HDGFL2 Gene

Name HDGF like 2
Description This gene encodes a member of the hepatoma-derived growth factor (HDGF) family. The protein includes an N-terminal PWWP domain that binds to methyl-lysine-containing histones, with specific binding of this protein to tri-methylated lysines 36 and 79 of histone H3, and di- and tri-methylated lysine 20 of histone H4. The protein functions in LEDGF/p75-independent HIV-1 replication by determining HIV-1 integration site selection. Alternative splicing of this gene results in multiple transcript variants. [provided by RefSeq, Apr 2014]
Summary
{"type": "root", "children": [{"type": "p", "children": [{"type": "t", "text": "\n HDGFL2 (also known as HRP2 or HDGF‐related protein 2) is an evolutionarily conserved chromatin‐associated factor that participates in multiple key cellular processes. Its domain organization closely resembles that of LEDGF/p75, including an integrase binding domain that enables HDGFL2 to interact directly with HIV integrase and stimulate its enzymatic activity. Through this interaction, HDGFL2 can promote efficient and properly targeted integration of the HIV genome into host chromatin, especially under conditions where LEDGF/p75 is absent or depleted."}, {"type": "fg", "children": [{"type": "fg_fs", "start_ref": "1", "end_ref": "4"}]}, {"type": "t", "text": ""}]}, {"type": "t", "text": "\n \n "}, {"type": "p", "children": [{"type": "t", "text": "\n Beyond its role in HIV integration, HDGFL2 binds to methylated histone marks via its PWWP domain. This dual capacity to interact with both nucleosomal DNA and modified histone tails underlies its involvement in transcriptional regulation, ensuring proper transcription elongation and gene expression. In particular, HDGFL2 has been implicated in directing chromatin remodeling through partnerships with factors such as DPF3a and components of BAF complexes during myogenic differentiation."}, {"type": "fg", "children": [{"type": "fg_fs", "start_ref": "5", "end_ref": "7"}]}, {"type": "t", "text": ""}]}, {"type": "t", "text": "\n \n "}, {"type": "p", "children": [{"type": "t", "text": "\n In addition, HDGFL2 contributes to genome stability by facilitating homologous recombination repair; it aids in the recruitment of DNA end resection factors (for example, CtIP) to double‐strand breaks, thereby promoting the repair process."}, {"type": "fg", "children": [{"type": "fg_f", "ref": "8"}]}, {"type": "t", "text": " Its misregulation is also linked to cancer progression. Overexpression of HDGFL2 has been associated with enhanced tumor cell growth in hepatocellular carcinoma and has been shown to contribute to chemoresistance in multiple myeloma by modulating epigenetic marks and gene expression."}, {"type": "fg", "children": [{"type": "fg_f", "ref": "9"}]}, {"type": "t", "text": " Furthermore, genetic studies in mice reveal that while loss of HDGFL2 alone is tolerated, dual deficiency with LEDGF/p75 results in embryonic lethality accompanied by developmental defects, underscoring their complementary roles in development."}, {"type": "fg", "children": [{"type": "fg_f", "ref": "11"}]}, {"type": "t", "text": ""}]}, {"type": "t", "text": "\n \n "}, {"type": "p", "children": [{"type": "t", "text": "\n In summary, HDGFL2 acts as a multifunctional adaptor that links chromatin to various effector processes. It contributes to HIV-1 integration, transcription regulation, chromatin remodeling, and DNA repair, and its dysregulation bears significant implications for oncogenesis and cellular stress responses.\n "}]}, {"type": "rg", "children": [{"type": "r", "ref": 1, "children": [{"type": "t", "text": "Peter Cherepanov, Eric Devroe, Pamela A Silver, et al. 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"}, {"type": "b", "children": [{"type": "t", "text": "Biochemical and genetic analyses of integrase-interacting proteins lens epithelium-derived growth factor (LEDGF)/p75 and hepatoma-derived growth factor related protein 2 (HRP2) in preintegration complex function and HIV-1 replication."}]}, {"type": "t", "text": " "}, {"type": "i", "children": [{"type": "t", "text": "Virology (2006)"}]}, {"type": "t", "text": " DOI: "}, {"type": "a", "children": [{"type": "t", "text": "10.1016/j.virol.2005.11.022"}], "href": "https://doi.org/10.1016/j.virol.2005.11.022"}, {"type": "t", "text": " PMID: "}, {"type": "a", "children": [{"type": "t", "text": "16337983"}], "href": "https://pubmed.ncbi.nlm.nih.gov/16337983"}]}, {"type": "r", "ref": 3, "children": [{"type": "t", "text": "Hao Wang, Kellie A Jurado, Xiaolin Wu, et al. "}, {"type": "b", "children": [{"type": "t", "text": "HRP2 determines the efficiency and specificity of HIV-1 integration in LEDGF/p75 knockout cells but does not contribute to the antiviral activity of a potent LEDGF/p75-binding site integrase inhibitor."}]}, {"type": "t", "text": " "}, {"type": "i", "children": [{"type": "t", "text": "Nucleic Acids Res (2012)"}]}, {"type": "t", "text": " DOI: "}, {"type": "a", "children": [{"type": "t", "text": "10.1093/nar/gks913"}], "href": "https://doi.org/10.1093/nar/gks913"}, {"type": "t", "text": " PMID: "}, {"type": "a", "children": [{"type": "t", "text": "23042676"}], "href": "https://pubmed.ncbi.nlm.nih.gov/23042676"}]}, {"type": "r", "ref": 4, "children": [{"type": "t", "text": "Rik Schrijvers, Jan De Rijck, Jonas Demeulemeester, et al. "}, {"type": "b", "children": [{"type": "t", "text": "LEDGF/p75-independent HIV-1 replication demonstrates a role for HRP-2 and remains sensitive to inhibition by LEDGINs."}]}, {"type": "t", "text": " "}, {"type": "i", "children": [{"type": "t", "text": "PLoS Pathog (2012)"}]}, {"type": "t", "text": " DOI: "}, {"type": "a", "children": [{"type": "t", "text": "10.1371/journal.ppat.1002558"}], "href": "https://doi.org/10.1371/journal.ppat.1002558"}, {"type": "t", "text": " PMID: "}, {"type": "a", "children": [{"type": "t", "text": "22396646"}], "href": "https://pubmed.ncbi.nlm.nih.gov/22396646"}]}, {"type": "r", "ref": 5, "children": [{"type": "t", "text": "Belinda Baquero-Perez, Agne Antanaviciute, Ivaylo D Yonchev, et al. 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"}, {"type": "b", "children": [{"type": "t", "text": "HRP2-DPF3a-BAF complex coordinates histone modification and chromatin remodeling to regulate myogenic gene transcription."}]}, {"type": "t", "text": " "}, {"type": "i", "children": [{"type": "t", "text": "Nucleic Acids Res (2020)"}]}, {"type": "t", "text": " DOI: "}, {"type": "a", "children": [{"type": "t", "text": "10.1093/nar/gkaa441"}], "href": "https://doi.org/10.1093/nar/gkaa441"}, {"type": "t", "text": " PMID: "}, {"type": "a", "children": [{"type": "t", "text": "32459350"}], "href": "https://pubmed.ncbi.nlm.nih.gov/32459350"}]}, {"type": "r", "ref": 7, "children": [{"type": "t", "text": "Jia-Ray Yu, Gary LeRoy, Devin Bready, et al. 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"}, {"type": "b", "children": [{"type": "t", "text": "HDGF-related protein-2 (HRP-2) acts as an oncogene to promote cell growth in hepatocellular carcinoma."}]}, {"type": "t", "text": " "}, {"type": "i", "children": [{"type": "t", "text": "Biochem Biophys Res Commun (2015)"}]}, {"type": "t", "text": " DOI: "}, {"type": "a", "children": [{"type": "t", "text": "10.1016/j.bbrc.2015.02.042"}], "href": "https://doi.org/10.1016/j.bbrc.2015.02.042"}, {"type": "t", "text": " PMID: "}, {"type": "a", "children": [{"type": "t", "text": "25689719"}], "href": "https://pubmed.ncbi.nlm.nih.gov/25689719"}]}, {"type": "r", "ref": 10, "children": [{"type": "t", "text": "Jingjing Wang, Xu Zhu, Lin Dang, et al. 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"}, {"type": "b", "children": [{"type": "t", "text": "Embryonic Lethality Due to Arrested Cardiac Development in Psip1/Hdgfrp2 Double-Deficient Mice."}]}, {"type": "t", "text": " "}, {"type": "i", "children": [{"type": "t", "text": "PLoS One (2015)"}]}, {"type": "t", "text": " DOI: "}, {"type": "a", "children": [{"type": "t", "text": "10.1371/journal.pone.0137797"}], "href": "https://doi.org/10.1371/journal.pone.0137797"}, {"type": "t", "text": " PMID: "}, {"type": "a", "children": [{"type": "t", "text": "26367869"}], "href": "https://pubmed.ncbi.nlm.nih.gov/26367869"}]}]}]}
NCBI Gene ID 84717
API
Download Associations
Predicted Functions View HDGFL2's ARCHS4 Predicted Functions.
Co-expressed Genes View HDGFL2's ARCHS4 Predicted Functions.
Expression in Tissues and Cell Lines View HDGFL2's ARCHS4 Predicted Functions.

Functional Associations

HDGFL2 has 1,622 functional associations with biological entities spanning 6 categories (functional term, phrase or reference, disease, phenotype or trait, chemical, cell line, cell type or tissue, gene, protein or microRNA, sequence feature) extracted from 36 datasets.

Click the + buttons to view associations for HDGFL2 from the datasets below.

If available, associations are ranked by standardized value

Dataset Summary
Allen Brain Atlas Aging Dementia and Traumatic Brain Injury Tissue Sample Gene Expression Profiles tissue samples with high or low expression of HDGFL2 gene relative to other tissue samples from the Allen Brain Atlas Aging Dementia and Traumatic Brain Injury Tissue Sample Gene Expression Profiles dataset.
CCLE Cell Line Proteomics Cell lines associated with HDGFL2 protein from the CCLE Cell Line Proteomics dataset.
CellMarker Gene-Cell Type Associations cell types associated with HDGFL2 gene from the CellMarker Gene-Cell Type Associations dataset.
ChEA Transcription Factor Targets 2022 transcription factors binding the promoter of HDGFL2 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 HDGFL2 gene from the CM4AI KOLF21J CRISPRi Gene Perturbation Atlas dataset.
CM4AI U2OS Cell Map Protein Localization Assemblies assemblies containing HDGFL2 protein from integrated AP-MS and IF data from the CM4AI U2OS Cell Map Protein Localization Assemblies dataset.
COMPARTMENTS Curated Protein Localization Evidence Scores 2025 cellular components containing HDGFL2 protein from the COMPARTMENTS Curated Protein Localization Evidence Scores 2025 dataset.
COMPARTMENTS Experimental Protein Localization Evidence Scores 2025 cellular components containing HDGFL2 protein in low- or high-throughput protein localization assays from the COMPARTMENTS Experimental Protein Localization Evidence Scores 2025 dataset.
COMPARTMENTS Text-mining Protein Localization Evidence Scores 2025 cellular components co-occuring with HDGFL2 protein in abstracts of biomedical publications from the COMPARTMENTS Text-mining Protein Localization Evidence Scores 2025 dataset.
DepMap CRISPR Gene Dependency cell lines with fitness changed by HDGFL2 gene knockdown relative to other cell lines from the DepMap CRISPR Gene Dependency dataset.
DISEASES Text-mining Gene-Disease Association Evidence Scores 2025 diseases co-occuring with HDGFL2 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 HDGFL2 gene in GWAS and other genetic association datasets from the DisGeNET Gene-Disease Associations dataset.
DisGeNET Gene-Phenotype Associations phenotypes associated with HDGFL2 gene in GWAS and other genetic association datasets from the DisGeNET Gene-Phenoptype Associations dataset.
GO Biological Process Annotations 2023 biological processes involving HDGFL2 gene from the curated GO Biological Process Annotations 2023 dataset.
GO Biological Process Annotations 2025 biological processes involving HDGFL2 gene from the curated GO Biological Process Annotations2025 dataset.
GO Cellular Component Annotations 2023 cellular components containing HDGFL2 protein from the curated GO Cellular Component Annotations 2023 dataset.
GO Cellular Component Annotations 2025 cellular components containing HDGFL2 protein from the curated GO Cellular Component Annotations 2025 dataset.
GO Molecular Function Annotations 2023 molecular functions performed by HDGFL2 gene from the curated GO Molecular Function Annotations 2023 dataset.
GO Molecular Function Annotations 2025 molecular functions performed by HDGFL2 gene from the curated GO Molecular Function Annotations 2025 dataset.
GTEx eQTL 2025 SNPs regulating expression of HDGFL2 gene from the GTEx eQTL 2025 dataset.
GWAS Catalog SNP-Phenotype Associations 2025 phenotypes associated with HDGFL2 gene in GWAS datasets from the GWAS Catalog SNP-Phenotype Associations 2025 dataset.
IMPC Knockout Mouse Phenotypes phenotypes of mice caused by HDGFL2 gene knockout from the IMPC Knockout Mouse Phenotypes dataset.
JASPAR Predicted Human Transcription Factor Targets 2025 transcription factors regulating expression of HDGFL2 gene predicted using known transcription factor binding site motifs from the JASPAR Predicted Human Transcription Factor Targets dataset.
JASPAR Predicted Mouse Transcription Factor Targets 2025 transcription factors regulating expression of HDGFL2 gene predicted using known transcription factor binding site motifs from the JASPAR Predicted Mouse Transcription Factor Targets 2025 dataset.
MGI Mouse Phenotype Associations 2023 phenotypes of transgenic mice caused by HDGFL2 gene mutations from the MGI Mouse Phenotype Associations 2023 dataset.
MoTrPAC Rat Endurance Exercise Training tissue samples with high or low expression of HDGFL2 gene relative to other tissue samples from the MoTrPAC Rat Endurance Exercise Training dataset.
NIBR DRUG-seq U2OS MoA Box Gene Expression Profiles drug perturbations changing expression of HDGFL2 gene from the NIBR DRUG-seq U2OS MoA Box dataset.
Replogle et al., Cell, 2022 K562 Essential Perturb-seq Gene Perturbation Signatures gene perturbations changing expression of HDGFL2 gene from the Replogle et al., Cell, 2022 K562 Essential Perturb-seq Gene Perturbation Signatures dataset.
Replogle et al., Cell, 2022 K562 Genome-wide Perturb-seq Gene Perturbation Signatures gene perturbations changing expression of HDGFL2 gene from the Replogle et al., Cell, 2022 K562 Genome-wide Perturb-seq Gene Perturbation Signatures dataset.
Rummagene Transcription Factor Associations 2026 transcription factors regulating expression of HDGFL2 gene from the Rummagene Transcription Factor Associations 2026 dataset.
RummaGEO Drug Perturbation Signatures drug perturbations changing expression of HDGFL2 gene from the RummaGEO Drug Perturbation Signatures dataset.
RummaGEO Gene Perturbation Signatures gene perturbations changing expression of HDGFL2 gene from the RummaGEO Gene Perturbation Signatures dataset.
Sci-Plex Drug Perturbation Signatures drug perturbations changing expression of HDGFL2 gene from the Sci-Plex Drug Perturbation Signatures dataset.
TISSUES Curated Tissue Protein Expression Evidence Scores 2025 tissues with high expression of HDGFL2 protein from the TISSUES Curated Tissue Protein Expression Evidence Scores 2025 dataset.
TISSUES Experimental Tissue Protein Expression Evidence Scores 2025 tissues with high expression of HDGFL2 protein in proteomics datasets from the TISSUES Experimental Tissue Protein Expression Evidence Scores 2025 dataset.
TISSUES Text-mining Tissue Protein Expression Evidence Scores 2025 tissues co-occuring with HDGFL2 protein in abstracts of biomedical publications from the TISSUES Text-mining Tissue Protein Expression Evidence Scores 2025 dataset.