A5062254944- Ionosphere and magnetosphere dynamics
- Geophysics and Gravity Measurements
- Methane Hydrates and Related Phenomena
- Seismic Waves and Analysis
- Earthquake Detection and Analysis
- Solar and Space Plasma Dynamics
- Astrophysics and Cosmic Phenomena
- Seismology and Earthquake Studies
- Genomics and Chromatin Dynamics
- RNA Research and Splicing
- DNA and Nucleic Acid Chemistry
- Immune Cell Function and Interaction
- Epigenetics and DNA Methylation
- RNA and protein synthesis mechanisms
- Immunotherapy and Immune Responses
- T-cell and B-cell Immunology
- Cancer-related gene regulation
- RNA Interference and Gene Delivery
- DNA Repair Mechanisms
- Cancer-related molecular mechanisms research
- RNA modifications and cancer
- Advanced biosensing and bioanalysis techniques
- Cell death mechanisms and regulation
- Nuclear Structure and Function
- CRISPR and Genetic Engineering
University of California, San Francisco
2016-2025
Lawrence Berkeley National Laboratory
2013-2024
University of California, Berkeley
2000-2015
Fox Chase Cancer Center
2010
National Institute of Diabetes and Digestive and Kidney Diseases
2004
National Institutes of Health
2004
City Of Hope National Medical Center
2000
Beckman Research Institute
2000
Roche (Japan)
2000
Memorial Sloan Kettering Cancer Center
2000
Matrix attachment regions (MARs) are thought to separate chromatin into topologically constrained loop domains. A MAR located 5′ of the human β-interferon gene becomes stably base-unpaired under superhelical strain, as do MARs flanking immunoglobulin heavy chain enhancer; in both cases a nucleation site exists for DNA unwinding. Concatemerized oligonucleotides containing unwinding exhibited strong affinity nuclear scaffold and augmented SV40 promoter activity stable transformants. Mutated...
SATB1 is expressed primarily in thymocytes and can act as a transcriptional repressor. binds vivo to the matrix attachment regions (MARs) of DNA, which are implicated loop domain organization chromatin. The role MAR-binding proteins specific cell lineages unknown. We generated SATB1-null mice determine how functions T-cell lineage. small size, have disproportionately thymi spleens, die at 3 weeks age. At cellular level, multiple defects development were observed. Immature CD3(-)CD4(-)CD8(-)...
Telomeres are specialized DNA/protein structures that act as protective caps to prevent end fusion events and distinguish the chromosome ends from double-strand breaks. We report TRF1 Ku form a complex at telomere. The is specific high-affinity interaction, demonstrated by several in vitro methods, exists human cells determined coimmunoprecipitation experiments. does not bind telomeric DNA directly but localizes repeats via its interaction with TRF1. Primary mouse embryonic fibroblasts...
DNA can be chemically cleaved at the site of chloroacetaldehyde-modified residues by chemicals used for Maxam-Gilbert sequencing reactions. Use this technique facilitates fine structural analysis unpaired bases in with non-B-DNA structure. This method was to study structure adopted poly-(dG).poly(dC) sequence under torsional stress various ionic conditions. In presence 2 mM Mg2+, 5' half deoxycytosine tract is very reactive chloroacetaldehyde, while 3' virtually unreactive. poly(dG) tract,...
We have investigated the chromatin structure of chromosomal DNA regions containing human G gamma-, A delta-, and beta-globin structural genes in both fetal adult erythropoietic tissues two erythroleukemia cells lines before after induction. Our results indicate that DNase I introduces specific cuts into gene cluster erythroid but not leukocytes. The predominant sites are located at 5' sides genes, within 200 base pairs respective cap sites. Examination liver has revealed presence...
Neurons within each layer in the mammalian cortex have stereotypic projections. Four genes— Fezf2, Ctip2, Tbr1 , and Satb2 —regulate these projection identities. These genes also interact with other, it is unclear how interactions shape final identity. Here we show, by generating double mutants of Ctip2 that cortical neurons deploy a complex genetic switch uses mutual repression to produce subcortical or callosal We discovered Tbr1, EphA4 Unc5H3 are critical downstream targets fate...
During development, multipotent progenitor cells establish tissue-specific programs of gene expression. In this paper, we show that p63 transcription factor, a master regulator epidermal morphogenesis, executes its function in part by directly regulating expression the genome organizer Satb1 cells. binds to proximal regulatory region gene, and ablation results marked reduction levels epidermis. Satb1−/− mice impaired morphology. Satb1-null epidermis, chromatin architecture differentiation...
A DNA affinity column containing a synthetic double-stranded nuclear matrix attachment region (MAR) was used to purify 100-kDa protein from human erythroleukemia K562 cells. This identified as nucleolin, the key nucleolar of dividing cells, which is thought control rRNA gene transcription and ribosome assembly. Nucleolin known bind RNA single-stranded DNA. We report here that nucleolin also MAR-binding protein. It binds MARs different species with high affinity. effectively distinguishes...
Genomic sequences with a cluster of ATC sequence stretches where one strand consists exclusively well mixed As, Ts, and Cs confer high base unpairing propensity under negative superhelical strain. Such regions (BURs) are typically found in scaffold or matrix attachment (SARs/MARs) that thought to contribute the formation loop domain structure chromatin. Several proteins, including cell type-specific have been identified bind specifically double-stranded BURs either vitro vivo. By using...
Special AT-rich sequence-binding protein 1 (SATB1), a DNA-binding expressed predominantly in thymocytes, recognizes an ATC sequence context that consists of cluster stretches with well-mixed A's, T's, and C's without G's on one strand. Such regions confer high propensity for stable base unpairing. Using vivo cross-linking strategy, specialized genomic sequences (0.1–1.1 kbp) bind to SATB1 human lymphoblastic cell line Jurkat cells were individually isolated characterized. All SATB1-binding...
ADVERTISEMENT RETURN TO ISSUEPREVArticleNEXTTorsional stress stabilizes extended base unpairing in suppressor sites flanking immunoglobulin heavy chain enhancerTerumi Kohwi-Shigematsu and Yoshinori KohwiCite this: Biochemistry 1990, 29, 41, 9551–9560Publication Date (Print):October 1, 1990Publication History Published online1 May 2002Published inissue 1 October 1990https://pubs.acs.org/doi/10.1021/bi00493a009https://doi.org/10.1021/bi00493a009research-articleACS PublicationsRequest reuse...
ADVERTISEMENT RETURN TO ISSUEPREVArticleNEXTHierarchical binding of DNA fragments derived from scaffold-attached regions: correlation properties in vitro and function vivoChristian Mielke, Yoshinori Kohwi, Terumi Kohwi-Shigematsu, Juergen BodeCite this: Biochemistry 1990, 29, 32, 7475–7485Publication Date (Print):August 14, 1990Publication History Published online1 May 2002Published inissue 14 August 1990https://doi.org/10.1021/bi00484a017RIGHTS & PERMISSIONSArticle...
Satb1 and the closely related Satb2 proteins regulate gene expression higher-order chromatin structure of multigene clusters in vivo. In examining role Satb murine embryonic stem (ES) cells, we find that −/− cells display an impaired differentiation potential augmented pluripotency determinants Nanog , Klf4 Tbx3 . Metastable states self-renewal competence have been attributed to heterogeneity ES Nanog. cultures a higher proportion high increased reprogram human B lymphocytes cell fusion...
Targeted disruption of a highly conserved distal enhancer reduces expression the PU.1 transcription factor by 80% and leads to acute myeloid leukemia (AML) with frequent cytogenetic aberrations in mice. Here we identify SNP within this element humans that is more AML complex karyotype, decreased activity, progenitors development-dependent manner. This inhibits binding chromatin-remodeling transcriptional regulator special AT-rich sequence protein 1 (SATB1). Overexpression SATB1 increased...