upregulation of Wnt5a, thus implicating it in cancer progression. In pancreatic cancer, SMARCD3 is not only frequently amplified and enriched in cancer stem cell populations but also collaborates with FOXA1 to modulate lipid and fatty acid metabolism—a program linked to therapeutic resistance. In vascular smooth muscle cells, SMARCD3 preserves the contractile phenotype by facilitating the association of serum response factor with its coactivators and the SWI/SNF complex, thereby reducing inflammation and apoptosis; its loss exacerbates aortic aneurysm formation. Furthermore, decreased SMARCD3 expression in skeletal muscle of diabetic conditions underscores its role in maintaining glycolytic capacity and promoting muscle regeneration."}, {"type": "fg", "children": [{"type": "fg_fs", "start_ref": "8", "end_ref": "11"}]}, {"type": "t", "text": "\n"}]}, {"type": "rg", "children": [{"type": "r", "ref": 1, "children": [{"type": "t", "text": "Marie-Bernard Debril, Laurent Gelman, Elisabeth Fayard, et al. "}, {"type": "b", "children": [{"type": "t", "text": "Transcription factors and nuclear receptors interact with the SWI/SNF complex through the BAF60c subunit."}]}, {"type": "t", "text": " "}, {"type": "i", "children": [{"type": "t", "text": "J Biol Chem (2004)"}]}, {"type": "t", "text": " DOI: "}, {"type": "a", "children": [{"type": "t", "text": "10.1074/jbc.M312288200"}], "href": "https://doi.org/10.1074/jbc.M312288200"}, {"type": "t", "text": " PMID: "}, {"type": "a", "children": [{"type": "t", "text": "14701856"}], "href": "https://pubmed.ncbi.nlm.nih.gov/14701856"}]}, {"type": "r", "ref": 2, "children": [{"type": "t", "text": "Sonia V Forcales, Sonia Albini, Lorenzo Giordani, et al. "}, {"type": "b", "children": [{"type": "t", "text": "Signal-dependent incorporation of MyoD-BAF60c into Brg1-based SWI/SNF chromatin-remodelling complex."}]}, {"type": "t", "text": " "}, {"type": "i", "children": [{"type": "t", "text": "EMBO J (2012)"}]}, {"type": "t", "text": " DOI: "}, {"type": "a", "children": [{"type": "t", "text": "10.1038/emboj.2011.391"}], "href": "https://doi.org/10.1038/emboj.2011.391"}, {"type": "t", "text": " PMID: "}, {"type": "a", "children": [{"type": "t", "text": "22068056"}], "href": "https://pubmed.ncbi.nlm.nih.gov/22068056"}]}, {"type": "r", "ref": 3, "children": [{"type": "t", "text": "Zhuo-Xian Meng, Siming Li, Lin Wang, et al. "}, {"type": "b", "children": [{"type": "t", "text": "Baf60c drives glycolytic metabolism in the muscle and improves systemic glucose homeostasis through Deptor-mediated Akt activation."}]}, {"type": "t", "text": " "}, {"type": "i", "children": [{"type": "t", "text": "Nat Med (2013)"}]}, {"type": "t", "text": " DOI: "}, {"type": "a", "children": [{"type": "t", "text": "10.1038/nm.3144"}], "href": "https://doi.org/10.1038/nm.3144"}, {"type": "t", "text": " PMID: "}, {"type": "a", "children": [{"type": "t", "text": "23563706"}], "href": "https://pubmed.ncbi.nlm.nih.gov/23563706"}]}, {"type": "r", "ref": 4, "children": [{"type": "t", "text": "Yuhui Wang, Roger H F Wong, Tianyi Tang, et al. "}, {"type": "b", "children": [{"type": "t", "text": "Phosphorylation and recruitment of BAF60c in chromatin remodeling for lipogenesis in response to insulin."}]}, {"type": "t", "text": " "}, {"type": "i", "children": [{"type": "t", "text": "Mol Cell (2013)"}]}, {"type": "t", "text": " DOI: "}, {"type": "a", "children": [{"type": "t", "text": "10.1016/j.molcel.2012.10.028"}], "href": "https://doi.org/10.1016/j.molcel.2012.10.028"}, {"type": "t", "text": " PMID: "}, {"type": "a", "children": [{"type": "t", "text": "23219531"}], "href": "https://pubmed.ncbi.nlm.nih.gov/23219531"}]}, {"type": "r", "ref": 5, "children": [{"type": "t", "text": "Deepak A Lamba, Susan Hayes, Mike O Karl, et al. "}, {"type": "b", "children": [{"type": "t", "text": "Baf60c is a component of the neural progenitor-specific BAF complex in developing retina."}]}, {"type": "t", "text": " "}, {"type": "i", "children": [{"type": "t", "text": "Dev Dyn (2008)"}]}, {"type": "t", "text": " DOI: "}, {"type": "a", "children": [{"type": "t", "text": "10.1002/dvdy.21697"}], "href": "https://doi.org/10.1002/dvdy.21697"}, {"type": "t", "text": " PMID: "}, {"type": "a", "children": [{"type": "t", "text": "18816825"}], "href": "https://pubmed.ncbi.nlm.nih.gov/18816825"}]}, {"type": "r", "ref": 6, "children": [{"type": "t", "text": "James E Dixon, Emily Dick, Divya Rajamohan, et al. "}, {"type": "b", "children": [{"type": "t", "text": "Directed differentiation of human embryonic stem cells to interrogate the cardiac gene regulatory network."}]}, {"type": "t", "text": " "}, {"type": "i", "children": [{"type": "t", "text": "Mol Ther (2011)"}]}, {"type": "t", "text": " DOI: "}, {"type": "a", "children": [{"type": "t", "text": "10.1038/mt.2011.125"}], "href": "https://doi.org/10.1038/mt.2011.125"}, {"type": "t", "text": " PMID: "}, {"type": "a", "children": [{"type": "t", "text": "21694703"}], "href": "https://pubmed.ncbi.nlm.nih.gov/21694703"}]}, {"type": "r", "ref": 7, "children": [{"type": "t", "text": "Qiong Li, Zhi-Kun Guo, Yu-Qiao Chang, et al. "}, {"type": "b", "children": [{"type": "t", "text": "Gata4, Tbx5 and Baf60c induce differentiation of adipose tissue-derived mesenchymal stem cells into beating cardiomyocytes."}]}, {"type": "t", "text": " "}, {"type": "i", "children": [{"type": "t", "text": "Int J Biochem Cell Biol (2015)"}]}, {"type": "t", "text": " DOI: "}, {"type": "a", "children": [{"type": "t", "text": "10.1016/j.biocel.2015.06.008"}], "href": "https://doi.org/10.1016/j.biocel.2015.06.008"}, {"type": "t", "text": " PMID: "}, {"type": "a", "children": [{"type": "t", "text": "26071180"}], "href": "https://pubmed.ncbi.nlm.nih.gov/26071180"}]}, {"type": "r", "ref": 8, "children": [{"type": "t", "text": "Nicole Vincent Jordan, Aleix Prat, Amy N Abell, et al. "}, {"type": "b", "children": [{"type": "t", "text": "SWI/SNF chromatin-remodeling factor Smarcd3/Baf60c controls epithelial-mesenchymal transition by inducing Wnt5a signaling."}]}, {"type": "t", "text": " "}, {"type": "i", "children": [{"type": "t", "text": "Mol Cell Biol (2013)"}]}, {"type": "t", "text": " DOI: "}, {"type": "a", "children": [{"type": "t", "text": "10.1128/MCB.01443-12"}], "href": "https://doi.org/10.1128/MCB.01443-12"}, {"type": "t", "text": " PMID: "}, {"type": "a", "children": [{"type": "t", "text": "23716599"}], "href": "https://pubmed.ncbi.nlm.nih.gov/23716599"}]}, {"type": "r", "ref": 9, "children": [{"type": "t", "text": "Guizhen Zhao, Yang Zhao, Haocheng Lu, et al. "}, {"type": "b", "children": [{"type": "t", "text": "BAF60c prevents abdominal aortic aneurysm formation through epigenetic control of vascular smooth muscle cell homeostasis."}]}, {"type": "t", "text": " "}, {"type": "i", "children": [{"type": "t", "text": "J Clin Invest (2022)"}]}, {"type": "t", "text": " DOI: "}, {"type": "a", "children": [{"type": "t", "text": "10.1172/JCI158309"}], "href": "https://doi.org/10.1172/JCI158309"}, {"type": "t", "text": " PMID: "}, {"type": "a", "children": [{"type": "t", "text": "36066968"}], "href": "https://pubmed.ncbi.nlm.nih.gov/36066968"}]}, {"type": "r", "ref": 10, "children": [{"type": "t", "text": "L Paige Ferguson, Jovylyn Gatchalian, Matthew L McDermott, et al. "}, {"type": "b", "children": [{"type": "t", "text": "Smarcd3 is an epigenetic modulator of the metabolic landscape in pancreatic ductal adenocarcinoma."}]}, {"type": "t", "text": " "}, {"type": "i", "children": [{"type": "t", "text": "Nat Commun (2023)"}]}, {"type": "t", "text": " DOI: "}, {"type": "a", "children": [{"type": "t", "text": "10.1038/s41467-023-35796-7"}], "href": "https://doi.org/10.1038/s41467-023-35796-7"}, {"type": "t", "text": " PMID: "}, {"type": "a", "children": [{"type": "t", "text": "36653361"}], "href": "https://pubmed.ncbi.nlm.nih.gov/36653361"}]}, {"type": "r", "ref": 11, "children": [{"type": "t", "text": "Jingya Xu, Xiaofei Li, Wei Chen, et al. "}, {"type": "b", "children": [{"type": "t", "text": "Myofiber Baf60c controls muscle regeneration by modulating Dkk3-mediated paracrine signaling."}]}, {"type": "t", "text": " "}, {"type": "i", "children": [{"type": "t", "text": "J Exp Med (2023)"}]}, {"type": "t", "text": " DOI: "}, {"type": "a", "children": [{"type": "t", "text": "10.1084/jem.20221123"}], "href": "https://doi.org/10.1084/jem.20221123"}, {"type": "t", "text": " PMID: "}, {"type": "a", "children": [{"type": "t", "text": "37284884"}], "href": "https://pubmed.ncbi.nlm.nih.gov/37284884"}]}]}]}
Synonyms	BAF60C, CRACD3
Proteins	SMRD3_HUMAN
NCBI Gene ID	6604
API
Download Associations
Predicted Functions
Co-expressed Genes
Expression in Tissues and Cell Lines

Functional Associations

SMARCD3 has 7,207 functional associations with biological entities spanning 9 categories (molecular profile, organism, chemical, functional term, phrase or reference, disease, phenotype or trait, structural feature, cell line, cell type or tissue, gene, protein or microRNA, sequence feature) extracted from 128 datasets.

Click the + buttons to view associations for SMARCD3 from the datasets below.

If available, associations are ranked by standardized value

Harmonizome 3.0

SMARCD3 Gene

Functional Associations

Please acknowledge the Harmonizome in your publications by citing the following reference(s):

	Dataset	Summary
	Allen Brain Atlas Adult Human Brain Tissue Gene Expression Profiles	tissues with high or low expression of SMARCD3 gene relative to other tissues from the Allen Brain Atlas Adult Human Brain Tissue Gene Expression Profiles dataset.
	Allen Brain Atlas Adult Mouse Brain Tissue Gene Expression Profiles	tissues with high or low expression of SMARCD3 gene relative to other tissues from the Allen Brain Atlas Adult Mouse Brain Tissue Gene Expression Profiles dataset.
	Allen Brain Atlas Aging Dementia and Traumatic Brain Injury Tissue Sample Gene Expression Profiles	tissue samples with high or low expression of SMARCD3 gene relative to other tissue samples from the Allen Brain Atlas Aging Dementia and Traumatic Brain Injury Tissue Sample Gene Expression Profiles dataset.
	Allen Brain Atlas Developing Human Brain Tissue Gene Expression Profiles by Microarray	tissue samples with high or low expression of SMARCD3 gene relative to other tissue samples from the Allen Brain Atlas Developing Human Brain Tissue Gene Expression Profiles by Microarray dataset.
	Allen Brain Atlas Developing Human Brain Tissue Gene Expression Profiles by RNA-seq	tissue samples with high or low expression of SMARCD3 gene relative to other tissue samples from the Allen Brain Atlas Developing Human Brain Tissue Gene Expression Profiles by RNA-seq dataset.
	Allen Brain Atlas Prenatal Human Brain Tissue Gene Expression Profiles	tissues with high or low expression of SMARCD3 gene relative to other tissues from the Allen Brain Atlas Prenatal Human Brain Tissue Gene Expression Profiles dataset.
	BioGPS Cell Line Gene Expression Profiles	cell lines with high or low expression of SMARCD3 gene relative to other cell lines from the BioGPS Cell Line Gene Expression Profiles dataset.
	BioGPS Human Cell Type and Tissue Gene Expression Profiles	cell types and tissues with high or low expression of SMARCD3 gene relative to other cell types and tissues from the BioGPS Human Cell Type and Tissue Gene Expression Profiles dataset.
	BioGPS Mouse Cell Type and Tissue Gene Expression Profiles	cell types and tissues with high or low expression of SMARCD3 gene relative to other cell types and tissues from the BioGPS Mouse Cell Type and Tissue Gene Expression Profiles dataset.
	Carcinogenome Chemical Perturbation Carcinogenicity Signatures	small molecule perturbations changing expression of SMARCD3 gene from the Carcinogenome Chemical Perturbation Carcinogenicity Signatures dataset.
	CCLE Cell Line Gene CNV Profiles	cell lines with high or low copy number of SMARCD3 gene relative to other cell lines from the CCLE Cell Line Gene CNV Profiles dataset.
	CCLE Cell Line Gene Expression Profiles	cell lines with high or low expression of SMARCD3 gene relative to other cell lines from the CCLE Cell Line Gene Expression Profiles dataset.
	CCLE Cell Line Proteomics	Cell lines associated with SMARCD3 protein from the CCLE Cell Line Proteomics dataset.
	CellMarker Gene-Cell Type Associations	cell types associated with SMARCD3 gene from the CellMarker Gene-Cell Type Associations dataset.
	ChEA Transcription Factor Binding Site Profiles	transcription factor binding site profiles with transcription factor binding evidence at the promoter of SMARCD3 gene from the CHEA Transcription Factor Binding Site Profiles dataset.
	ChEA Transcription Factor Targets	transcription factors binding the promoter of SMARCD3 gene in low- or high-throughput transcription factor functional studies from the CHEA Transcription Factor Targets dataset.
	ChEA Transcription Factor Targets 2022	transcription factors binding the promoter of SMARCD3 gene in low- or high-throughput transcription factor functional studies from the CHEA Transcription Factor Targets 2022 dataset.
	CM4AI KOLF21J CRISPRi Gene Perturbation Atlas	gene perturbations changing expression of SMARCD3 gene from the CM4AI KOLF21J CRISPRi Gene Perturbation Atlas dataset.
	CM4AI U2OS Cell Map Protein Localization Assemblies	assemblies containing SMARCD3 protein from integrated AP-MS and IF data from the CM4AI U2OS Cell Map Protein Localization Assemblies dataset.
	CMAP Signatures of Differentially Expressed Genes for Small Molecules	small molecule perturbations changing expression of SMARCD3 gene from the CMAP Signatures of Differentially Expressed Genes for Small Molecules dataset.
	COMPARTMENTS Curated Protein Localization Evidence Scores	cellular components containing SMARCD3 protein from the COMPARTMENTS Curated Protein Localization Evidence Scores dataset.
	COMPARTMENTS Curated Protein Localization Evidence Scores 2025	cellular components containing SMARCD3 protein from the COMPARTMENTS Curated Protein Localization Evidence Scores 2025 dataset.
	COMPARTMENTS Text-mining Protein Localization Evidence Scores	cellular components co-occuring with SMARCD3 protein in abstracts of biomedical publications from the COMPARTMENTS Text-mining Protein Localization Evidence Scores dataset.
	COMPARTMENTS Text-mining Protein Localization Evidence Scores 2025	cellular components co-occuring with SMARCD3 protein in abstracts of biomedical publications from the COMPARTMENTS Text-mining Protein Localization Evidence Scores 2025 dataset.
	CORUM Protein Complexes	protein complexs containing SMARCD3 protein from the CORUM Protein Complexes dataset.
	COSMIC Cell Line Gene CNV Profiles	cell lines with high or low copy number of SMARCD3 gene relative to other cell lines from the COSMIC Cell Line Gene CNV Profiles dataset.
	COSMIC Cell Line Gene Mutation Profiles	cell lines with SMARCD3 gene mutations from the COSMIC Cell Line Gene Mutation Profiles dataset.
	CTD Gene-Disease Associations	diseases associated with SMARCD3 gene/protein from the curated CTD Gene-Disease Associations dataset.
	DeepCoverMOA Drug Mechanisms of Action	small molecule perturbations with high or low expression of SMARCD3 protein relative to other small molecule perturbations from the DeepCoverMOA Drug Mechanisms of Action dataset.
	DepMap CRISPR Gene Dependency	cell lines with fitness changed by SMARCD3 gene knockdown relative to other cell lines from the DepMap CRISPR Gene Dependency dataset.
	DISEASES Experimental Gene-Disease Association Evidence Scores 2025	diseases associated with SMARCD3 gene in GWAS datasets from the DISEASES Experimental Gene-Disease Assocation Evidence Scores 2025 dataset.
	DISEASES Text-mining Gene-Disease Association Evidence Scores	diseases co-occuring with SMARCD3 gene in abstracts of biomedical publications from the DISEASES Text-mining Gene-Disease Assocation Evidence Scores dataset.
	DISEASES Text-mining Gene-Disease Association Evidence Scores 2025	diseases co-occuring with SMARCD3 gene in abstracts of biomedical publications from the DISEASES Text-mining Gene-Disease Assocation Evidence Scores 2025 dataset.
	DisGeNET Gene-Disease Associations	diseases associated with SMARCD3 gene in GWAS and other genetic association datasets from the DisGeNET Gene-Disease Associations dataset.
	DisGeNET Gene-Phenotype Associations	phenotypes associated with SMARCD3 gene in GWAS and other genetic association datasets from the DisGeNET Gene-Phenoptype Associations dataset.
	ENCODE Histone Modification Site Profiles	histone modification site profiles with high histone modification abundance at SMARCD3 gene from the ENCODE Histone Modification Site Profiles dataset.
	ENCODE Transcription Factor Binding Site Profiles	transcription factor binding site profiles with transcription factor binding evidence at the promoter of SMARCD3 gene from the ENCODE Transcription Factor Binding Site Profiles dataset.
	ENCODE Transcription Factor Targets	transcription factors binding the promoter of SMARCD3 gene in ChIP-seq datasets from the ENCODE Transcription Factor Targets dataset.
	ESCAPE Omics Signatures of Genes and Proteins for Stem Cells	PubMedIDs of publications reporting gene signatures containing SMARCD3 from the ESCAPE Omics Signatures of Genes and Proteins for Stem Cells dataset.
	GDSC Cell Line Gene Expression Profiles	cell lines with high or low expression of SMARCD3 gene relative to other cell lines from the GDSC Cell Line Gene Expression Profiles dataset.