CTCF Is Essential for the Development and Maintenance of CALM-AF10-Induced Leukemia.

Authors: Kuroki Y; Center for Translational Research, Fujita Health University, Aichi, Japan.; Division of Hematological Malignancy, National Cancer Center Research Institute, Tokyo, Japan.; Course of Advanced Clinical Research of Cancer, Juntendo University Graduate School of Medicine, Tokyo, Japan., Yamagata K; Division of Hematological Malignancy, National Cancer Center Research Institute, Tokyo, Japan.; Department of Biochemistry, Fujita Health University, Aichi, Japan., Aikawa Y; Division of Hematological Malignancy, National Cancer Center Research Institute, Tokyo, Japan., Shima Y; Center for Translational Research, Fujita Health University, Aichi, Japan.; Division of Hematological Malignancy, National Cancer Center Research Institute, Tokyo, Japan., Shioneri H; Center for Translational Research, Fujita Health University, Aichi, Japan.; Oncology Innovation Center, Fujita Health University, Aichi, Japan., Kitabayashi I; Center for Translational Research, Fujita Health University, Aichi, Japan.; Division of Hematological Malignancy, National Cancer Center Research Institute, Tokyo, Japan.; Course of Advanced Clinical Research of Cancer, Juntendo University Graduate School of Medicine, Tokyo, Japan.; Oncology Innovation Center, Fujita Health University, Aichi, Japan.

Source: Cancer science [Cancer Sci] 2025 Nov; Vol. 116 (11), pp. 3016-3026. Date of Electronic Publication: 2025 Aug 28.

Publication Type: Journal Article

Journal Info: Publisher: Wiley Publishing on behalf of the Japanese Cancer Association Country of Publication: England NLM ID: 101168776 Publication Model: Print-Electronic Cited Medium: Internet ISSN: 1349-7006 (Electronic) Linking ISSN: 13479032 NLM ISO Abbreviation: Cancer Sci Subsets: MEDLINE

MeSH Terms: CCCTC-Binding Factor*/genetics , CCCTC-Binding Factor*/metabolism , Oncogene Proteins, Fusion*/genetics , Oncogene Proteins, Fusion*/metabolism , Leukemia, Myeloid, Acute*/genetics , Leukemia, Myeloid, Acute*/pathology , Leukemia, Myeloid, Acute*/metabolism, Animals ; Mice ; Humans ; Protein Glutamine gamma Glutamyltransferase 2 ; Transglutaminases/genetics ; Transglutaminases/metabolism ; Cell Line, Tumor ; Histones/metabolism ; GTP-Binding Proteins/genetics ; GTP-Binding Proteins/metabolism ; Cell Differentiation/genetics ; Gene Expression Regulation, Leukemic ; Mice, Knockout

Single-cell multiomics analysis reveals CTCF as a key regulator of lung morphogenesis and progenitor maintenance.

Authors: Sun S; State Key Laboratory of Reproductive Regulation and Breeding of Grassland Livestock, Institutes of Biomedical Sciences, School of Life Sciences, Inner Mongolia University, Hohhot, China. 111991070@imu.edu.cn., Jiang Y; State Key Laboratory of Genetics and Development of Complex Phenotypes, Greater Bay Area Institute of Precision Medicine (Guangzhou), School of Life Sciences, Shanghai Key Laboratory of Lung Inflammation and Injury, Zhongshan Hospital, Fudan University, Shanghai, China.; School of Data Science, The Chinese University of Hong Kong-Shenzhen, Shenzhen, China., Huang F; State Key Laboratory of Genetics and Development of Complex Phenotypes, Greater Bay Area Institute of Precision Medicine (Guangzhou), School of Life Sciences, Shanghai Key Laboratory of Lung Inflammation and Injury, Zhongshan Hospital, Fudan University, Shanghai, China., Wei W; State Key Laboratory of Genetics and Development of Complex Phenotypes, Greater Bay Area Institute of Precision Medicine (Guangzhou), School of Life Sciences, Shanghai Key Laboratory of Lung Inflammation and Injury, Zhongshan Hospital, Fudan University, Shanghai, China., Hochgerner M; State Key Laboratory of Genetics and Development of Complex Phenotypes, Greater Bay Area Institute of Precision Medicine (Guangzhou), School of Life Sciences, Shanghai Key Laboratory of Lung Inflammation and Injury, Zhongshan Hospital, Fudan University, Shanghai, China.; Human Phenome Institute, Fudan University, Shanghai, China., Xu T; State Key Laboratory of Genetics and Development of Complex Phenotypes, Greater Bay Area Institute of Precision Medicine (Guangzhou), School of Life Sciences, Shanghai Key Laboratory of Lung Inflammation and Injury, Zhongshan Hospital, Fudan University, Shanghai, China., Wang X; State Key Laboratory of Genetics and Development of Complex Phenotypes, Greater Bay Area Institute of Precision Medicine (Guangzhou), School of Life Sciences, Shanghai Key Laboratory of Lung Inflammation and Injury, Zhongshan Hospital, Fudan University, Shanghai, China., Lin K; State Key Laboratory of Genetics and Development of Complex Phenotypes, Greater Bay Area Institute of Precision Medicine (Guangzhou), School of Life Sciences, Shanghai Key Laboratory of Lung Inflammation and Injury, Zhongshan Hospital, Fudan University, Shanghai, China., Zhang X; State Key Laboratory of Reproductive Regulation and Breeding of Grassland Livestock, Institutes of Biomedical Sciences, School of Life Sciences, Inner Mongolia University, Hohhot, China., Wang Y; State Key Laboratory of Reproductive Regulation and Breeding of Grassland Livestock, Institutes of Biomedical Sciences, School of Life Sciences, Inner Mongolia University, Hohhot, China., He H; The Joint Laboratory for Lung Development and Related Diseases of West China Second University Hospital, Sichuan University and School of Life Sciences of Fudan University, Chengdu, China., Yu M; State Key Laboratory of Genetics and Development of Complex Phenotypes, School of Life Sciences, Fudan University, Shanghai, China. miaoyu@fudan.edu.cn., Tang X; State Key Laboratory of Genetics and Development of Complex Phenotypes, Greater Bay Area Institute of Precision Medicine (Guangzhou), School of Life Sciences, Shanghai Key Laboratory of Lung Inflammation and Injury, Zhongshan Hospital, Fudan University, Shanghai, China. tangxiaofang@ipm-gba.org.cn., Lin X; State Key Laboratory of Reproductive Regulation and Breeding of Grassland Livestock, Institutes of Biomedical Sciences, School of Life Sciences, Inner Mongolia University, Hohhot, China. xlin@fudan.edu.cn.; State Key Laboratory of Genetics and Development of Complex Phenotypes, Greater Bay Area Institute of Precision Medicine (Guangzhou), School of Life Sciences, Shanghai Key Laboratory of Lung Inflammation and Injury, Zhongshan Hospital, Fudan University, Shanghai, China. xlin@fudan.edu.cn.; The Joint Laboratory for Lung Development and Related Diseases of West China Second University Hospital, Sichuan University and School of Life Sciences of Fudan University, Chengdu, China. xlin@fudan.edu.cn.

Source: Nature communications [Nat Commun] 2025 Nov 28; Vol. 16 (1), pp. 10729. Date of Electronic Publication: 2025 Nov 28.

Publication Type: Journal Article

Journal Info: Publisher: Nature Pub. Group Country of Publication: England NLM ID: 101528555 Publication Model: Electronic Cited Medium: Internet ISSN: 2041-1723 (Electronic) Linking ISSN: 20411723 NLM ISO Abbreviation: Nat Commun Subsets: MEDLINE

MeSH Terms: CCCTC-Binding Factor*/genetics , CCCTC-Binding Factor*/metabolism , Lung*/embryology , Lung*/metabolism , Lung*/cytology , Morphogenesis*/genetics , Stem Cells*/metabolism , Stem Cells*/cytology, Animals ; Mice ; Single-Cell Analysis/methods ; Mice, Knockout ; Gene Expression Regulation, Developmental ; Chromatin/metabolism ; Gene Regulatory Networks ; Cell Differentiation/genetics ; Organogenesis/genetics ; Transcription Factors/metabolism ; Transcription Factors/genetics ; Multiomics

CTCF-RNA interactions orchestrate cell-specific chromatin loop organization.

Authors: Lucero K; Department of Cell Biology and Regenerative Medicine, New York University Langone Medical Center, New York, NY, USA.; Department of Biochemistry and Molecular Pharmacology, New York University Langone Medical Center, New York, NY, USA., Han S; Department of Biochemistry and Molecular Pharmacology, New York University Langone Medical Center, New York, NY, USA.; Sylvester Comprehensive Cancer Center, Department of Human Genetics, University of Miami Miller School of Medicine, Miami, FL, USA.; Howard Hughes Medical Institute, University of Miami Miller School of Medicine, Miami, FL, USA., Huang PY; Department of Biochemistry and Molecular Pharmacology, New York University Langone Medical Center, New York, NY, USA., Qiu X; Department of Biochemistry and Molecular Pharmacology, New York University Langone Medical Center, New York, NY, USA., Mazzoni EO; Department of Cell Biology and Regenerative Medicine, New York University Langone Medical Center, New York, NY, USA., Reinberg D; Department of Biochemistry and Molecular Pharmacology, New York University Langone Medical Center, New York, NY, USA.; Sylvester Comprehensive Cancer Center, Department of Human Genetics, University of Miami Miller School of Medicine, Miami, FL, USA.; Howard Hughes Medical Institute, University of Miami Miller School of Medicine, Miami, FL, USA.

Source: Science advances [Sci Adv] 2025 Nov 28; Vol. 11 (48), pp. eady5507. Date of Electronic Publication: 2025 Nov 26.

Publication Type: Journal Article

Journal Info: Publisher: American Association for the Advancement of Science Country of Publication: United States NLM ID: 101653440 Publication Model: Print-Electronic Cited Medium: Internet ISSN: 2375-2548 (Electronic) Linking ISSN: 23752548 NLM ISO Abbreviation: Sci Adv Subsets: MEDLINE

MeSH Terms: CCCTC-Binding Factor*/metabolism , CCCTC-Binding Factor*/genetics , Chromatin*/metabolism , Chromatin*/chemistry , Chromatin*/genetics , RNA*/metabolism , RNA*/genetics, Animals ; Mice ; Cell Differentiation/genetics ; Mouse Embryonic Stem Cells/metabolism ; Mouse Embryonic Stem Cells/cytology ; Protein Binding ; Neural Stem Cells/metabolism ; Neural Stem Cells/cytology ; Embryonic Stem Cells/metabolism ; Embryonic Stem Cells/cytology

Cistromic insight into the association of retinoid X receptor with MyoD and CTCF in proliferating myoblasts.

Authors: Clément JT; Department of Cellular and Molecular Medicine, Faculty of Medicine, University of Ottawa, 451 Smyth Road, Room 2537,, Ottawa, K1H 8M5, ON, Canada., Li Q; Department of Cellular and Molecular Medicine, Faculty of Medicine, University of Ottawa, 451 Smyth Road, Room 2537,, Ottawa, K1H 8M5, ON, Canada. qli@uottawa.ca.

Source: Scientific reports [Sci Rep] 2025 Nov 06; Vol. 15 (1), pp. 38919. Date of Electronic Publication: 2025 Nov 06.

Publication Type: Journal Article

Journal Info: Publisher: Nature Publishing Group Country of Publication: England NLM ID: 101563288 Publication Model: Electronic Cited Medium: Internet ISSN: 2045-2322 (Electronic) Linking ISSN: 20452322 NLM ISO Abbreviation: Sci Rep Subsets: MEDLINE

MeSH Terms: MyoD Protein*/metabolism , MyoD Protein*/genetics , CCCTC-Binding Factor*/metabolism , CCCTC-Binding Factor*/genetics , Retinoid X Receptors*/metabolism , Retinoid X Receptors*/genetics , Myoblasts*/metabolism , Myoblasts*/cytology, Cell Proliferation ; Animals ; Mice ; Promoter Regions, Genetic ; Acetylation ; Histones/metabolism ; Protein Binding ; Humans ; Cell Line ; Chromatin/metabolism

CTCF Mediates the Cis-Regulatory Hubs in Mouse Hearts.

Authors: Lee M; Cardiovascular Disease Translational Research Programme, Yong Loo Lin School of Medicine, National University of Singapore, Singapore 117599, Singapore.; Genome Institute of Singapore, A*STAR, Singapore 138672, Singapore., Mangnier L; Centre de Recherche CERVO, Québec, QC G1E 1T2, Canada.; Département de Médecine Sociale et Préventive, Université Laval, Québec, QC G1V 0A6, Canada.; Centre de Recherche en Données Massives de l'Université Laval, Québec, QC G1V 0A6, Canada.; Centre de Recherche du Centre Hospitalier Universitaire de Québec, Université Laval, Axe Oncologie, Québec, QC G1R 3S3, Canada., Padilla CC; Cantata Bio, 100 Enterprise Way Suite A-101, Scotts Valley, CA 95066, USA., Lee DP; Cardiovascular Disease Translational Research Programme, Yong Loo Lin School of Medicine, National University of Singapore, Singapore 117599, Singapore.; Genome Institute of Singapore, A*STAR, Singapore 138672, Singapore., Tan W; Cardiovascular Disease Translational Research Programme, Yong Loo Lin School of Medicine, National University of Singapore, Singapore 117599, Singapore.; Genome Institute of Singapore, A*STAR, Singapore 138672, Singapore., Zheng WH; Cardiovascular Disease Translational Research Programme, Yong Loo Lin School of Medicine, National University of Singapore, Singapore 117599, Singapore.; Genome Institute of Singapore, A*STAR, Singapore 138672, Singapore., Gan LH; Cardiovascular Disease Translational Research Programme, Yong Loo Lin School of Medicine, National University of Singapore, Singapore 117599, Singapore.; Genome Institute of Singapore, A*STAR, Singapore 138672, Singapore., Chen CK; Cardiovascular Disease Translational Research Programme, Yong Loo Lin School of Medicine, National University of Singapore, Singapore 117599, Singapore.; Genome Institute of Singapore, A*STAR, Singapore 138672, Singapore.; Department of Paediatrics, Yong Loo Lin School of Medicine, National University of Singapore, Singapore 119228, Singapore.; Khoo Teck Puat-National University Children's Medical Institute, National University of Singapore, Singapore 119074, Singapore., Lim YP; Cardiovascular Disease Translational Research Programme, Yong Loo Lin School of Medicine, National University of Singapore, Singapore 117599, Singapore.; Genome Institute of Singapore, A*STAR, Singapore 138672, Singapore.; Department of Paediatrics, Yong Loo Lin School of Medicine, National University of Singapore, Singapore 119228, Singapore., Wang RMQ; Cardiovascular Disease Translational Research Programme, Yong Loo Lin School of Medicine, National University of Singapore, Singapore 117599, Singapore.; Genome Institute of Singapore, A*STAR, Singapore 138672, Singapore.; Department of Paediatrics, Yong Loo Lin School of Medicine, National University of Singapore, Singapore 119228, Singapore., Li PY; Cardiovascular Disease Translational Research Programme, Yong Loo Lin School of Medicine, National University of Singapore, Singapore 117599, Singapore.; Genome Institute of Singapore, A*STAR, Singapore 138672, Singapore., Zhu Y; Montreal Heart Institute, Montreal, QC H1T 1C8, Canada.; Department of Medicine, University of Montreal, Montreal, QC H3T 1J4, Canada., Bilodeau S; Centre de Recherche en Données Massives de l'Université Laval, Québec, QC G1V 0A6, Canada.; Centre de Recherche du Centre Hospitalier Universitaire de Québec, Université Laval, Axe Oncologie, Québec, QC G1R 3S3, Canada.; Centre de Recherche sur le Cancer de l'Université Laval, Québec, QC G1R 3S3, Canada.; Département de Biologie Moléculaire, Biochimie Médicale et Pathologie, Faculté de Médecine, Université Laval, Québec, QC G1V 0A6, Canada., Bureau A; Centre de Recherche CERVO, Québec, QC G1E 1T2, Canada.; Département de Médecine Sociale et Préventive, Université Laval, Québec, QC G1V 0A6, Canada.; Centre de Recherche en Données Massives de l'Université Laval, Québec, QC G1V 0A6, Canada., Foo RS; Cardiovascular Disease Translational Research Programme, Yong Loo Lin School of Medicine, National University of Singapore, Singapore 117599, Singapore.; Genome Institute of Singapore, A*STAR, Singapore 138672, Singapore., Anene-Nzelu CG; Cardiovascular Disease Translational Research Programme, Yong Loo Lin School of Medicine, National University of Singapore, Singapore 117599, Singapore.; Genome Institute of Singapore, A*STAR, Singapore 138672, Singapore.; Montreal Heart Institute, Montreal, QC H1T 1C8, Canada.; Department of Medicine, University of Montreal, Montreal, QC H3T 1J4, Canada.

Source: International journal of molecular sciences [Int J Mol Sci] 2025 Oct 09; Vol. 26 (19). Date of Electronic Publication: 2025 Oct 09.

Publication Type: Journal Article

Journal Info: Publisher: MDPI Country of Publication: Switzerland NLM ID: 101092791 Publication Model: Electronic Cited Medium: Internet ISSN: 1422-0067 (Electronic) Linking ISSN: 14220067 NLM ISO Abbreviation: Int J Mol Sci Subsets: MEDLINE

MeSH Terms: CCCTC-Binding Factor*/metabolism , CCCTC-Binding Factor*/genetics , Gene Regulatory Networks* , Myocardium*/metabolism, Animals ; Mice ; Enhancer Elements, Genetic ; Promoter Regions, Genetic ; Gene Expression Regulation ; Chromatin/genetics ; Chromatin/metabolism

Multiple long-range cis interactions generate CTCF insulator-dependent viral chromatin domains in quiescent HSV-1 genomes.

Authors: Richman A; Department of Biomedical and Health Sciences, University of Vermont, Burlington, Vermont, USA., Kogut S; Department of Biomedical and Health Sciences, University of Vermont, Burlington, Vermont, USA., Edwards T; Department of Molecular Genetics and Microbiology, University of Florida, Gainesville, Florida, USA., Boyd J; Department of Biomedical and Health Sciences, University of Vermont, Burlington, Vermont, USA., Rodriguez P; Department of Biomedical and Health Sciences, University of Vermont, Burlington, Vermont, USA., Mariani M; Department of Biomedical and Health Sciences, University of Vermont, Burlington, Vermont, USA., Shipley MA; Department of Ophthalmology and Visual Sciences, University of Wisconsin-Madison, Madison, Wisconsin, USA., Manuel KA; Department of Ophthalmology and Visual Sciences, University of Wisconsin-Madison, Madison, Wisconsin, USA., Ye ZA; Department of Ophthalmology and Visual Sciences, University of Wisconsin-Madison, Madison, Wisconsin, USA., Bloom DC; Department of Molecular Genetics and Microbiology, University of Florida, Gainesville, Florida, USA., Frietze S; Department of Biomedical and Health Sciences, University of Vermont, Burlington, Vermont, USA., Neumann DM; Department of Ophthalmology and Visual Sciences, University of Wisconsin-Madison, Madison, Wisconsin, USA.

Source: MBio [mBio] 2025 Oct 08; Vol. 16 (10), pp. e0163825. Date of Electronic Publication: 2025 Aug 28.

Publication Type: Journal Article

Journal Info: Publisher: American Society for Microbiology Country of Publication: United States NLM ID: 101519231 Publication Model: Print-Electronic Cited Medium: Internet ISSN: 2150-7511 (Electronic) NLM ISO Abbreviation: mBio Subsets: MEDLINE

MeSH Terms: Herpesvirus 1, Human*/genetics , Herpesvirus 1, Human*/physiology , CCCTC-Binding Factor*/metabolism , CCCTC-Binding Factor*/genetics , Chromatin*/metabolism , Chromatin*/genetics , Genome, Viral* , Insulator Elements*, Humans ; Gene Expression Regulation, Viral ; Virus Latency ; Animals

H3K27 and H3K9 methylation mask potential CTCF binding sites to maintain 3D genome integrity.

Authors: Fukuda K; Cellular Memory Laboratory, RIKEN Cluster for Pioneering Research, Wako 351-0198, Japan; yshinkai@riken.jp k.fukuda@yamanashi.ac.jp.; Faculty of Life and Environmental Sciences, University of Yamanashi, Yamanashi 400-8510, Japan., Shimura C; Cellular Memory Laboratory, RIKEN Cluster for Pioneering Research, Wako 351-0198, Japan., Shinkai Y; Cellular Memory Laboratory, RIKEN Cluster for Pioneering Research, Wako 351-0198, Japan; yshinkai@riken.jp k.fukuda@yamanashi.ac.jp.

Source: Genome research [Genome Res] 2025 Oct 01; Vol. 35 (10), pp. 2199-2210. Date of Electronic Publication: 2025 Oct 01.

Publication Type: Journal Article

Journal Info: Publisher: Cold Spring Harbor Laboratory Press Country of Publication: United States NLM ID: 9518021 Publication Model: Electronic Cited Medium: Internet ISSN: 1549-5469 (Electronic) Linking ISSN: 10889051 NLM ISO Abbreviation: Genome Res Subsets: MEDLINE

MeSH Terms: CCCTC-Binding Factor*/metabolism , CCCTC-Binding Factor*/genetics , Histones*/metabolism , Genome*, Animals ; Mice ; Binding Sites ; Methylation ; Chromatin/metabolism ; Chromatin/genetics ; Protein Binding ; Fibroblasts/metabolism ; DNA Methylation

T cell-intrinsic cGAS-CTCF regulation maintains regulatory T cell development and function.

Authors: Li H; State Key Laboratory of Membrane Biology, School of Pharmaceutical Sciences, Tsinghua-Peking Center for Life Sciences, Key Laboratory of Bioorganic Phosphorous chemistry and Chemical Biology (Ministry of Education), Tsinghua University, Beijing 100084, China; School of Medicine, Tsinghua University, Beijing 100084, China., Zhang Y; State Key Laboratory of Membrane Biology, School of Pharmaceutical Sciences, Tsinghua-Peking Center for Life Sciences, Key Laboratory of Bioorganic Phosphorous chemistry and Chemical Biology (Ministry of Education), Tsinghua University, Beijing 100084, China., Gao S; State Key Laboratory of Membrane Biology, School of Pharmaceutical Sciences, Tsinghua-Peking Center for Life Sciences, Key Laboratory of Bioorganic Phosphorous chemistry and Chemical Biology (Ministry of Education), Tsinghua University, Beijing 100084, China., Yin H; State Key Laboratory of Membrane Biology, School of Pharmaceutical Sciences, Tsinghua-Peking Center for Life Sciences, Key Laboratory of Bioorganic Phosphorous chemistry and Chemical Biology (Ministry of Education), Tsinghua University, Beijing 100084, China. Electronic address: yin_hang@tsinghua.edu.cn.

Source: Cell reports [Cell Rep] 2025 Oct 28; Vol. 44 (10), pp. 116302. Date of Electronic Publication: 2025 Sep 16.

Publication Type: Journal Article

Journal Info: Publisher: Cell Press Country of Publication: United States NLM ID: 101573691 Publication Model: Print-Electronic Cited Medium: Internet ISSN: 2211-1247 (Electronic) NLM ISO Abbreviation: Cell Rep Subsets: MEDLINE

MeSH Terms: T-Lymphocytes, Regulatory*/immunology , T-Lymphocytes, Regulatory*/metabolism , T-Lymphocytes, Regulatory*/cytology , Nucleotidyltransferases*/metabolism , Nucleotidyltransferases*/genetics , CCCTC-Binding Factor*/metabolism, Animals ; Mice ; Mice, Knockout ; Mice, Inbred C57BL ; Cell Differentiation ; Forkhead Transcription Factors/metabolism ; Membrane Proteins/metabolism ; Signal Transduction

Essential roles of CTCF binding sites at TAD boundaries in modulating chromatin interactions and transcriptional regulation at the Ifng locus.

Authors: Muto K; Radioisotope Research Center, Fukushima Medical University School of Medicine, Fukushima, Japan.; Department of Emergency and Critical Care Medicine, Fukushima Medical University School of Medicine, Fukushima, Japan., Yoshida D; Radioisotope Research Center, Fukushima Medical University School of Medicine, Fukushima, Japan., Suzuki T; Radioisotope Research Center, Fukushima Medical University School of Medicine, Fukushima, Japan., Yamamoto N; Sendai City Public Health Center, Miyagi, Japan., Inoue N; Department of Cell Science, Institute of Biomedical Sciences, Fukushima Medical University School of Medicine, Fukushima, Japan., Murakami-Sekimata A; Department of Life Sciences and Nursing, Fukushima Medical University School of Nursing, Fukushima, Japan., Iseki K; Department of Emergency and Critical Care Medicine, Fukushima Medical University School of Medicine, Fukushima, Japan., Sekimata M; Radioisotope Research Center, Fukushima Medical University School of Medicine, Fukushima, Japan.

Source: Frontiers in immunology [Front Immunol] 2025 Sep 26; Vol. 16, pp. 1667851. Date of Electronic Publication: 2025 Sep 26 (Print Publication: 2025).

Publication Type: Journal Article

Journal Info: Publisher: Frontiers Research Foundation] Country of Publication: Switzerland NLM ID: 101560960 Publication Model: eCollection Cited Medium: Internet ISSN: 1664-3224 (Electronic) Linking ISSN: 16643224 NLM ISO Abbreviation: Front Immunol Subsets: MEDLINE

MeSH Terms: CCCTC-Binding Factor*/metabolism , CCCTC-Binding Factor*/genetics , Interferon-gamma*/genetics , Interferon-gamma*/metabolism , Chromatin*/metabolism , Chromatin*/genetics , Chromatin*/immunology , Gene Expression Regulation*, Animals ; Mice ; Binding Sites ; Promoter Regions, Genetic ; Mice, Inbred C57BL ; Enhancer Elements, Genetic ; Melanoma, Experimental/immunology ; Melanoma, Experimental/genetics ; Th1 Cells/immunology ; Transcription, Genetic

PBK/TOPK mediates Ikaros, Aiolos and CTCF displacement from mitotic chromosomes and alters chromatin accessibility at selected C2H2-zinc finger protein binding sites.

Authors: Dimond A; Epigenetic Memory Group, MRC LMS, Imperial College London, Hammersmith Hospital Campus, London, UK. andrew.dimond@bioch.ox.ac.uk.; Department of Biochemistry, University of Oxford, Oxford, UK. andrew.dimond@bioch.ox.ac.uk., Gim DH; Epigenetic Memory Group, MRC LMS, Imperial College London, Hammersmith Hospital Campus, London, UK., Ing-Simmons E; Developmental Epigenomics Group, MRC LMS, Imperial College London, Hammersmith Hospital Campus, London, UK., Whilding C; Microscopy Facility, MRC LMS, Imperial College London, Hammersmith Hospital Campus, London, UK., Kramer HB; Mass Spectrometry Facility, MRC LMB, Francis Crick Avenue, Cambridge Biomedical Campus, Cambridge, UK., Djeghloul D; Epigenetic Memory Group, MRC LMS, Imperial College London, Hammersmith Hospital Campus, London, UK.; Department of Biochemistry, University of Oxford, Oxford, UK., Montoya A; Proteomics and Metabolomics Facility, MRC LMS, Imperial College London, Hammersmith Hospital Campus, London, UK., Patel B; Flow Cytometry Facility, MRC LMS, Imperial College London, Hammersmith Hospital Campus, London, UK., Cheriyamkunnel S; Epigenetic Memory Group, MRC LMS, Imperial College London, Hammersmith Hospital Campus, London, UK.; Department of Biochemistry, University of Oxford, Oxford, UK., Brown KE; Epigenetic Memory Group, MRC LMS, Imperial College London, Hammersmith Hospital Campus, London, UK.; Department of Biochemistry, University of Oxford, Oxford, UK., Shliaha PV; Proteomics and Metabolomics Facility, MRC LMS, Imperial College London, Hammersmith Hospital Campus, London, UK., Vaquerizas JM; Developmental Epigenomics Group, MRC LMS, Imperial College London, Hammersmith Hospital Campus, London, UK., Merkenschlager M; Lymphocyte Development Group, MRC LMS, Imperial College London, Hammersmith Hospital Campus, London, UK., Fisher AG; Epigenetic Memory Group, MRC LMS, Imperial College London, Hammersmith Hospital Campus, London, UK. amanda.fisher@bioch.ox.ac.uk.; Department of Biochemistry, University of Oxford, Oxford, UK. amanda.fisher@bioch.ox.ac.uk.

Source: Nature communications [Nat Commun] 2025 Sep 23; Vol. 16 (1), pp. 8348. Date of Electronic Publication: 2025 Sep 23.

Publication Type: Journal Article

Journal Info: Publisher: Nature Pub. Group Country of Publication: England NLM ID: 101528555 Publication Model: Electronic Cited Medium: Internet ISSN: 2041-1723 (Electronic) Linking ISSN: 20411723 NLM ISO Abbreviation: Nat Commun Subsets: MEDLINE

MeSH Terms: Ikaros Transcription Factor*/metabolism , Ikaros Transcription Factor*/genetics , CCCTC-Binding Factor*/metabolism , CCCTC-Binding Factor*/genetics , Mitosis* , Chromatin*/metabolism, Humans ; Binding Sites ; Phosphorylation ; Animals ; Zinc Fingers ; Mice ; Transcription Factors/metabolism ; DNA-Binding Proteins/metabolism ; Protein Binding

DNA methylation insulates genic regions from CTCF loops near nuclear speckles.

Authors: Roseman SA; Harvard University Department of Chemistry and Chemical Biology, Cambridge, United States.; Broad Institute of MIT and Harvard, Cambridge, United States.; Dana-Farber Cancer Institute, Boston, United States., Siegenfeld AP; Harvard University Department of Chemistry and Chemical Biology, Cambridge, United States.; Broad Institute of MIT and Harvard, Cambridge, United States.; Harvard Medical School, Boston, United States., Lee C; Harvard University Department of Chemistry and Chemical Biology, Cambridge, United States.; Broad Institute of MIT and Harvard, Cambridge, United States., Lue NZ; Harvard University Department of Chemistry and Chemical Biology, Cambridge, United States.; Broad Institute of MIT and Harvard, Cambridge, United States.; University of California, Berkeley, Berkeley, United States., Waterbury AL; Harvard University Department of Chemistry and Chemical Biology, Cambridge, United States.; Broad Institute of MIT and Harvard, Cambridge, United States., Liau BB; Harvard University Department of Chemistry and Chemical Biology, Cambridge, United States.; Broad Institute of MIT and Harvard, Cambridge, United States.

Source: ELife [Elife] 2025 Sep 03; Vol. 13. Date of Electronic Publication: 2025 Sep 03.

Publication Type: Journal Article

Journal Info: Publisher: eLife Sciences Publications, Ltd Country of Publication: England NLM ID: 101579614 Publication Model: Electronic Cited Medium: Internet ISSN: 2050-084X (Electronic) Linking ISSN: 2050084X NLM ISO Abbreviation: Elife Subsets: MEDLINE

MeSH Terms: CCCTC-Binding Factor*/metabolism , CCCTC-Binding Factor*/genetics , DNA Methylation* , Cell Nucleus*/metabolism, Humans ; DNA (Cytosine-5-)-Methyltransferase 1/metabolism ; DNA (Cytosine-5-)-Methyltransferase 1/antagonists & inhibitors ; Chromatin/metabolism ; Protein Binding ; Gene Expression Regulation

RNA-binding proteins mediate the maturation of chromatin topology during differentiation.

Authors: Dehingia B; Dioscuri Centre for Chromatin Biology and Epigenomics, Nencki Institute of Experimental Biology, Polish Academy of Sciences, Warsaw, Poland., Milewska-Puchała M; Dioscuri Centre for Chromatin Biology and Epigenomics, Nencki Institute of Experimental Biology, Polish Academy of Sciences, Warsaw, Poland., Janowski M; Dioscuri Centre for Chromatin Biology and Epigenomics, Nencki Institute of Experimental Biology, Polish Academy of Sciences, Warsaw, Poland., Rafiee MR; Genome Biology Unit, European Molecular Biology Laboratory, Heidelberg, Germany.; German Cancer Research Center, Heidelberg, Germany., Abbas M; Dioscuri Centre for Chromatin Biology and Epigenomics, Nencki Institute of Experimental Biology, Polish Academy of Sciences, Warsaw, Poland., Piotrowska A; Dioscuri Centre for Chromatin Biology and Epigenomics, Nencki Institute of Experimental Biology, Polish Academy of Sciences, Warsaw, Poland., Senge J; Dioscuri Centre for Topological Data Analysis, Institute of Mathematics, Polish Academy of Sciences, Warsaw, Poland., Blaut P; Dioscuri Centre for Chromatin Biology and Epigenomics, Nencki Institute of Experimental Biology, Polish Academy of Sciences, Warsaw, Poland., Walsh D; European Molecular Biology Laboratory Imaging Centre, Heidelberg, Germany., Severino J; Genome Biology Unit, European Molecular Biology Laboratory, Heidelberg, Germany.; Centre for Genomic Regulation, The Barcelona Institute of Science and Technology, Barcelona, Spain., Chaudhury D; Dioscuri Centre for Chromatin Biology and Epigenomics, Nencki Institute of Experimental Biology, Polish Academy of Sciences, Warsaw, Poland., Iqbal S; Dioscuri Centre for Chromatin Biology and Epigenomics, Nencki Institute of Experimental Biology, Polish Academy of Sciences, Warsaw, Poland., Montiel-Manriquez R; Dioscuri Centre for Chromatin Biology and Epigenomics, Nencki Institute of Experimental Biology, Polish Academy of Sciences, Warsaw, Poland.; Unidad de Investigación Biomédica en Cáncer, Instituto Nacional de Cancerología-Instituto de Investigaciones Biomédicas, Universidad Nacional Autónoma de México, Mexico City, Mexico., Jankowska S; Dioscuri Centre for Chromatin Biology and Epigenomics, Nencki Institute of Experimental Biology, Polish Academy of Sciences, Warsaw, Poland., Zare P; Dioscuri Centre for Chromatin Biology and Epigenomics, Nencki Institute of Experimental Biology, Polish Academy of Sciences, Warsaw, Poland., Huber W; Genome Biology Unit, European Molecular Biology Laboratory, Heidelberg, Germany., Xu J; Lymphocyte Nuclear Biology, NIAMS, NIH, Bethesda, MD, USA.; Department of Biology, Georgia State University, Atlanta, GA, USA., Casellas R; Lymphocyte Nuclear Biology, NIAMS, NIH, Bethesda, MD, USA.; Department of Hematopoietic Biology and Malignancy, Division of Cancer Medicine, The University of Texas MD Anderson Cancer Center, Houston, TX, USA., Zimmermann T; European Molecular Biology Laboratory Imaging Centre, Heidelberg, Germany., Dłotko P; Dioscuri Centre for Topological Data Analysis, Institute of Mathematics, Polish Academy of Sciences, Warsaw, Poland., Krijgsveld J; Division of Proteomics of Stem Cell and Cancer, German Cancer Research Center, Heidelberg, Germany.; Heidelberg University, Medical Faculty, Heidelberg, Germany., Pękowska A; Dioscuri Centre for Chromatin Biology and Epigenomics, Nencki Institute of Experimental Biology, Polish Academy of Sciences, Warsaw, Poland. a.pekowska@nencki.edu.pl.

Source: Nature cell biology [Nat Cell Biol] 2025 Sep; Vol. 27 (9), pp. 1510-1525. Date of Electronic Publication: 2025 Sep 08.

Publication Type: Journal Article

Journal Info: Publisher: Macmillan Magazines Ltd Country of Publication: England NLM ID: 100890575 Publication Model: Print-Electronic Cited Medium: Internet ISSN: 1476-4679 (Electronic) Linking ISSN: 14657392 NLM ISO Abbreviation: Nat Cell Biol Subsets: MEDLINE

MeSH Terms: CCCTC-Binding Factor*/metabolism , CCCTC-Binding Factor*/genetics , Chromatin*/metabolism , Chromatin*/genetics , Cell Differentiation* , Neural Stem Cells*/metabolism , Neural Stem Cells*/cytology , Mouse Embryonic Stem Cells*/metabolism , Mouse Embryonic Stem Cells*/cytology , RNA-Binding Proteins*/metabolism , RNA-Binding Proteins*/genetics , Chromatin Assembly and Disassembly*, Animals ; Mice ; Gene Expression Regulation, Developmental ; Protein Binding ; Embryonic Stem Cells/metabolism ; Embryonic Stem Cells/cytology ; Neurogenesis

Comprehensive analytical approach identifies a subtype of CTCF+ tumor-associated neutrophils associated with CRC development and as a biomarker for immunotherapy.

Authors: Li JP; Department of Colorectal Surgery, The Affiliated Hospital of Nanjing University of Chinese Medicine, Jiangsu Province Hospital of Chinese Medicine, Nanjing, Jiangsu, 210029, China.; Jiangsu Province Key Laboratory of Tumor Systems Biology and Chinese Medicine, Nanjing, Jiangsu 210029, China., Liu YJ; No. 1 Clinical Medical College, Nanjing University of Chinese Medicine, Nanjing, Jiangsu 210023, China.; Department of Oncology, Affiliated Hospital of Nanjing University of Chinese Medicine, Jiangsu Province Hospital of Chinese Medicine, Nanjing, Jiangsu 210029, China., Zhang Y; No. 1 Clinical Medical College, Nanjing University of Chinese Medicine, Nanjing, Jiangsu 210023, China., Ye QW; No. 1 Clinical Medical College, Nanjing University of Chinese Medicine, Nanjing, Jiangsu 210023, China., Xu G; No. 1 Clinical Medical College, Nanjing University of Chinese Medicine, Nanjing, Jiangsu 210023, China.; Department of Oncology, Affiliated Hospital of Nanjing University of Chinese Medicine, Jiangsu Province Hospital of Chinese Medicine, Nanjing, Jiangsu 210029, China., Chong JC; Department of Colorectal Surgery, The Affiliated Hospital of Nanjing University of Chinese Medicine, Jiangsu Province Hospital of Chinese Medicine, Nanjing, Jiangsu, 210029, China.; No. 1 Clinical Medical College, Nanjing University of Chinese Medicine, Nanjing, Jiangsu 210023, China., Yin Y; No. 1 Clinical Medical College, Nanjing University of Chinese Medicine, Nanjing, Jiangsu 210023, China.; Department of Oncology, Affiliated Hospital of Nanjing University of Chinese Medicine, Jiangsu Province Hospital of Chinese Medicine, Nanjing, Jiangsu 210029, China., Li Y; Department of Endoscopy Center, Affiliated Hospital of Nanjing University of Chinese Medicine, Jiangsu Province Hospital of Chinese Medicine, Nanjing, Jiangsu 210029, China., Wang SS; Department of Colorectal Surgery, The Affiliated Hospital of Nanjing University of Chinese Medicine, Jiangsu Province Hospital of Chinese Medicine, Nanjing, Jiangsu, 210029, China.; No. 1 Clinical Medical College, Nanjing University of Chinese Medicine, Nanjing, Jiangsu 210023, China., Zhou JY; Jiangsu Province Key Laboratory of Tumor Systems Biology and Chinese Medicine, Nanjing, Jiangsu 210029, China., Qian J; No. 1 Clinical Medical College, Nanjing University of Chinese Medicine, Nanjing, Jiangsu 210023, China.; Department of Oncology, Affiliated Hospital of Nanjing University of Chinese Medicine, Jiangsu Province Hospital of Chinese Medicine, Nanjing, Jiangsu 210029, China., Liu SL; No. 1 Clinical Medical College, Nanjing University of Chinese Medicine, Nanjing, Jiangsu 210023, China.; Department of Oncology, Affiliated Hospital of Nanjing University of Chinese Medicine, Jiangsu Province Hospital of Chinese Medicine, Nanjing, Jiangsu 210029, China., Zou X; Jiangsu Province Key Laboratory of Tumor Systems Biology and Chinese Medicine, Nanjing, Jiangsu 210029, China.; No. 1 Clinical Medical College, Nanjing University of Chinese Medicine, Nanjing, Jiangsu 210023, China.; Department of Oncology, Affiliated Hospital of Nanjing University of Chinese Medicine, Jiangsu Province Hospital of Chinese Medicine, Nanjing, Jiangsu 210029, China.; Jiangsu Collaborative Innovation Center of Traditional Chinese Medicine in Prevention and Treatment of Tumor, Nanjing, Jiangsu 210029, China., Chen YG; Department of Colorectal Surgery, The Affiliated Hospital of Nanjing University of Chinese Medicine, Jiangsu Province Hospital of Chinese Medicine, Nanjing, Jiangsu, 210029, China.; Jiangsu Province Key Laboratory of Tumor Systems Biology and Chinese Medicine, Nanjing, Jiangsu 210029, China.; No. 1 Clinical Medical College, Nanjing University of Chinese Medicine, Nanjing, Jiangsu 210023, China.; Jiangsu Collaborative Innovation Center of Traditional Chinese Medicine in Prevention and Treatment of Tumor, Nanjing, Jiangsu 210029, China.

Source: International journal of biological sciences [Int J Biol Sci] 2025 Aug 16; Vol. 21 (12), pp. 5305-5327. Date of Electronic Publication: 2025 Aug 16 (Print Publication: 2025).

Publication Type: Journal Article

Journal Info: Publisher: Ivyspring International Country of Publication: Australia NLM ID: 101235568 Publication Model: eCollection Cited Medium: Internet ISSN: 1449-2288 (Electronic) Linking ISSN: 14492288 NLM ISO Abbreviation: Int J Biol Sci Subsets: MEDLINE

MeSH Terms: Colorectal Neoplasms*/metabolism , Colorectal Neoplasms*/therapy , Colorectal Neoplasms*/immunology , Colorectal Neoplasms*/genetics , Colorectal Neoplasms*/pathology , CCCTC-Binding Factor*/metabolism , CCCTC-Binding Factor*/genetics , Neutrophils*/metabolism , Immunotherapy*/methods, Humans ; Animals ; Tumor Microenvironment ; Mice ; Biomarkers, Tumor/metabolism ; Epithelial-Mesenchymal Transition ; Cell Line, Tumor

Ectopic Recruitment of the CTCF N-Terminal Domain with Two Proximal Zinc-Finger Domains as a Tool for 3D Genome Engineering.

Authors: Tiukacheva EA; Institute of Gene Biology, Moscow 119334, Russia.; Koltzov Institute of Developmental Biology, Moscow 119334, Russia.; Department of Biological and Medical Physics, Moscow Institute of Physics and Technology, Moscow 141700, Russia.; CNRS UMR9018, Institut Gustave Roussy, 94805 Villejuif, France., Luzhin AV; Institute of Gene Biology, Moscow 119334, Russia., Kruglova N; Institute of Gene Biology, Moscow 119334, Russia., Shtompel AS; Institute of Gene Biology, Moscow 119334, Russia.; Department of Molecular Biology, Faculty of Biology, Lomonosov Moscow State University, Moscow 119991, Russia., Antonov G; Institute of Gene Biology, Moscow 119334, Russia., Tvorogova A; Center for Precision Genome Editing and Genetic Technologies for Biomedicine, Institute of Gene Biology, Russian Academy of Sciences, Moscow 119334, Russia., Vassetzky Y; Koltzov Institute of Developmental Biology, Moscow 119334, Russia.; CNRS UMR9018, Institut Gustave Roussy, 94805 Villejuif, France., Ulianov SV; Institute of Gene Biology, Moscow 119334, Russia.; Department of Molecular Biology, Faculty of Biology, Lomonosov Moscow State University, Moscow 119991, Russia., Razin SV; Institute of Gene Biology, Moscow 119334, Russia.; Department of Molecular Biology, Faculty of Biology, Lomonosov Moscow State University, Moscow 119991, Russia.

Source: International journal of molecular sciences [Int J Mol Sci] 2025 Aug 01; Vol. 26 (15). Date of Electronic Publication: 2025 Aug 01.

Publication Type: Journal Article

Journal Info: Publisher: MDPI Country of Publication: Switzerland NLM ID: 101092791 Publication Model: Electronic Cited Medium: Internet ISSN: 1422-0067 (Electronic) Linking ISSN: 14220067 NLM ISO Abbreviation: Int J Mol Sci Subsets: MEDLINE

MeSH Terms: CCCTC-Binding Factor*/genetics , CCCTC-Binding Factor*/metabolism , CCCTC-Binding Factor*/chemistry , Zinc Fingers* , Genetic Engineering*/methods, Humans ; Chromatin/metabolism ; Chromatin/genetics ; Binding Sites ; Protein Binding ; Protein Domains

Dynamic barriers modulate cohesin positioning and genome folding at fixed occupancy.

Authors: Rahmaninejad H; Department of Quantitative and Computational Biology, University of Southern California, Los Angeles, California 90089, USA rahmanin@usc.edu fudenber@usc.edu., Xiao Y; Department of Quantitative and Computational Biology, University of Southern California, Los Angeles, California 90089, USA., Tortora MMC; Department of Quantitative and Computational Biology, University of Southern California, Los Angeles, California 90089, USA., Fudenberg G; Department of Quantitative and Computational Biology, University of Southern California, Los Angeles, California 90089, USA rahmanin@usc.edu fudenber@usc.edu.

Source: Genome research [Genome Res] 2025 Aug 01; Vol. 35 (8), pp. 1745-1757. Date of Electronic Publication: 2025 Aug 01.

Publication Type: Journal Article

Journal Info: Publisher: Cold Spring Harbor Laboratory Press Country of Publication: United States NLM ID: 9518021 Publication Model: Electronic Cited Medium: Internet ISSN: 1549-5469 (Electronic) Linking ISSN: 10889051 NLM ISO Abbreviation: Genome Res Subsets: MEDLINE

MeSH Terms: Cell Cycle Proteins*/metabolism , Cell Cycle Proteins*/genetics , Chromosomal Proteins, Non-Histone*/metabolism , Chromosomal Proteins, Non-Histone*/genetics , CCCTC-Binding Factor*/metabolism , CCCTC-Binding Factor*/genetics , Genome*, Cohesins ; Chromatin/metabolism ; Chromatin/genetics ; Humans ; Protein Binding ; Binding Sites

Deletion of a single CTCF motif at the boundary of a chromatin domain with three FGF genes disrupts gene expression and embryonic development.

Authors: Chakraborty S; Unit on Genome Structure and Regulation, National Institute of Child Health and Human Development, National Institutes of Health, Bethesda, MD 20892, USA., Wenzlitschke N; Unit on Genome Structure and Regulation, National Institute of Child Health and Human Development, National Institutes of Health, Bethesda, MD 20892, USA., Anderson MJ; Genetics of Vertebrate Development Section, Cancer and Developmental Biology Laboratory, National Cancer Institute, National Institutes of Health, Frederick, MD 21702, USA., Eraso A; Unit on Genome Structure and Regulation, National Institute of Child Health and Human Development, National Institutes of Health, Bethesda, MD 20892, USA., Baudic M; Unit on Genome Structure and Regulation, National Institute of Child Health and Human Development, National Institutes of Health, Bethesda, MD 20892, USA., Thompson JJ; Unit on Genome Structure and Regulation, National Institute of Child Health and Human Development, National Institutes of Health, Bethesda, MD 20892, USA., Evans AA; Bioinformatics and Scientific Programming Core, National Institute of Child Health and Human Development, National Institutes of Health, Bethesda, MD 20892, USA., Shatford-Adams LM; Bioinformatics and Scientific Programming Core, National Institute of Child Health and Human Development, National Institutes of Health, Bethesda, MD 20892, USA., Chari R; Laboratory Animal Sciences Program, Frederick National Laboratory for Cancer Research, Frederick, MD 21702, USA., Awasthi P; Laboratory Animal Sciences Program, Frederick National Laboratory for Cancer Research, Frederick, MD 21702, USA., Dale RK; Bioinformatics and Scientific Programming Core, National Institute of Child Health and Human Development, National Institutes of Health, Bethesda, MD 20892, USA., Lewandoski M; Genetics of Vertebrate Development Section, Cancer and Developmental Biology Laboratory, National Cancer Institute, National Institutes of Health, Frederick, MD 21702, USA., Petros TJ; Unit on Cellular and Molecular Neurodevelopment, National Institute of Child Health and Human Development, National Institutes of Health, Bethesda, MD 20892, USA., Rocha PP; Unit on Genome Structure and Regulation, National Institute of Child Health and Human Development, National Institutes of Health, Bethesda, MD 20892, USA; National Cancer Institute, NIH, Bethesda, MD 20892, USA. Electronic address: pedrorocha@nih.gov.

Source: Developmental cell [Dev Cell] 2025 Jul 07; Vol. 60 (13), pp. 1838-1853.e9. Date of Electronic Publication: 2025 Feb 26.

Publication Type: Journal Article

Journal Info: Publisher: Cell Press Country of Publication: United States NLM ID: 101120028 Publication Model: Print-Electronic Cited Medium: Internet ISSN: 1878-1551 (Electronic) Linking ISSN: 15345807 NLM ISO Abbreviation: Dev Cell Subsets: MEDLINE

MeSH Terms: CCCTC-Binding Factor*/genetics , CCCTC-Binding Factor*/metabolism , Chromatin*/metabolism , Chromatin*/genetics , Gene Expression Regulation, Developmental* , Embryonic Development*/genetics , Fibroblast Growth Factors*/genetics , Fibroblast Growth Factors*/metabolism, Animals ; Mice ; Enhancer Elements, Genetic/genetics ; Fibroblast Growth Factor 4/genetics ; Fibroblast Growth Factor 4/metabolism ; Female ; Fibroblast Growth Factor 3/genetics ; Fibroblast Growth Factor 3/metabolism

CTCF depletion decouples enhancer-mediated gene activation from chromatin hub formation.

Authors: Karpinska MA; Genome Organization and Regulation, Max Planck Institute for Multidisciplinary Sciences, Göttingen, Germany.; Georg August University of Göttingen, Göttingen, Germany., Zhu Y; Genome Organization and Regulation, Max Planck Institute for Multidisciplinary Sciences, Göttingen, Germany.; Georg August University of Göttingen, Göttingen, Germany., Fakhraei Ghazvini Z; Genome Organization and Regulation, Max Planck Institute for Multidisciplinary Sciences, Göttingen, Germany.; Georg August University of Göttingen, Göttingen, Germany., Ramasamy S; Genome Organization and Regulation, Max Planck Institute for Multidisciplinary Sciences, Göttingen, Germany.; Georg August University of Göttingen, Göttingen, Germany., Barbieri M; Institute of Pathology, University Medical Center Göttingen, Göttingen, Germany., Cao TBN; Genome Organization and Regulation, Max Planck Institute for Multidisciplinary Sciences, Göttingen, Germany.; Georg August University of Göttingen, Göttingen, Germany., Varahram N; Genome Organization and Regulation, Max Planck Institute for Multidisciplinary Sciences, Göttingen, Germany.; Georg August University of Göttingen, Göttingen, Germany., Aljahani A; Genome Organization and Regulation, Max Planck Institute for Multidisciplinary Sciences, Göttingen, Germany.; Georg August University of Göttingen, Göttingen, Germany.; Department of Developmental Biology, Stanford University, Stanford, CA, USA., Lidschreiber M; Department of Molecular Biology, Max Planck Institute for Multidisciplinary Sciences, Göttingen, Germany., Papantonis A; Institute of Pathology, University Medical Center Göttingen, Göttingen, Germany., Oudelaar AM; Genome Organization and Regulation, Max Planck Institute for Multidisciplinary Sciences, Göttingen, Germany. marieke.oudelaar@mpinat.mpg.de.

Source: Nature structural & molecular biology [Nat Struct Mol Biol] 2025 Jul; Vol. 32 (7), pp. 1268-1281. Date of Electronic Publication: 2025 May 13.

Publication Type: Journal Article

Journal Info: Publisher: Nature Pub. Group Country of Publication: United States NLM ID: 101186374 Publication Model: Print-Electronic Cited Medium: Internet ISSN: 1545-9985 (Electronic) Linking ISSN: 15459985 NLM ISO Abbreviation: Nat Struct Mol Biol Subsets: MEDLINE

MeSH Terms: CCCTC-Binding Factor*/metabolism , CCCTC-Binding Factor*/genetics , Chromatin*/metabolism , Chromatin*/genetics , Chromatin*/chemistry , Enhancer Elements, Genetic* , Transcriptional Activation*, Promoter Regions, Genetic ; Humans ; Animals ; Mice ; Binding Sites ; Gene Expression Regulation ; Cell Differentiation

Igf2 adult-specific skeletal muscle enhancer activity revealed in mice with intergenic CTCF boundary deletion.

Authors: Thorvaldsen JL; University of Pennsylvania Perelman School of Medicine, Epigenetics Institute, Department of Cell and Developmental Biology, Philadelphia, Pennsylvania, United States of America., Juan AM; University of Pennsylvania Perelman School of Medicine, Epigenetics Institute, Department of Cell and Developmental Biology, Philadelphia, Pennsylvania, United States of America., Lan Y; University of Pennsylvania Perelman School of Medicine, Epigenetics Institute, Department of Cell and Developmental Biology, Philadelphia, Pennsylvania, United States of America., Krapp C; University of Pennsylvania Perelman School of Medicine, Epigenetics Institute, Department of Cell and Developmental Biology, Philadelphia, Pennsylvania, United States of America., Bartolomei MS; University of Pennsylvania Perelman School of Medicine, Epigenetics Institute, Department of Cell and Developmental Biology, Philadelphia, Pennsylvania, United States of America.

Source: PLoS genetics [PLoS Genet] 2025 Aug 29; Vol. 21 (8), pp. e1011834. Date of Electronic Publication: 2025 Aug 29 (Print Publication: 2025).

Publication Type: Journal Article

Journal Info: Publisher: Public Library of Science Country of Publication: United States NLM ID: 101239074 Publication Model: eCollection Cited Medium: Internet ISSN: 1553-7404 (Electronic) Linking ISSN: 15537390 NLM ISO Abbreviation: PLoS Genet Subsets: MEDLINE

MeSH Terms: Insulin-Like Growth Factor II*/genetics , Insulin-Like Growth Factor II*/metabolism , CCCTC-Binding Factor*/genetics , Enhancer Elements, Genetic*/genetics , Muscle, Skeletal*/metabolism , Muscle, Skeletal*/growth & development, Animals ; Mice ; Genomic Imprinting/genetics ; RNA, Long Noncoding/genetics ; Mice, Transgenic ; Promoter Regions, Genetic ; Chromatin/genetics ; Alleles ; Gene Expression Regulation, Developmental

CTCF Represses CIB2 to Balance Proliferation and Differentiation of Goat Myogenic Satellite Cells via Integrin α7β1-PI3K/AKT Axis.

Authors: Gong C; Chongqing Key Laboratory of Herbivore Science, College of Animal Science and Technology, Southwest University, Chongqing 400715, China., Song H; Chongqing Key Laboratory of Herbivore Science, College of Animal Science and Technology, Southwest University, Chongqing 400715, China., Hao Z; Chongqing Key Laboratory of Herbivore Science, College of Animal Science and Technology, Southwest University, Chongqing 400715, China., Zhang Z; School of Preclinical Medicine, Zunyi Medical University, Zunyi 563000, China., Luo N; School of Preclinical Medicine, Zunyi Medical University, Zunyi 563000, China., Chen X; Chongqing Key Laboratory of Herbivore Science, College of Animal Science and Technology, Southwest University, Chongqing 400715, China.

Source: Cells [Cells] 2025 Aug 05; Vol. 14 (15). Date of Electronic Publication: 2025 Aug 05.

Publication Type: Journal Article

Journal Info: Publisher: MDPI Country of Publication: Switzerland NLM ID: 101600052 Publication Model: Electronic Cited Medium: Internet ISSN: 2073-4409 (Electronic) Linking ISSN: 20734409 NLM ISO Abbreviation: Cells Subsets: MEDLINE

MeSH Terms: Satellite Cells, Skeletal Muscle*/metabolism , Satellite Cells, Skeletal Muscle*/cytology , Proto-Oncogene Proteins c-akt*/metabolism , Cell Differentiation* , CCCTC-Binding Factor*/metabolism , Phosphatidylinositol 3-Kinases*/metabolism , Calcium-Binding Proteins*/metabolism , Calcium-Binding Proteins*/genetics , Integrin alpha Chains*/metabolism, Animals ; Goats ; Cell Proliferation ; Signal Transduction ; Muscle Development ; Antigens, CD

Wnt signaling activation induces CTCF binding and loop formation at cis -regulatory elements of target genes.

Authors: Nordin A; Wallenberg Centre for Molecular Medicine, Linköping University, SE-581 83 Linköping, Sweden; claudio.cantu@liu.se anna.nordin@liu.se silvia.remeseiro@umu.se.; Department of Biomedical and Clinical Sciences, Division of Molecular Medicine and Virology, Faculty of Medicine and Health Sciences, Linköping University, SE-581 83 Linköping, Sweden.; Science for Life Laboratory, Linköping University, SE-581 83 Linköping, Sweden., Chakraborty C; Wallenberg Centre for Molecular Medicine, Umeå University, 901 87 Umeå, Sweden.; Department of Medical and Translational Biology, Division of Molecular Medicine, Umeå University, 901 87 Umeå, Sweden., Jonasson M; Wallenberg Centre for Molecular Medicine, Linköping University, SE-581 83 Linköping, Sweden.; Department of Biomedical and Clinical Sciences, Division of Molecular Medicine and Virology, Faculty of Medicine and Health Sciences, Linköping University, SE-581 83 Linköping, Sweden., Dano O; Wallenberg Centre for Molecular Medicine, Linköping University, SE-581 83 Linköping, Sweden.; Department of Biomedical and Clinical Sciences, Division of Molecular Medicine and Virology, Faculty of Medicine and Health Sciences, Linköping University, SE-581 83 Linköping, Sweden., Zambanini G; Wallenberg Centre for Molecular Medicine, Linköping University, SE-581 83 Linköping, Sweden.; Department of Biomedical and Clinical Sciences, Division of Molecular Medicine and Virology, Faculty of Medicine and Health Sciences, Linköping University, SE-581 83 Linköping, Sweden., Pagella P; Wallenberg Centre for Molecular Medicine, Linköping University, SE-581 83 Linköping, Sweden.; Department of Biomedical and Clinical Sciences, Division of Molecular Medicine and Virology, Faculty of Medicine and Health Sciences, Linköping University, SE-581 83 Linköping, Sweden., Remeseiro S; Wallenberg Centre for Molecular Medicine, Umeå University, 901 87 Umeå, Sweden; claudio.cantu@liu.se anna.nordin@liu.se silvia.remeseiro@umu.se.; Department of Medical and Translational Biology, Division of Molecular Medicine, Umeå University, 901 87 Umeå, Sweden., Cantù C; Wallenberg Centre for Molecular Medicine, Linköping University, SE-581 83 Linköping, Sweden; claudio.cantu@liu.se anna.nordin@liu.se silvia.remeseiro@umu.se.; Department of Biomedical and Clinical Sciences, Division of Molecular Medicine and Virology, Faculty of Medicine and Health Sciences, Linköping University, SE-581 83 Linköping, Sweden.; Science for Life Laboratory, Linköping University, SE-581 83 Linköping, Sweden.

Source: Genome research [Genome Res] 2025 Aug 01; Vol. 35 (8), pp. 1701-1716. Date of Electronic Publication: 2025 Aug 01.

Publication Type: Journal Article

Journal Info: Publisher: Cold Spring Harbor Laboratory Press Country of Publication: United States NLM ID: 9518021 Publication Model: Electronic Cited Medium: Internet ISSN: 1549-5469 (Electronic) Linking ISSN: 10889051 NLM ISO Abbreviation: Genome Res Subsets: MEDLINE

MeSH Terms: CCCTC-Binding Factor*/metabolism , Wnt Signaling Pathway* , Regulatory Sequences, Nucleic Acid*, Humans ; Binding Sites ; beta Catenin/metabolism ; beta Catenin/genetics ; Cohesins ; Cell Cycle Proteins/metabolism ; Cell Cycle Proteins/genetics ; Protein Binding ; Chromosomal Proteins, Non-Histone/metabolism ; Chromosomal Proteins, Non-Histone/genetics ; Gene Expression Regulation