Genomes and Genes
Summary: The residual framework structure of the CELL NUCLEUS that maintains many of the overall architectural features of the cell nucleus including the nuclear lamina with NUCLEAR PORE complex structures, residual CELL NUCLEOLI and an extensive fibrogranular structure in the nuclear interior. (Advan. Enzyme Regul. 2002; 42:39-52)
Publications289 found, 100 shown here
- HA95 is a protein of the chromatin and nuclear matrix regulating nuclear envelope dynamicsS B Martins
Institute of Medical Biochemistry, University of Oslo, PO Box 1112 Blindern, Norway
J Cell Sci 113:3703-13. 2000..Biochemical and photobleaching data indicate that HA95 is tightly associated with chromatin and the nuclear matrix/lamina network in interphase, and bound to chromatin at mitosis...
- Internal organisation of the nucleus: assembly of compartments by macromolecular crowding and the nuclear matrix modelRonald Hancock
Laval University Cancer Research Centre, Hotel Dieu Hospital, 9 rue MacMahon, Quebec, P Q G1R 2J6, Canada
Biol Cell 96:595-601. 2004..nucleus are segregated into discrete compartments, but the current model that this is achieved by a fibrillar nuclear matrix which structures the nuclear interior and compartments is not consistent with all experimental observations, ..
- Nuclear matrix support of DNA replicationBoyka Anachkova
Institute of Molecular Biology, Bulgarian Academy of Sciences, Akad G Bonchev Street, Bl 21, Sofia 1113, Bulgaria
J Cell Biochem 96:951-61. 2005..To achieve this, DNA is organized into loops attached to the nuclear matrix. Each loop represents one individual replicon with the origin of replication localized within the loop and the ..
- PIASy, a nuclear matrix-associated SUMO E3 ligase, represses LEF1 activity by sequestration into nuclear bodiesS Sachdev
Gene Center and Institute of Biochemistry, University of Munich, 81377 Munich, Germany
Genes Dev 15:3088-103. 2001..Moreover, PIASy binds to nuclear matrix-associated DNA sequences and targets LEF1 to nuclear bodies, suggesting that PIASy-mediated subnuclear ..
- A novel DNA-binding motif in the nuclear matrix attachment DNA-binding protein SATB1K Nakagomi
La Jolla Cancer Research Foundation, California 92037
Mol Cell Biol 14:1852-60. 1994The nuclear matrix attachment DNA (MAR) binding protein SATB1 is a sequence context-specific binding protein that binds in the minor groove, making virtually no contact with the DNA bases...
- The sperm nucleus: chromatin, RNA, and the nuclear matrixGraham D Johnson
The Center for Molecular Medicine and Genetics, C S Mott Center, Wayne State University of Medicine, 275 East Hancock, Detroit, MI 48201, USA
Reproduction 141:21-36. 2011..These regions may be necessary for organizing higher order genomic structure through interactions with the nuclear matrix. The promoters of this transcriptionally quiescent genome are differentially marked by modified histones that ..
- A hyperphosphorylated form of the large subunit of RNA polymerase II is associated with splicing complexes and the nuclear matrixM J Mortillaro
Department of Biological Sciences, State University of New York at Buffalo 14260, USA
Proc Natl Acad Sci U S A 93:8253-7. 1996..retained in a similar pattern following in situ extraction of cells and was quantitatively recovered in the nuclear matrix fraction...
- CENP-F is a protein of the nuclear matrix that assembles onto kinetochores at late G2 and is rapidly degraded after mitosisH Liao
Fox Chase Cancer Center, Institute for Cancer Research, Philadelphia, Pennsylvania 19111, USA
J Cell Biol 130:507-18. 1995..CENP-F is protein of the nuclear matrix that gradually accumulates during the cell cycle until it reaches peak levels in G2 and M phase cells and is ..
- A novel form of the telomere-associated protein TIN2 localizes to the nuclear matrixPatrick G Kaminker
Buck Institute for Age Research, Novato, California, USA
Cell Cycle 8:931-9. 2009..TIN2S) in two ways: TIN2L contains an additional 97 amino acids, and TIN2L associates strongly with the nuclear matrix. Stringent salt and detergent conditions failed to extract TIN2L from the nuclear matrix, despite removing ..
- Necdin interacts with the ribonucleoprotein hnRNP U in the nuclear matrixHideo Taniura
Division of Regulation of Macromolecular Functions, Institute for Protein Research, Osaka University, Yamadaoka 3 2, Suita, Osaka 565 0871, Japan
J Cell Biochem 84:545-55. 2002..contained cDNA encoding a carboxyl-terminal portion of heterogeneous nuclear ribonucleoprotein U (hnRNP U), a nuclear matrix-associated protein that interacts with chromosomal DNA...
- Fanconi anemia proteins localize to chromatin and the nuclear matrix in a DNA damage- and cell cycle-regulated mannerF Qiao
Departments of Microbiology and Pediatrics, University of Virginia and the University of Virginia Health System, Charlottesville, Virginia 22908, USA
J Biol Chem 276:23391-6. 2001..Biochemical fractionation reveals that the FA proteins are found in nuclear matrix and chromatin and that treatment with mitomycin C results in increase of the FA proteins in nuclear matrix and ..
- PDLIM2 suppresses human T-cell leukemia virus type I Tax-mediated tumorigenesis by targeting Tax into the nuclear matrix for proteasomal degradationPengrong Yan
University of Pittsburgh Cancer Institute, University of Pittsburgh Medical Center, PA, USA
Blood 113:4370-80. 2009..In addition, PDLIM2 recruited Tax from its functional sites into the nuclear matrix where the polyubiquitinated Tax was degraded by the proteasome...
- From DNA structure to gene expression: mediators of nuclear compartmentalization and dynamicsJ Bode
GBF German Research Center for Biotechnology Epigenetic Regulation, Mascheroder Weg 1, D 38124 Braunschweig
Chromosome Res 11:435-45. 2003..into chromatin domains by their attachment to a supporting structure that has traditionally been termed the nuclear matrix. Present evidence indicates the dynamics of this entity, which requires particular properties of the elements ..
- Anchoring the genomeDiego Ottaviani
Cancer Research UK London Research Institute, Lincoln s Inn Fields, London WC2A 3PX, UK
Genome Biol 9:201. 2008..is evidence that higher-order chromatin folding is mediated by the anchoring of specific DNA sequences to the nuclear matrix. These genome anchors are also crucial regulators of gene expression and DNA replication, and play a role in ..
- An intact sperm nuclear matrix may be necessary for the mouse paternal genome to participate in embryonic developmentW S Ward
Division of Urology, Robert Wood Johnson Medical School, New Brunswick, New Jersey 08903, USA
Biol Reprod 60:702-6. 1999..We also tested the stability of the sperm nuclear matrix by the ability to form nuclear halos. Sperm nuclei washed in freshly prepared 0...
- Differential nuclear scaffold/matrix attachment marks expressed genesAmelia K Linnemann
The Center for Molecular Medicine and Genetics, Wayne State University School of Medicine, C S Mott Center, Detroit, MI48201, USA
Hum Mol Genet 18:645-54. 2009..The varied functions of the S/MARs as revealed by the different extraction methods highlights their unique functional contribution...
- Dynamics of association of origins of DNA replication with the nuclear matrix during the cell cycleV Djeliova
Institute of Molecular Biology, Bulgarian Academy of Sciences, Akad. G. Bonchev Street, Bl. 21, Sofia 1113, Bulgaria
Nucleic Acids Res 29:3181-7. 2001DNA of replication foci attached to the nuclear matrix was isolated from Chinese hamster ovary cells and human HeLa cells synchronized at different stages of the G(1) and S phases of the cell cycle...
- Functional domains of necdin for protein-protein interaction, nuclear matrix targeting, and cell growth suppressionHideo Taniura
Graduate School of Natural Science and Technology, Kanazawa University, Kakumamachi, Kanazawa, Ishikawa 920 1192, Japan
J Cell Biochem 94:804-15. 2005..We here characterize the regions of necdin required for the protein-protein interaction, nuclear matrix targeting, and cell growth suppression...
- Accumulation of LANA at nuclear matrix fraction is important for Kaposi's sarcoma-associated herpesvirus replication in latencyEriko Ohsaki
Department of Infectious Diseases, University of Hamamatsu School of Medicine, 1 20 1 Handayama, Higashi ku, Hamamatsu, Shizuoka 431 3192, Japan
Virus Res 139:74-84. 2009..the KSHV genome, and a viral replication factor, latency-associated nuclear antigen (LANA) accumulate at the nuclear matrix fraction in the G1 phase...
- Human telomeres are attached to the nuclear matrixT de Lange
Rockefeller University, New York, NY 10021
EMBO J 11:717-24. 1992This report shows that human telomeres are tightly associated with the nuclear matrix. Telomere attachment is observed in several cell types and in all stages of interphase...
- Localization of prohibitin in the nuclear matrix and alteration of its expression during differentiation of human neuroblastoma SK-N-SH cells induced by retinoic acidQi fu Li
The Key Laboratory of Ministry of Education for Cell Biology and Tumor Cell Engineering, School of Life Science, Xiamen University, China
Cell Mol Neurobiol 31:203-11. 2011The nuclear matrix-intermediate filament system of human neuroblastoma SK-N-SH cells before and after retinoic acid (RA) treatment was selectively extracted and the distribution of prohibitin (PHB) in the nuclear matrix, as well as its ..
- Structural insights into SUN-KASH complexes across the nuclear envelopeWenjia Wang
State Key Laboratory of Cell Biology, Institute of Biochemistry and Cell Biology, Shanghai Institutes for Biological Sciences, Chinese Academy of Sciences, Shanghai, China
Cell Res 22:1440-52. 2012..These results provide a structural model of the LINC complex, which is essential for additional study of the physical and functional coupling between the cytoplasm and the nucleoplasm...
- Function of the sperm nuclear matrixJeffrey A Shaman
Institute for Biogenesis Research, John A Burns School of Medicine, University of Hawaii Honolulu, HI 96822, USA
Arch Androl 53:135-40. 2007..One of these is the organization of DNA into loop domains attached at their bases to a proteinaceous nuclear matrix. Several groups have shown that the sites at which DNA associates with the sperm nuclear matrix contain ..
- The sperm nuclear matrix is required for paternal DNA replicationJeffrey A Shaman
Institute for Biogenesis Research, John A Burns School of Medicine, University of Hawaii, Honolulu, Hawaii 96822, USA
J Cell Biochem 102:680-8. 2007..We previously demonstrated that mammalian sperm nuclei contain a nuclear matrix that organizes the DNA into loop domains in a manner similar to that of somatic cells...
- S/MARt DB: a database on scaffold/matrix attached regionsInes Liebich
Research Group Bioinformatics, GBF, Mascheroder Weg 1, D 38124 Braunschweig, Germany
Nucleic Acids Res 30:372-4. 2002..S/MAR transaction database, is a relational database covering scaffold/matrix attached regions (S/MARs) and nuclear matrix proteins that are involved in the chromosomal attachment to the nuclear scaffold...
- Dynamics of nuclear matrix proteome during embryonic development in Drosophila melanogasterParul Varma
Center for Cellular and Molecular Biology CSIR, Hyderabad 500 007, India
J Biosci 36:439-59. 2011..of nuclear architecture, which is believed to play an important role in regulation of gene expression, is the nuclear matrix (NuMat)...
- Exploring the relationship between interphase gene positioning, transcriptional regulation and the nuclear matrixLauren S Elcock
Laboratory of Nuclear and Genomic Health, Centre for Cell and Chromosome Biology, Brunel University, Uxbridge UB8 3PH, UK
Biochem Soc Trans 38:263-7. 2010..at a more local scale? During the course of this review, these questions will be considered, in light of the current literature regarding the role of transcription factories and the nuclear matrix in interphase genome organization.
- DNA damage-dependent interaction of the nuclear matrix protein C1D with Translin-associated factor X (TRAX)Tuba Erdemir
Bilkent University, Molecular Biology and Genetics Department, 06533, Bilkent, Ankara, Turkey
J Cell Sci 115:207-16. 2002The nuclear matrix protein C1D is an activator of the DNA-dependent protein kinase (DNA-PK), which is essential for the repair of DNA double-strand breaks (DSBs) and V(D)J recombination...
- A new spectrin, beta IV, has a major truncated isoform that associates with promyelocytic leukemia protein nuclear bodies and the nuclear matrixW T Tse
Division of Hematology Oncology, Children s Hospital, and the Dana Farber Cancer Institute, Harvard Medical School, Boston, Massachusetts 02115, USA
J Biol Chem 276:23974-85. 2001..Spectrin betaIV is the first beta-spectrin associated with a subnuclear structure and may be part of a nuclear scaffold to which gene regulatory machinery binds...
- A structural basis for cellular senescenceArmando Aranda-Anzaldo
Laboratorio de Biologia Molecular, Facultad de Medicina, Universidad Autonoma del Estado de Mexico, Paseo Tollocan y Jesús Carranza, Toluca, Edo Mex, Mexico
Aging (Albany NY) 1:598-607. 2009..and discuss evidence that the interactions between DNA and the nuclear substructure, commonly known as the nuclear matrix, define a higher-order structure within the cell nucleus that following thermodynamic constraints, ..
- Aged and post-mitotic cells share a very stable higher-order structure in the cell nucleus in vivoJaneth Alva-Medina
Universidad Autonoma del Estado de Mexico, Toluca, Estado de Mexico, Mexico
Biogerontology 11:703-16. 2010..cells the nuclear DNA is organized in supercoiled loops anchored to a proteinaceous substructure known as the nuclear matrix (NM). The DNA-NM interactions define a higher-order structure in the cell nucleus (NHOS)...
- Hcc-1 is a novel component of the nuclear matrix with growth inhibitory functionC L Leaw
Bioprocessing Technology Institute, Agency for Science, Technology and Research A STAR, Singapore
Cell Mol Life Sci 61:2264-73. 2004..0173) and an accumulation of cells at the G2/M phase (p = 0.0276 compared to control HEK293 cells). Taken together, these results suggest a role for Hcc-1 in growth regulation and nucleic acids metabolism...
- Ataxin-3 is transported into the nucleus and associates with the nuclear matrixD Tait
Max Planck Institut fur Molekulare Genetik, Ihnestrasse 73, D 14195 Berlin Dahlem, Germany
Hum Mol Genet 7:991-7. 1998..revealed that the ataxin-3 protein present in the nucleus of neuroblastoma cells is associated with the inner nuclear matrix. Our results taken together with the finding of a nuclear localization signal in ataxin-3 indicate that the ..
- A new look at the nuclear matrixR Hancock
Centre de recherche en cancérologie de l Université Laval, Hotel Dieu Hospital, Quebec, Canada
Chromosoma 109:219-25. 2000The concept of the nuclear matrix, a karyoskeletal structure that serves as a support for the genome and its activities, has stimulated many studies of the association of nuclear components and functions with this structure...
- Experimental observations of a nuclear matrixJ Nickerson
Department of Cell Biology and Cancer Center, University of Massachusetts Medical School, Worcester, MA 01655, USA
J Cell Sci 114:463-74. 2001..architecture of the nucleus includes two overlapping and nucleic-acid-containing structures - chromatin and a nuclear matrix. The nuclear matrix is observed by microscopy in live, fixed and extracted cells...
- The amino-terminal region of the retinoblastoma gene product binds a novel nuclear matrix protein that co-localizes to centers for RNA processingT Durfee
Center for Molecular Medicine Institute of Biotechnology, University of Texas Health Science Center at San Antonio 78245
J Cell Biol 127:609-22. 1994..The only gene isolated from this screen encodes a novel 84-kD nuclear matrix protein that localizes to subnuclear regions associated with RNA processing...
- Nuclear matrix interactions within the sperm genomeJ A Kramer
Department of Obstetrics and Gynecology, Center for Molecular Medicine and Genetics, Wayne State University School of Medicine, Detroit, Michigan 48102, USA
J Biol Chem 271:11619-22. 1996..human PRM1 --> PRM2 --> TNP2 genic domain has revealed two regions of attachment to the sperm nuclear matrix. These sperm nuclear matrix attachment regions delimit the DNase I-sensitive domain of this haploid-expressed ..
- Silencing by nuclear matrix attachment distinguishes cell-type specificity: association with increased proliferation capacityAmelia K Linnemann
Department of Obstetrics and Gynecology, The Center for Molecular Medicine and Genetics, Wayne State University School of Medicine, Detroit, MI 48201, USA
Nucleic Acids Res 37:2779-88. 2009..We have previously shown that attachment of genes to the NaCl-isolated nuclear matrix correlates with their silencing in HeLa cells...
- Mapping of the nuclear matrix-bound chromatin hubs by a new M3C experimental procedureAlexey A Gavrilov
Laboratory of Structural and Functional Organization of Chromosomes, Institute of Gene Biology of the Russian Academy of Sciences, 34 5 Vavilov Street, 119334 Moscow, Russia
Nucleic Acids Res 38:8051-60. 2010We have developed an experimental procedure to analyze the spatial proximity of nuclear matrix-bound DNA fragments...
- DNA moves sequentially towards the nuclear matrix during DNA replication in vivoJuan Carlos Rivera-Mulia
Laboratorio de Biologia Molecular, Facultad de Medicina, Universidad Autonoma del Estado de Mexico, Apartado Postal 428, CP 50000 Toluca, Edo Mex, Mexico
BMC Cell Biol 12:3. 2011In the interphase nucleus of metazoan cells DNA is organized in supercoiled loops anchored to a nuclear matrix (NM)...
- Nuclear matrix association of insulin receptor and IRS-1 by insulin in osteoblast-like UMR-106 cellsKi Cheon Seol
Department of Pharmacology, School of Dentistry, Kyung Hee University, Seoul 130 701, Republic of Korea
Biochem Biophys Res Commun 306:898-904. 2003..The majority of insulin receptor and IRS-1 translocated to the nucleus appeared to associate with nuclear matrix. Tyrosine phosphorylation of a number of proteins with a molecular mass of 180, 95, 85, or 70 kDa in the ..
- Sp2 localizes to subnuclear foci associated with the nuclear matrixK Scott Moorefield
Graduate Program in Genomic Sciences, Center for Comparative Medicine and Translational Research, College of Veterinary Medicine, North Carolina State University, Raleigh, NC 27606, USA
Mol Biol Cell 17:1711-22. 2006..We report that 1) Sp2 localizes largely within subnuclear foci associated with the nuclear matrix, and 2) these foci are distinct from promyelocytic oncogenic domains and appear to be stable during an 18-h ..
- NeuN/Fox-3 is an intrinsic component of the neuronal nuclear matrixMyrna A R Dent
Facultad de Medicina, Universidad Autonoma del Estado de Mexico, Toluca, Mexico, Mexico
FEBS Lett 584:2767-71. 2010..Here we provide evidence that NeuN/Fox-3 is an intrinsic component of the neuronal nuclear matrix and a reliable marker of nuclear speckles in neurons.
- Unraveling the organization of the internal nuclear matrix: RNA-dependent anchoring of NuMA to a lamin scaffoldPaola Barboro
Istituto Nazionale per la Ricerca sul Cancro, I 16132, Genova, Italy
Exp Cell Res 279:202-18. 2002Using quantitative immunoelectron microscopy we show here that when the nuclear matrix is isolated from rat hepatocytes in the presence of an inhibitor of RNase activity both lamins and the nuclear mitotic apparatus protein (NuMA) ..
- Interaction of EBV latent origin of replication with the nuclear matrix: identification of S/MAR sequences and protein componentsGiulia Mearini
Department of Public Health Sciences, University La Sapienza, Rome, Italy
FEBS Lett 547:119-24. 2003During latency, Epstein Barr virus (EBV) genome, as an episome, is attached to the nuclear matrix (NM) via the latent origin of replication ori P...
- Interactions of Epstein-Barr virus origins of replication with nuclear matrix in the latent and in the lytic phases of viral infectionE Mattia
Faculty of Medicine and Surgery, University of Roma La Sapienza, Rome, Italy
Virology 262:9-17. 1999Eukaryotic DNA is organized into domains or loops generated by the attachment of chromatin fibers to the nuclear matrix via specific regions called scaffold or matrix attachment regions...
- A novel CpG-free vertebrate insulator silences the testis-specific SP-10 gene in somatic tissues: role for TDP-43 in insulator functionMayuresh M Abhyankar
Department of Pathology, University of Virginia School of Medicine, Charlottesville, Virginia 22908, USA
J Biol Chem 282:36143-54. 2007..Here we report that the insulator tethers the SP-10 gene to the nuclear matrix in somatic tissues, sequestering the core promoter in the process, thus preventing transcription...
- The newly identified human nuclear protein NXP-2 possesses three distinct domains, the nuclear matrix-binding, RNA-binding, and coiled-coil domainsYukio Kimura
Department of Life Science, Graduate School and Faculty of Science, Himeji Institute of Technology, Kamigori, Hyogo 678 1201, Japan
J Biol Chem 277:20611-7. 2002Using a monoclonal antibody that recognizes a nuclear matrix protein, we selected a cDNA clone from a lambdagt11 human placenta cDNA library. This cDNA encoded a 939-amino acid protein designated nuclear matrix protein NXP-2...
- c-Abl tyrosine kinase selectively regulates p73 nuclear matrix associationMerav Ben-Yehoyada
Department of Molecular Genetics, Weizmann Institute of Science, Rehovot 76100, Israel
J Biol Chem 278:34475-82. 2003..that in response to ionizing radiation, p73 undergoes nuclear redistribution and becomes associated with the nuclear matrix. This association is c-Abl-dependent because it was not observed in cells that are defective in c-Abl kinase ..
- Gene positional changes relative to the nuclear substructure correlate with the proliferating status of hepatocytes during liver regenerationApolinar Maya-Mendoza
Laboratorio de Biologia Molecular, Facultad de Medicina, Universidad Autonoma del Estado de Mexico, Apartado Postal 428, C P 50000, Toluca, Edo Mex, Mexico
Nucleic Acids Res 31:6168-79. 2003..is organised in loops anchored to a proteinaceous substructure variously named but commonly known as the nuclear matrix. Important processes of nuclear physiology, such as replication, transcription and processing of primary ..
- Gene positional changes relative to the nuclear substructure during carbon tetrachloride-induced hepatic fibrosis in ratsApolinar Maya-Mendoza
Laboratorio de Biologia Molecular, Facultad de Medicina, Universidad Autonoma del Estado de Mexico, Apdo Postal 428, C P 50000, Toluca, Edo Mex, Mexico
J Cell Biochem 93:1084-98. 2004..interphase nucleus the DNA of higher eukaryotes is organized in loops anchored to a substructure known as the nuclear matrix (NM)...
- Autosomal-dominant distal myopathy associated with a recurrent missense mutation in the gene encoding the nuclear matrix protein, matrin 3Jan Senderek
Institute of Cell Biology, ETH Zurich, 8093 Zurich, Switzerland
Am J Hum Genet 84:511-8. 2009..MATR3 is expressed in skeletal muscle and encodes matrin 3, a component of the nuclear matrix, which is a proteinaceous network that extends throughout the nucleus...
- Re-defining the chromatin loop domainH H Heng
Center for Molecular Medicine and Genetics, Department of Pathology, Karmanos Cancer Institute, Wayne State University School of Medicine, Detroit MI 48202, USA
Cytogenet Cell Genet 93:155-61. 2001..to target some long-standing issues regarding the structure and function of the chromatin loop domain and its relationship with the nuclear matrix. This new knowledge will have a profound impact for modern genetics and molecular medicine.
- Exploring the effects of a dysfunctional nuclear matrixLauren S Elcock
Laboratory of Nuclear and Genomic Health, Centre for Cell and Chromosome Biology, Brunel University, Uxbridge, UK
Biochem Soc Trans 36:1378-83. 2008The nuclear matrix has remained a contentious structure for decades; many believe that it is an artefact of harsh non-physiological procedures...
- Boundary element-associated factor 32B connects chromatin domains to the nuclear matrixRashmi U Pathak
Department of Biochemistry, School of Life Sciences, University of Hyderabad, Hyderabad, India
Mol Cell Biol 27:4796-806. 2007..In this report we show that BEAF is associated with the nuclear matrix and map the domain required for matrix association to the middle region of the protein...
- Stabilization of the nuclear matrix by disulfide bridges: identification of matrix polypeptides that form disulfidesN Stuurman
E C Slater Institute for Biochemical Research, University of Amsterdam, The Netherlands
Exp Cell Res 200:285-94. 1992The molecular structure of the nuclear matrix is still poorly understood. We have tried to assess which proteins are important structural elements by examining the process of stabilization of the nuclear matrix by sodium tetrathionate...
- p53 binds the nuclear matrix in normal cells: binding involves the proline-rich domain of p53 and increases following genotoxic stressM Jiang
YCR P53 Research Group, Department of Biology, University of York, YO10 5DD, UK
Oncogene 20:5449-58. 2001..In mammalian cells the biochemical processing of DNA occurs on a nuclear sub-structure termed the nuclear matrix. Previously Deppert and co-workers have identified p53 in association with the nuclear matrix in viral- and ..
- Nuclear matrix bound fibroblast growth factor receptor is associated with splicing factor rich and transcriptionally active nuclear specklesSuryanarayan Somanathan
Department of Biological Sciences, State University of New York at Buffalo, Buffalo, New York 14260, USA
J Cell Biochem 90:856-69. 2003..arrangements of FGFR1 sites and colocalization with nuclear speckles were maintained following extraction for nuclear matrix. Moreover, immunoblots indicated a significant enrichment of FGFR1 in the nuclear matrix fraction...
- Phosphorylation of AML1/RUNX1 regulates its degradation and nuclear matrix associationJoseph R Biggs
Department of Medicine, P O Box 250955, Medical University of South Carolina, 6 Jonathan Lucas Street, Charleston, SC 29425, USA
Mol Cancer Res 3:391-401. 2005..one soluble in buffers containing salt and nonionic detergent and the other insoluble and tightly bound to the nuclear matrix. We find that the AML1c protein is modified by both phosphorylation and ubiquitination...
- Nuclear matrix protein mitotin messenger RNA is expressed at constant levels during the cell cycleI T Todorov
Institut of Cell Biology and Morphology, Bulgarian Academy of Sciences, Sofia
Biochem Biophys Res Commun 177:395-400. 1991During the course of an investigation on nuclear matrix protein cDNAs, we have isolated a cDNA clone hybridizing with the messenger RNA encoding mitotin. Mitotin is a 125 kDa/pI 6...
- The controversial nuclear matrix: a balanced point of viewA M Martelli
Dipartimento di Scienze Anatomiche Umane e Fisiopatologia dell Apparato Locomotore, Sezione di Anatomia, Universita di Bologna, Bologna, Italy
Histol Histopathol 17:1193-205. 2002The nuclear matrix is defined as the residual framework after the removal of the nuclear envelope, chromatin, and soluble components by sequential extractions...
- Identification of a candidate regulatory region in the human CD8 gene complex by colocalization of DNase I hypersensitive sites and matrix attachment regions which bind SATB1 and GATA-3Lynda J Kieffer
Department of Laboratory Medicine and Department of Genetics and Section of Immunobiology, Yale University, New Haven, CT 06520, USA
J Immunol 168:3915-22. 2002To locate elements regulating the human CD8 gene complex, we mapped nuclear matrix attachment regions (MARs) and DNase I hypersensitive (HS) sites over a 100-kb region that included the CD8B gene, the intergenic region, and the CD8A gene...
- A possible role of cholesterol-sphingomyelin/phosphatidylcholine in nuclear matrix during rat liver regenerationElisabetta Albi
Department of Biochemical Sciences and Molecular Biotechnology, Physiopathology, Policlinico Monteluce, 06100 Perugia, Italy
J Hepatol 38:623-8. 2003..The aim of the present work is to clarify if chromatin lipids may derive or not from nuclear matrix and if they have different roles.
- DNA binding and gene activation properties of the Nmp4 nuclear matrix transcription factorsKitti Torrungruang
Department of Periodontics, Indiana University School of Dentistry, Indianapolis, Indiana 46202, USA
J Biol Chem 277:16153-9. 2002Splice variants of the Nmp4 gene include nuclear matrix transcription factors that regulate the type I collagen alpha1(I) polypeptide chain (COL1A1) promoter and several matrix metalloproteinase (MMP) genes...
- Nuclear matrix proteins as biomarkers in prostate cancerEddy S Leman
Department of Urology, Cellular and Molecular Pathology Graduate Program and University of Pittsburgh Cancer Institute, University of Pittsburgh School of Medicine, Pennsylvania 15232, USA
J Cell Biochem 86:213-23. 2002The nuclear matrix (NM) is the structural framework of the nucleus that consists of the peripheral lamins and pore complexes, an internal ribonucleic protein network, and residual nucleoli...
- CK2 phosphorylation weakens 90 kDa MFP1 association to the nuclear matrix in Allium cepaRafael Samaniego
Nuclear Matrix Laboratory, Centro de Investigaciones Biologicas, CSIC, 28040 Madrid, Spain
J Exp Bot 57:113-24. 2006..plant coiled-coil protein located on the stroma side of the chloroplast thylakoids, as well as in the nuclear matrix. It displays species-specific variability in the number of genes, proteins, and expression...
- Regulation of rat haptoglobin gene expression is coordinated by the nuclear matrixMelita Vidakovic
Department of Molecular Biology, Institute for Biological Research, University of Belgrade, Bulevar Despota Stefana 142, 11060 Belgrade, Serbia
J Cell Biochem 107:1205-21. 2009..The results show that the lamin components of the nuclear matrix form a network of functional, dynamic protein-protein and protein-Hp-S/MAR associations with multiple partners,..
- SUMO-1 modification of the acute promyelocytic leukaemia protein PML: implications for nuclear localisationE Duprez
Molecular Structure and Function Laboratory, Imperial Cancer Research Fund, London WC2A 3PX, UK
J Cell Sci 112:381-93. 1999..Our results provide significant insights into the role of SUMO-1 modification of PML in both normal cells and the APL disease state...
- The PML gene encodes a phosphoprotein associated with the nuclear matrixK S Chang
Department of Hematology, University of Texas M D Anderson Cancer Center, Houston 77030, USA
Blood 85:3646-53. 1995..In K562 and NIH/3T3 cells transfected with a PML expression plasmid, we found PML to be associated with the nuclear matrix. Our results also showed that PML is a phosphorprotein...
- Co-localization of poly(ADPR)polymerase 1 (PARP-1) poly(ADPR)polymerase 2 (PARP-2) and related proteins in rat testis nuclear matrix defined by chemical cross-linkingFilomena Tramontano
Department of Biological Chemistry, University Federico II of Naples, Via Mezzocannone 16, 80134 Napoli, Italy
J Cell Biochem 94:58-66. 2005..Moreover, the association of pADPR and PARP-1 with the nuclear matrix (NM) has been reported, based on the poly(ADP-ribosyl)ation of nuclear matrix proteins (NMPs)...
- The fate of the nuclear matrix-associated-region-binding protein SATB1 during apoptosisJ Gotzmann
Institute of Tumor Biology Cancer Research, University of Vienna, A 1090 Vienna, Austria
Cell Death Differ 7:425-38. 2000..protein 1 (SATB1), predominantly expressed in thymocytes, was identified as a component of the nuclear matrix protein fraction...
- Interaction of the tau2 transcriptional activation domain of glucocorticoid receptor with a novel steroid receptor coactivator, Hic-5, which localizes to both focal adhesions and the nuclear matrixL Yang
Department of Pathology and Department of Biochemistry and Molecular Biology, University of Southern California, Los Angeles, California 90089, USA
Mol Biol Cell 11:2007-18. 2000..identified Hic-5 as a protein that interacts with a region of the glucocorticoid receptor that includes a nuclear matrix-targeting signal and the tau2 transcriptional activation domain...
- Subnuclear proteomics in colorectal cancer: identification of proteins enriched in the nuclear matrix fraction and regulation in adenoma to carcinoma progressionJakob Albrethsen
OncoProteomics Laboratory, Department of Medical Oncology, VU University Medical Center VUmc Cancer Center Amsterdam, The Netherlands
Mol Cell Proteomics 9:988-1005. 2010..in subnuclear domains in colorectal cancer tissues and apply this work flow to a comparative analysis of the nuclear matrix fraction in colorectal adenoma and carcinoma tissue samples...
- The effect of MAR elements on variation in spatial and temporal regulation of transgene expressionW Van Leeuwen
Laboratory of Plant Physiology, Wageningen University and Research Centre, Netherlands
Plant Mol Biol 47:543-54. 2001..The potential effects of MAR elements on the variability of transgene expression and the relation to the stability of the (trans)gene product are discussed...
- Association of the telomere-telomere-binding protein complex of hypotrichous ciliates with the nuclear matrix and dissociation during replicationJ Postberg
Institute for Cell Biology, University Witten Herdecke, Stockumer Str 10, D 58448 Witten, Germany
J Cell Sci 114:1861-6. 2001Telomeric interactions with the nuclear matrix have been described in a variety of eukaryotic cells and seem to be essential for specific nuclear localization...
- A novel alpha-helical protein, specific to and highly conserved in plants, is associated with the nuclear matrix fractionAnnkatrin Rose
Plant Biotechnology Center and Department of Plant Biology, Ohio State University, Columbus, OH 43210, USA
J Exp Bot 54:1133-41. 2003A cDNA for a novel plant protein was isolated from tomato. Nuclear Matrix Protein 1 (NMP1) is a ubiquitously expressed 36 kDa protein, which has no homologues in animals and fungi, but is highly conserved among flowering and non-flowering ..
- Cloning and characterization of a novel zinc finger protein that associates with nuclear matrixJ Y Lee
Division of Chemotherapy, Chiba Cancer Center Research Institute, Japan
DNA Cell Biol 17:849-58. 1998..of 75 kDa (p75), which was distinct from Vn, existed in the nuclear fraction, and, more specifically, in the nuclear matrix fraction, of NIH3T3 cells...
- Identification of proteins immunologically related to vertebrate lamins in the nuclear matrix of the myxomycete Physarum polycephalumS Lang
Department of Microbiology, University of Innsbruck Medical School, Austria
Eur J Cell Biol 61:177-83. 1993Lamin-like proteins have been identified as components of the nuclear matrix of the myxomycete Physarum polycephalum...
- Chronic cyclophosphamide exposure alters the profile of rat sperm nuclear matrix proteinsAlexis M Codrington
Department of Pharmacology, McGill University, Montreal, Quebec, Canada H3G 1Y6
Biol Reprod 77:303-11. 2007..Sperm DNA is organized by the nuclear matrix into loop-domains in a sequence-specific manner...
- Metabolic stabilization of p53 by FE65 in the nuclear matrix of osmotically stressed cellsTadashi Nakaya
Laboratory of Neuroscience, Graduate School of Pharmaceutical Sciences, Hokkaido University, Sapporo, Japan
FEBS J 276:6364-74. 2009..Within the nucleus, FE65 formed a patched structure at the nuclear matrix, which facilitated the induction of gammaH2AX [Nakaya T, Kawai T & Suzuki T (2008) J Biol Chem283, 19119-..
- The conserved domain CR2 of Epstein-Barr virus nuclear antigen leader protein is responsible not only for nuclear matrix association but also for nuclear localizationA Yokoyama
Department of Tumor Virology, Medical Research Institute, Tokyo Medical and Dental University, Tokyo, 1-5-45, Yushima, Bunkyo-ku, 113-8510, Japan
Virology 279:401-13. 2001There is a growing body of evidence for the importance of the nuclear matrix in various nuclear events including gene expression and DNA replication...
- Hairless is translocated to the nucleus via a novel bipartite nuclear localization signal and is associated with the nuclear matrixK Djabali
Departments of Dermatology and Genetics and Development, Columbia University, College of Physicians and Surgeons, New York, New York, USA
J Cell Sci 114:367-76. 2001..Furthermore, nuclear fractionation analysis revealed that the hr protein is associated with components of the nuclear matrix.
- Nuclear matrix association: switching to the invasive cytotrophoblastK J Drennan
Department of Obstetrics and Gynecology, Wayne State University, 253 C S Mott Center, 275 E Hancock St, Detroit, MI 48201, USA
Placenta 31:365-72. 2010..well characterized invasive and non-invasive behavior, and to correlate the activity of the transcriptome with nuclear matrix attachment and cell phenotype. Comparison of the invasive to non-invasive HTR transcriptomes was unremarkable...
- Acute-phase-dependent binding affinity of C/EBPbeta from the nuclear extract and nuclear matrix towards the hormone response element of the alpha2-macroglobulin gene in rat hepatocytesD Bogojevic
Molecular Biology Laboratory, Institute for Biological Research, 29 Novembra 142, 11000 Belgrade, Serbia and Montenegro
Gen Physiol Biophys 22:279-85. 2003Interactions of nuclear extract and nuclear matrix proteins from rat hepatocytes with the hormone response element of the alpha2-macroglobulin gene were studied...
- Nuclear matrix localization of high mobility group protein I(Y) in a transgenic mouse model for prostate cancerEddy S Leman
Department of Urology, University of Pittsburgh School of Medicine, Pennsylvania 15232, USA
J Cell Biochem 88:599-608. 2003Nuclear shape and the underlying nuclear structure, the nuclear matrix in cancer cells. Since the NM composition is considered to maintain nuclear shape and architecture, nuclear matrix proteins (NMPs) may be involved in transformation...
- 1alpha,25-dihydroxy vitamin D(3) induces nuclear matrix association of the 1alpha,25-dihydroxy vitamin D(3) receptor in osteoblasts independently of its ability to bind DNAGloria Arriagada
Facultad de Ciencias Biologicas, Departamento de Bioquimica y Biologia Molecular, Universidad de Concepcion, Concepcion, Chile
J Cell Physiol 222:336-46. 2010..Here, we demonstrate that in osteoblastic cells, the VDR binds to the nuclear matrix in a vitamin D(3)-dependent manner...
- Nuclear envelope and nuclear matrix: interactions and dynamicsS Vlcek
Department of Biochemistry and Molecular Cell Biology, Vienna Biocenter, University of Vienna, Austria
Cell Mol Life Sci 58:1758-65. 2001..filaments that connect to nuclear pore complexes, are proposed to be major structural elements of the internal nuclear matrix. We describe the structural links between the peripheral lamina and the internal nuclear matrix that are ..
- Human satellite 3 (HS3) binding protein from the nuclear matrix: isolation and binding propertiesO Podgornaya
Institute of Cytology, Russian Academy of Sciences, St Petersburg 164064, Russia
Biochim Biophys Acta 1497:204-14. 2000Satellite DNA (satDNA) is the main component of residual DNA in nuclear matrix (NM) preparations. Gel mobility shift assay (GMSA) revealed specific human satellite 3 (HS3) binding activity in NM extracts...
- Involvement of the nuclear matrix in the control of skeletal genes: the NMP1 (YY1), NMP2 (Cbfa1), and NMP4 (Nmp4/CIZ) transcription factorsJ P Bidwell
Department of Anatomy and Cell Biology, Indiana University School of Dentistry, Indianapolis 46202, USA
Crit Rev Eukaryot Gene Expr 11:279-97. 2001The functional role of the osteoblast nuclear matrix has been a matter of supposition...
- Association of topoisomerase II with the hepatoma cell nuclear matrix: the role of intermolecular disulfide bond formationS H Kaufmann
Department of Pharmacology, Johns Hopkins University School of Medicine, Johns Hopkins Hospital, Baltimore, Maryland 21205
Exp Cell Res 192:511-23. 1991..in conflicting data regarding the recovery of the nuclear enzymes topoisomerase (topo) II and topo I in the nuclear matrix fraction...
- Characterization of SAF-A, a novel nuclear DNA binding protein from HeLa cells with high affinity for nuclear matrix/scaffold attachment DNA elementsH Romig
Department of Biology, University of Konstanz, Germany
EMBO J 11:3431-40. 1992..SAF-A is an abundant nuclear protein and a constituent of the nuclear matrix and scaffold...
- Recruitment of RNA polymerase II in the Ifng gene promoter correlates with the nuclear matrix association in activated T helper cellsElvira R Eivazova
Vanderbilt University School of Medicine, Department of Medicine, Nashville, TN 37232, USA
J Mol Biol 371:317-22. 2007..However, the interaction of the Ifng gene promoter with the nuclear matrix occurred differentially in a lineage-specific manner...
- Induction of transcription within chromosomal DNA loops flanked by MAR elements causes an association of loop DNA with the nuclear matrixOlga V Iarovaia
Laboratory of Structural and Functional Organization of Chromosomes, Institute of Gene Biology RAS, Vavilov Street 34 5, 117984 Moscow, Russia
Nucleic Acids Res 33:4157-63. 2005..It is likely that the loop observed was attached to the nuclear matrix via MAR elements present at the flanks of the area under study...
- Distinct LIM domains of Hic-5/ARA55 are required for nuclear matrix targeting and glucocorticoid receptor binding and coactivationJennifer Guerrero-Santoro
Department of Biological Sciences, University of Pittsburgh, Pittsburgh, Pennsylvania 15260, USA
J Cell Biochem 92:810-9. 2004..LIM4 also functions as a nuclear matrix targeting sequence (NMTS) for Hic-5/ARA55, as it is both necessary and sufficient to target a heterologous ..
- Natural ageing in the rat liver correlates with progressive stabilisation of DNA-nuclear matrix interactions and withdrawal of genes from the nuclear substructureApolinar Maya-Mendoza
Laboratorio de Biologia Molecular, Facultad de Medicina, Universidad Autonoma del Estado de Mexico, Toluca, Edo
Mech Ageing Dev 126:767-82. 2005In the interphase nucleus, the DNA of higher eukaryotes is organised in supercoiled loops anchored to a nuclear matrix (NM). Replication, transcription and splicing seem to occur at macromolecular complexes organised upon the NM...
- Differential nuclear localization and nuclear matrix association of the splicing factors PSF and PTBM Meissner
Institute of Tumor Biology Cancer Research, University of Vienna, A 1090 Vienna, Austria
J Cell Biochem 76:559-66. 2000A monoclonal antibody raised against nuclear matrix proteins detected a protein of basic pI in human nuclear matrix protein samples of various cellular origin...
- Cell-type-specific organization of nuclear DNA into structural looped domainsClaudia Trevilla-García
Facultad de Medicina, Universidad Autonoma del Estado de Mexico, Toluca, Mexico, Mexico
J Cell Biochem 112:531-40. 2011..metazoan cells the DNA is organized in supercoiled loops anchored to a proteinaceous substructure known as the nuclear matrix (NM)...
- Positional mapping of specific DNA sequences relative to the nuclear substructure by direct polymerase chain reaction on nuclear matrix-bound templatesApolinar Maya-Mendoza
Laboratorio de Biologia Molecular, Facultad de Medicina, Universidad Autonoma del Estado de Mexico, Apartado Postal 428, C P 50000, Toluca, Edo Mex, Mexico
Anal Biochem 313:196-207. 2003..eukaryotes is organized in supercoiled loops anchored to a proteinaceous substructure commonly known as the nuclear matrix. Current evidence suggests that important processes of nuclear physiology, such as replication, transcription, ..
- Cell cycle dependent regulation of protein kinase CK2 signaling to the nuclear matrixHuamin Wang
Cellular and Molecular Biochemistry Research Laboratory 151, Minneapolis Veterans Affairs Medical Center and Department of Laboratory Medicine and Pathology, University of Minnesota, Minneapolis, Minnesota 55417, USA
J Cell Biochem 88:812-22. 2003..b>Nuclear matrix is a key locus for CK2 signaling in the nucleus...
- RIF-1, a novel nuclear receptor corepressor that associates with the nuclear matrixHui Joyce Li
Molecular Cardiology Research Institute, New England Medical Center, Tufts University School of Medicine, Boston, Massachusetts 02111, USA
J Cell Biochem 102:1021-35. 2007..RIF1 is localized exclusively in the cell nucleus and specifically to the nuclear matrix. Mutation of the nuclear localization signal abolishes this nuclear localization and causes RIF1 to appear in ..
- The nuclear matrix and chromosomal DNA loops: is their any correlation between partitioning of the genome into loops and functional domains?S V Razin
Laboratory of Structural and Functional Organization of Chromosomes, Institute of Gene Biology of the Russian Academy of Sciences, Moscow
Cell Mol Biol Lett 6:59-69. 2001..Although the DNA loops attached to the nuclear matrix (chromosomal scaffold) are frequently considered as independent functional domains, this supposition lack ..
- Preclinical assay development of a novel Colon Cancer Marker (CCSA-4)JACK CLEMENS; Fiscal Year: 2007..Onconome, Inc. has licensed these novel nuclear matrix proteins and is developing products for the detection of these biomarkers for research and clinical use...
- ISOLATION OF THE FANCONI ANEMIA NUCLEAR PROTEIN COMPLEXGary Kupfer; Fiscal Year: 2003..Within the nucleus the data reveal that these proteins localize to the DNA and nuclear matrix-containing fractions and have an appearance that parallels that of other nuclear matrix proteins...
- INTRACELLULAR MECHANISMS OF GLUCOCORTICOID ACTIONDonald Defranco; Fiscal Year: 1999..In ATP-depleted cells, GRs remain localized within the nucleus and, in fact, are associated with the nuclear matrix. The restoration of cellular ATP levels leads to the release of matrix-bound GR in vivo...
- Anaplasma regulation of host granulocyte functionJohn Stephen Dumler; Fiscal Year: 2010..reprograms the global neutrophil transcriptome by altering the epigenome through AnkA"s action on nuclear matrix, chromatin, and transcriptional apparatus recruitment. We propose the following aims: 1...
- Repair of oxidative damage in mammalian genomesTapas K Hazra; Fiscal Year: 2010..mutations in NEIL2-deficient cells, are consistent with this hypothesis, hnRNP-U, an abundant multifunctional nuclear matrix protein, has also been shown to regulate transcription. NEIL2 carries out a beta-delta-reaction like E...
- Repair of oxidative damage in mammalian genomesTAPAS HAZRA; Fiscal Year: 2009..mutations in NEIL2-deficient cells, are consistent with this hypothesis, hnRNP-U, an abundant multifunctional nuclear matrix protein, has also been shown to regulate transcription. NEIL2 carries out a beta-delta-reaction like E...
- Repair of oxidative damage in mammalian genomesTAPAS HAZRA; Fiscal Year: 2007..mutations in NEIL2-deficient cells, are consistent with this hypothesis, hnRNP-U, an abundant multifunctional nuclear matrix protein, has also been shown to regulate transcription. NEIL2 carries out a beta-delta-reaction like E...
- KSHV-Ori-Lyt-Dependent DNA ReplicationYan Yuan; Fiscal Year: 2010..Two cellular proteins that may involve origin DNA unwinding and nuclear matrix attachment will be further studied because these two events are believed to be antecedent steps before ..
- Proteomic Characterization of IC BladderPradeep Tyagi; Fiscal Year: 2006..The nuclear matrix is the structural scaffolding of the cell nucleus and plays a central role in the regulation of important ..
- NUCLEAR MATRIX STRUCTURE AND DNA REPLICATIONRonald Berezney; Fiscal Year: 1993..Our laboratory has been studying the nuclear matrix and its role in DNA replication for over 15 years...
- NUCLEAR PROTEIN CONTENT AND HEAT INDUCED CELL KILLINGJoseph Roti Roti; Fiscal Year: 1999The objective of the proposed work is to test 2 hypotheses regarding proteins whose nuclear matrix (NM) association is modified by heat shock (i.e., HMNMP, hyperthermia modifiable NM proteins)...
- CHROMATIN-TELOMERE STRUCTURE AND AT GENOMIC SENSITIVITYTEJ PANDITA; Fiscal Year: 2005..We demonstrated that altered telomere nuclear matrix interactions and nucleosomal periodicity observed in cells derived from individuals with ataxia telangiectasia ..
- ER Co-Repressor Function of SAFB in Breast CancerSteffi Oesterreich; Fiscal Year: 2005The scaffold attachment factor/nuclear matrix protein SAFB maps to a locus with extremely high loss of heterozygosity in human breast cancer...
- ER Co-Repressor Function of SAFB in Breast CancerAdrian Lee; Fiscal Year: 2006The scaffold attachment factor/nuclear matrix protein SAFB maps to a locus with extremely high loss of heterozygosity in human breast cancer...
- NUCLEAR MATRIX STRUCTURE AND DNA REPLICATIONRonald Berezney; Fiscal Year: 1992..1) What are the cell cycle relationships of different replicational components associated with the nuclear matrix? Various properties of DNA polymerase alpha, DNA primase, diadenosine tetraphosphate (AP4A) binding sites, DNA ..