{"database":"ENA","file_versions":[{"headers":{"Content-Type":["application/json"]},"body":{"files":{"Fastqsanger.gz":["ftp://ftp.sra.ebi.ac.uk/vol1/fastq/SRR527/005/SRR5274815/SRR5274815.fastq.gz","ftp://ftp.sra.ebi.ac.uk/vol1/fastq/SRR527/007/SRR5274817/SRR5274817.fastq.gz","ftp://ftp.sra.ebi.ac.uk/vol1/fastq/SRR527/003/SRR5274813/SRR5274813.fastq.gz","ftp://ftp.sra.ebi.ac.uk/vol1/fastq/SRR527/004/SRR5274814/SRR5274814.fastq.gz","ftp://ftp.sra.ebi.ac.uk/vol1/fastq/SRR527/008/SRR5274818/SRR5274818.fastq.gz","ftp://ftp.sra.ebi.ac.uk/vol1/fastq/SRR527/001/SRR5274811/SRR5274811.fastq.gz","ftp://ftp.sra.ebi.ac.uk/vol1/fastq/SRR527/000/SRR5274810/SRR5274810.fastq.gz","ftp://ftp.sra.ebi.ac.uk/vol1/fastq/SRR527/009/SRR5274809/SRR5274809.fastq.gz","ftp://ftp.sra.ebi.ac.uk/vol1/fastq/SRR527/002/SRR5274812/SRR5274812.fastq.gz","ftp://ftp.sra.ebi.ac.uk/vol1/fastq/SRR527/006/SRR5274816/SRR5274816.fastq.gz"]},"type":"primary"},"statusCode":"OK","statusCodeValue":200}],"scores":null,"additional":{"omics_type":["Genomics"],"center_name":["Institutes of Biomedical Sciences, Fudan University"],"full_dataset_link":["https://www.ebi.ac.uk/ena/browser/view/PRJNA376127"],"scientific_name":["Mus musculus"],"tag":["xref:PubMed:29273625"],"long_description":["Higher-order chromatin conformation plays critical role in regulating gene expression and biological development, here we show that HNRNPU, a nuclear matrix attachment factor, is a regulator of 3D genome architecture at multiple levels in mouse hepatocytes. We demonstrate that depletion of HNRNPU results into a global reorganization of nuclear bodies and re-localization of chromatin towards nuclear periphery. Additionally, upon HNRNPU depletion, chromatin interactions between A-type (active) and B-type (inactive) compartments increase significantly but those among same types of compartments decrease significantly, which associate with global gene expression changes. While TADs remain largely invariant, both inter- and intra-TAD interactions increase significantly in A-type compartments but decrease in B-type compartments. Mechanically, HNRNPU complexes with structural proteins CTCF and RAD21 depletion of HNRNPU specifically weakens the bindings of RAD21 to the chromatin, which is highly correlated with the weakness of chromatin loops. Overall design: ChIP-seq data of CTCF, RAD21 in Ctrl and HNRNPU KD AML12 cells."],"repository":["ENA"],"description_synonyms":["HITS-CLIP, High Throughput Sequencing of RNA Isolated by Crosslinking Immunoprecipitation, Chromatin Immunoprecipitation Sequencing Chip, RCG20317, ChIP-Chip, Chromatin Immuno precipitation Sequencing, Protein Hnrnpu, Chromatin Immuno-precipitation, Genomes, Scaffold, ChIP, Chromatin Immunoprecipitation Paired End Tag, Cross Linking and Immunoprecipitation Followed by Deep Sequencing, Chromatin Immuno Precipitation Paired End Tag, Cross-Linking and Immunoprecipitation Followed by Deep Sequencing, Nuclear Scaffold, Matrix, ChIP Sequencing, Chromatin Immunoprecipitation, CLIP-Seq, Chromatin Immuno-precipitation Sequencing, whole genome, Assay for Transposase-Accessible Chromatin Using Sequencing, ChIP Exonuclease, Matrices, ChIP-PET, ChIP-Seq, isoform CRA_b, Sequencing, ChIP-Exo, Assay for Transposase Accessible Chromatin Using Sequencing, Chromatin Immunoprecipitation Paired-End Tag, Nucleoskeleton, Nucleoskeletons, ChIA-PET., Chromatin Immuno-Precipitation Paired-End Tag, ATAC-Seq, Chromatin Immunoprecipitation Sequencing-Chips, Chromatin Immunoprecipitation Sequencing-Chip, Nuclear Matrices, Nuclear, High-Throughput Sequencing of RNA Isolated by Crosslinking Immunoprecipitation, nucleoskeleton, regulator, ChIP-Exonuclease, Scaffolds, Nuclear Scaffolds"],"name_synonyms":["Mus musculus, Laboratory Mice., House, Mus, Laboratory, Swiss, Mus domesticus, mouse, Mus musculus domesticus, Swiss Mouse, mouse <Mus musculus>, Mouse, House Mice, Swiss Mice, house mouse, Mice, Laboratory Mouse, House Mouse, mice C57BL/6xCBA/CaJ hybrid, domesticus, Mus muscaris"],"additional_accession":[]},"is_claimable":false,"name":"Mus musculus","description":"The nuclear matrix associating protein HNRNPU functions as a key regulator of 3D genome architecture [ChIP-Seq 1]","dates":{"last_updated":"2025-09-24","first_public":"2017-12-04"},"accession":"PRJNA376127","cross_references":{"GEO":["GSE95113"],"taxon":["10090"],"PubMed":["29273625"]}}