Published in Methods on July 07, 2012
An enhancer element harboring variants associated with systemic lupus erythematosus engages the TNFAIP3 promoter to influence A20 expression. PLoS Genet (2013) 0.97
Effector bottleneck: microbial reprogramming of parasitized host cell transcription by epigenetic remodeling of chromatin structure. Front Genet (2014) 0.89
Molecular functions of the transcription factors E2A and E2-2 in controlling germinal center B cell and plasma cell development. J Exp Med (2016) 0.78
Regulatory Elements in Vectors for Efficient Generation of Cell Lines Producing Target Proteins. Acta Naturae (2015) 0.77
Structural Chromosomal Rearrangements Require Nucleotide-Level Resolution: Lessons from Next-Generation Sequencing in Prenatal Diagnosis. Am J Hum Genet (2016) 0.77
Genome-Wide Anaplasma phagocytophilum AnkA-DNA Interactions Are Enriched in Intergenic Regions and Gene Promoters and Correlate with Infection-Induced Differential Gene Expression. Front Cell Infect Microbiol (2016) 0.77
Statistical models for detecting differential chromatin interactions mediated by a protein. PLoS One (2014) 0.76
Coordination of matrix attachment and ATP-dependent chromatin remodeling regulate auxin biosynthesis and Arabidopsis hypocotyl elongation. PLoS One (2017) 0.75
Ultrafast and memory-efficient alignment of short DNA sequences to the human genome. Genome Biol (2009) 235.12
Model-based analysis of ChIP-Seq (MACS). Genome Biol (2008) 51.63
Capturing chromosome conformation. Science (2002) 23.93
A survey of sequence alignment algorithms for next-generation sequencing. Brief Bioinform (2010) 18.05
An oestrogen-receptor-alpha-bound human chromatin interactome. Nature (2009) 12.16
Genome-wide analysis of transcription factor binding sites based on ChIP-Seq data. Nat Methods (2008) 11.61
Nuclear organization of active and inactive chromatin domains uncovered by chromosome conformation capture-on-chip (4C). Nat Genet (2006) 11.02
Circular chromosome conformation capture (4C) uncovers extensive networks of epigenetically regulated intra- and interchromosomal interactions. Nat Genet (2006) 8.99
Interchromosomal associations between alternatively expressed loci. Nature (2005) 7.45
Long-range chromatin regulatory interactions in vivo. Nat Genet (2002) 6.55
We gather together: insulators and genome organization. Curr Opin Genet Dev (2007) 5.81
Loss of silent-chromatin looping and impaired imprinting of DLX5 in Rett syndrome. Nat Genet (2004) 5.64
SATB1 packages densely looped, transcriptionally active chromatin for coordinated expression of cytokine genes. Nat Genet (2006) 5.62
Long-range intrachromosomal interactions in the T helper type 2 cytokine locus. Nat Immunol (2004) 4.67
SATB1 reprogrammes gene expression to promote breast tumour growth and metastasis. Nature (2008) 4.27
Evaluation of algorithm performance in ChIP-seq peak detection. PLoS One (2010) 3.99
Tissue-specific nuclear architecture and gene expression regulated by SATB1. Nat Genet (2003) 3.63
A tissue-specific MAR/SAR DNA-binding protein with unusual binding site recognition. Cell (1992) 3.46
Form follows function: The genomic organization of cellular differentiation. Genes Dev (2004) 3.20
SATB1 targets chromatin remodelling to regulate genes over long distances. Nature (2002) 3.10
SATB1 defines the developmental context for gene silencing by Xist in lymphoma and embryonic cells. Dev Cell (2009) 2.57
The MAR-binding protein SATB1 orchestrates temporal and spatial expression of multiple genes during T-cell development. Genes Dev (2000) 2.49
In vivo dual cross-linking for identification of indirect DNA-associated proteins by chromatin immunoprecipitation. Biotechniques (2006) 2.46
DNA damage defines sites of recurrent chromosomal translocations in B lymphocytes. Nature (2012) 2.44
Biological significance of unwinding capability of nuclear matrix-associating DNAs. Science (1992) 2.41
Higher-order genome organization in human disease. Cold Spring Harb Perspect Biol (2010) 2.03
Transcriptional control thrown for a loop. Curr Opin Genet Dev (2006) 1.94
Diverse gene reprogramming events occur in the same spatial clusters of distal regulatory elements. Genome Res (2011) 1.80
Poly(ADP-ribose) polymerase and Ku autoantigen form a complex and synergistically bind to matrix attachment sequences. J Biol Chem (1999) 1.76
Satb1 and Satb2 regulate embryonic stem cell differentiation and Nanog expression. Genes Dev (2009) 1.67
Global regulator SATB1 recruits beta-catenin and regulates T(H)2 differentiation in Wnt-dependent manner. PLoS Biol (2010) 1.64
A distal single nucleotide polymorphism alters long-range regulation of the PU.1 gene in acute myeloid leukemia. J Clin Invest (2007) 1.63
SATB1 is an independent prognostic marker for gastric cancer in a Chinese population. Oncol Rep (2010) 1.56
Nucleolin is a matrix attachment region DNA-binding protein that specifically recognizes a region with high base-unpairing potential. Mol Cell Biol (1995) 1.46
Torsional stress stabilizes extended base unpairing in suppressor sites flanking immunoglobulin heavy chain enhancer. Biochemistry (1990) 1.46
High-resolution circular chromosome conformation capture assay. Nat Protoc (2008) 1.44
p63 regulates Satb1 to control tissue-specific chromatin remodeling during development of the epidermis. J Cell Biol (2011) 1.39
The genomic sequences bound to special AT-rich sequence-binding protein 1 (SATB1) in vivo in Jurkat T cells are tightly associated with the nuclear matrix at the bases of the chromatin loops. J Cell Biol (1998) 1.37
Expression of SATB1 and heparanase in gastric cancer and its relationship to clinicopathologic features. APMIS (2010) 1.37
Polycomb group proteins: repression in 3D. Trends Genet (2011) 1.32
Three-dimensional organization of gene expression in erythroid cells. Curr Top Dev Biol (2008) 1.30
Clinicopathologic and prognostic significance of SATB1 in cutaneous malignant melanoma. J Dermatol Sci (2011) 1.20
Chromatin immunoprecipitation (ChIP) for analysis of histone modifications and chromatin-associated proteins. Methods Mol Biol (2009) 1.13
Intranuclear relocalization of matrix binding sites during T cell activation detected by amplified fluorescence in situ hybridization. Methods (1999) 1.05
Detection of non-B-DNA structures at specific sites in supercoiled plasmid DNA and chromatin with haloacetaldehyde and diethyl pyrocarbonate. Methods Enzymol (1992) 1.05
HMG-I(Y) recognizes base-unpairing regions of matrix attachment sequences and its increased expression is directly linked to metastatic breast cancer phenotype. Cancer Res (1999) 0.99
Satb1 ablation alters temporal expression of immediate early genes and reduces dendritic spine density during postnatal brain development. Mol Cell Biol (2011) 0.96
Identification of base-unpairing region-binding proteins and characterization of their in vivo binding sequences. Methods Cell Biol (1998) 0.88
Screening for the expression of soluble recombinant protein in Escherichia coli. Methods Mol Biol (2005) 0.79
Loss of silent-chromatin looping and impaired imprinting of DLX5 in Rett syndrome. Nat Genet (2004) 5.64
SATB1 reprogrammes gene expression to promote breast tumour growth and metastasis. Nature (2008) 4.27
Tissue-specific nuclear architecture and gene expression regulated by SATB1. Nat Genet (2003) 3.63
SATB1 targets chromatin remodelling to regulate genes over long distances. Nature (2002) 3.10
Dynamic assembly of chromatin complexes during cellular senescence: implications for the growth arrest of human melanocytic nevi. Aging Cell (2007) 2.07
Deficiency of endothelial nitric-oxide synthase confers susceptibility to diabetic nephropathy in nephropathy-resistant inbred mice. Am J Pathol (2007) 1.95
Negative interactions in close relationships across the life span. J Gerontol B Psychol Sci Soc Sci (2003) 1.74
RET/PTC rearrangements preferentially occurred in papillary thyroid cancer among atomic bomb survivors exposed to high radiation dose. Cancer Res (2008) 1.67
Satb1 and Satb2 regulate embryonic stem cell differentiation and Nanog expression. Genes Dev (2009) 1.67
A distal single nucleotide polymorphism alters long-range regulation of the PU.1 gene in acute myeloid leukemia. J Clin Invest (2007) 1.63
Structural basis for activation of fatty acid-binding protein 4. J Mol Biol (2007) 1.52
Angiotensin II upregulates acyl-CoA:cholesterol acyltransferase-1 via the angiotensin II Type 1 receptor in human monocyte-macrophages. Hypertens Res (2008) 1.46
Genome organizing function of SATB1 in tumor progression. Semin Cancer Biol (2012) 1.45
Distinct signatures of diversifying selection revealed by genome analysis of respiratory tract and invasive bacterial populations. Proc Natl Acad Sci U S A (2011) 1.39
p63 regulates Satb1 to control tissue-specific chromatin remodeling during development of the epidermis. J Cell Biol (2011) 1.39
Differential expression of the intermediate filament protein nestin during renal development and its localization in adult podocytes. J Am Soc Nephrol (2006) 1.34
Improved RT-PCR amplification for molecular analyses with long-term preserved formalin-fixed, paraffin-embedded tissue specimens. J Histochem Cytochem (2006) 1.29
Attachment and close relationships across the life span. Attach Hum Dev (2004) 1.27
A mutant receptor tyrosine phosphatase, CD148, causes defects in vascular development. Mol Cell Biol (2003) 1.27
A network of genetic repression and derepression specifies projection fates in the developing neocortex. Proc Natl Acad Sci U S A (2012) 1.26
Reduction of renal superoxide dismutase in progressive diabetic nephropathy. J Am Soc Nephrol (2009) 1.23
Spectra of functional gastrointestinal disorders diagnosed by Rome III integrative questionnaire in a Japanese outpatient office and the impact of overlapping. J Gastroenterol Hepatol (2010) 1.09
The tyrosine phosphatase CD148 interacts with the p85 regulatory subunit of phosphoinositide 3-kinase. Biochem J (2008) 1.08
Sulfonamide derivative, E7820, is a unique angiogenesis inhibitor suppressing an expression of integrin alpha2 subunit on endothelium. Cancer Res (2002) 1.05
Oxidized high-density lipoprotein as a risk factor for cardiovascular events in prevalent hemodialysis patients. Atherosclerosis (2011) 1.05
Role of HDAC1 in senescence, aging, and cancer. Exp Gerontol (2009) 1.02
E7050: a dual c-Met and VEGFR-2 tyrosine kinase inhibitor promotes tumor regression and prolongs survival in mouse xenograft models. Cancer Sci (2009) 1.02
A monoclonal antibody against CD148, a receptor-like tyrosine phosphatase, inhibits endothelial-cell growth and angiogenesis. Blood (2006) 1.01
Mode of peroxisome proliferator-activated receptor γ activation by luteolin. Mol Pharmacol (2012) 1.01
Microarray analysis of cellular thermotolerance. Lasers Surg Med (2010) 0.98
Reproducibility and validity of a food frequency questionnaire among Vietnamese in Ho Chi Minh City. J Am Coll Nutr (2005) 0.98
Two-step colocalization of MORC3 with PML nuclear bodies. J Cell Sci (2010) 0.97
Satb1 ablation alters temporal expression of immediate early genes and reduces dendritic spine density during postnatal brain development. Mol Cell Biol (2011) 0.96
Rearranged anaplastic lymphoma kinase (ALK) gene in adult-onset papillary thyroid cancer amongst atomic bomb survivors. Thyroid (2012) 0.96
Modulation of renal superoxide dismutase by telmisartan therapy in C57BL/6-Ins2(Akita) diabetic mice. Hypertens Res (2011) 0.93
Re: The role of SATB1 in breast cancer pathogenesis. J Natl Cancer Inst (2010) 0.92
Role of HSP70 in cellular thermotolerance. Lasers Surg Med (2008) 0.91
Molecular mechanism of peroxisome proliferator-activated receptor α activation by WY14643: a new mode of ligand recognition and receptor stabilization. J Mol Biol (2013) 0.91
Age-dependent changes in cell proliferation and cell death in the periodontal tissue and the submandibular gland in mice: a comparison with other tissues and organs. J Mol Histol (2007) 0.90
Impact of fibroblast growth factor 23 on lipids and atherosclerosis in hemodialysis patients. Ther Apher Dial (2010) 0.90
GQ-16, a novel peroxisome proliferator-activated receptor γ (PPARγ) ligand, promotes insulin sensitization without weight gain. J Biol Chem (2012) 0.90
Genome-wide expression analysis of genes affected by amino acid sensor Ssy1p in Saccharomyces cerevisiae. Curr Genet (2002) 0.90
Angiotensin II receptor antagonist attenuates expression of aging markers in diabetic mouse heart. Circ J (2006) 0.89
Expression of ABO blood-group genes is dependent upon an erythroid cell-specific regulatory element that is deleted in persons with the B(m) phenotype. Blood (2012) 0.89
Liver X receptor β and peroxisome proliferator-activated receptor δ regulate cholesterol transport in murine cholangiocytes. Hepatology (2012) 0.87
Assessment of renal function in mice with unilateral ureteral obstruction using 99mTc-MAG3 dynamic scintigraphy. BMC Nephrol (2012) 0.87
ATM suppresses SATB1-induced malignant progression in breast epithelial cells. PLoS One (2012) 0.87
The effects of standard electrical PV isolation vs. "pace and ablate" on ATP-provoked PV reconnections. J Interv Card Electrophysiol (2014) 0.87
Induction of GADD gene expression by phenethylisothiocyanate in human colon adenocarcinoma cells. J Cell Biochem (2003) 0.85
Lipopolysaccharide stimulation converts vigorously washed dendritic cells (DCs) to nonexhausted DCs expressing CD70 and evoking long-lasting type 1 T cell responses. J Leukoc Biol (2005) 0.85
Ndrg4 enhances NGF-induced ERK activation uncoupled with Elk-1 activation. J Cell Biochem (2006) 0.85
Assessment of myeloperoxidase and oxidative alpha1-antitrypsin in patients on hemodialysis. Clin J Am Soc Nephrol (2009) 0.84
Characterization of diabetic nephropathy in a transgenic model of hypoinsulinemic diabetes. Am J Physiol Renal Physiol (2006) 0.84
DLX5 expression is monoallelic and Dlx5 is up-regulated in the Mecp2-null frontal cortex. J Cell Mol Med (2008) 0.84
H3K79me3T80ph is a Novel Histone Dual Modification and a Mitotic Indicator in Melanoma. J Skin Cancer (2012) 0.84
Rapamycin ameliorates experimental autoimmune myocarditis. Int Heart J (2005) 0.83
Mutation of the GATA site in the erythroid cell-specific regulatory element of the ABO gene in a Bm subgroup individual. Transfusion (2013) 0.83
Improved PCR amplification for molecular analysis using DNA from long-term preserved formalin-fixed, paraffin-embedded lung cancer tissue specimens. Int J Clin Exp Pathol (2012) 0.82
Regulation of the actin-activated MgATPase activity of Acanthamoeba myosin II by phosphorylation of serine 639 in motor domain loop 2. Proc Natl Acad Sci U S A (2012) 0.82
SOD1, but not SOD3, deficiency accelerates diabetic renal injury in C57BL/6-Ins2(Akita) diabetic mice. Metabolism (2012) 0.82
Association of agenesis of mandibular lateral incisors with other dental anomalies in a Japanese population. J Dent Child (Chic) (2013) 0.81
Oxidized high-density lipoprotein is associated with protein-energy wasting in maintenance hemodialysis patients. Clin J Am Soc Nephrol (2010) 0.81
Thyroid hormone analogues: where do we stand in 2013? Thyroid (2013) 0.81
Yeast Ume6p repressor permits activator binding but restricts TBP binding at the HOP1 promoter. Nucleic Acids Res (2003) 0.81
Repeatability and sensitivity of high resolution blood volume mapping in mouse kidney disease. J Magn Reson Imaging (2013) 0.81
Extremely prolonged elimination of cibenzoline at toxic plasma concentrations in patients with renal impairments. Ther Drug Monit (2002) 0.80
Functional implication of nucleolin in the mouse first molar development. J Biol Chem (2007) 0.80
Difference Between Dormant Conduction Sites Revealed by Adenosine Triphosphate Provocation and Unipolar Pace-Capture Sites Along the Ablation Line After Pulmonary Vein Isolation. Int Heart J (2015) 0.80
Synthesis of mono-glucose-branched cyclodextrins with a high inclusion ability for doxorubicin and their efficient glycosylation using Mucor hiemalis endo-beta-N-acetylglucosaminidase. Bioorg Med Chem Lett (2005) 0.79
Relations of nutritional intake to age, sex and body mass index in Japanese elderly patients with type 2 diabetes: the Japanese Elderly Diabetes Intervention Trial. Geriatr Gerontol Int (2012) 0.79
Effects of intravenous amiodarone and ibutilide on action potential duration and atrial conduction kinetics in patients with persistent atrial fibrillation. Int Heart J (2014) 0.78
Anxiety-like and exploratory behaviors of isolation-reared mice in the staircase test. J Pharmacol Sci (2007) 0.78
Bioluminescence imaging of vascular endothelial growth factor promoter activity in murine mammary tumorigenesis. Mol Imaging (2007) 0.78
Timed IVM followed by ICSI in a patient with immature ovarian oocytes. Reprod Biomed Online (2006) 0.78
Optimal energy distribution of carbohydrate intake for Japanese elderly patients with type 2 diabetes: the Japanese Elderly Intervention Trial. Geriatr Gerontol Int (2012) 0.78
Cilnidipine as an agent to lower blood pressure without sympathetic nervous activation as demonstrated by iodine-123 metaiodobenzylguanidine imaging in rat hearts. Ann Nucl Med (2003) 0.78
Assessment of inflow of endotoxin and its fragments in patients on maintenance hemodialysis. Blood Purif (2011) 0.77
Generation of a conditional allele for the mouse endothelial nitric oxide synthase gene. Genesis (2012) 0.77
Different expression patterns of p27 and p57 proteins in benign and malignant melanocytic neoplasms and in cultured human melanocytes. J Cutan Pathol (2008) 0.76
Human urotensin-II potentiates the mitogenic effect of mildly oxidized low-density lipoprotein on vascular smooth muscle cells: comparison with other vasoactive agents and hydrogen peroxide. Hypertens Res (2006) 0.76
Partition of N-monodemethylated phenothiazine drugs to phosphatidylcholine bilayer vesicles studied by second-derivative spectrophotometry. J Pharm Sci (2002) 0.76
Detection of mitotic figures and G2+ tumor nuclei with histone markers correlates with worse overall survival in patients with Merkel cell carcinoma. J Cutan Pathol (2014) 0.76
New advances in breast cancer metastasis. Womens Health (Lond Engl) (2008) 0.75
Effects of 22-oxacalcitriol and calcitriol on PTH secretion and bone mineral metabolism in a crossover trial in hemodialysis patients with secondary hyperparathyroidism. Ther Apher Dial (2007) 0.75
A comparison of the swim-up procedure at body and testis temperatures. J Assist Reprod Genet (2008) 0.75
Improved detection of minimal acute myeloid leukemia cells by the use of the combined parameters of XE-2100 hematology analyzer. Cytometry B Clin Cytom (2005) 0.75
[Culture and the concept of friendships: how do Japanese children resolve a conflict between their best friend and a newcomer?]. Shinrigaku Kenkyu (2003) 0.75
A case of fatal drug intoxication showing a high-density duodenal content by postmortem computed tomography. Leg Med (Tokyo) (2010) 0.75
Beta-cyclodextrin conjugates with glucose moieties designed as drug carriers: their syntheses, evaluations using concanavalin A and doxorubicin, and structural analyses by NMR spectroscopy. Med Chem (2008) 0.75
Use of postmortem computed tomography to reveal an intraoral gunshot injuries in a charred body. Leg Med (Tokyo) (2011) 0.75
Active vitamin D analogs, maxacalcitol and alfacalcidol, as maintenance therapy for mild secondary hyperparathyroidism in hemodialysis patients - a randomized study. Int J Clin Pharmacol Ther (2014) 0.75
MRI Mode Programming for Safe Magnetic Resonance Imaging in Patients With a Magnetic Resonance Conditional Cardiac Device. Int Heart J (2016) 0.75
Individual testimonies to nursing care after the atomic bombing of Hiroshima in 1945. Int Nurs Rev (2008) 0.75
The 3' flanking region of the human ABO histo-blood group gene is involved in negative regulation of gene expression. Leg Med (Tokyo) (2010) 0.75
A case of bilateral medial medullary infarction caused by unilateral vertebral artery dissection. Rinsho Shinkeigaku (2015) 0.75
Identification of CAG repeat-containing genes expressed in human brain as candidate genes for autosomal dominant spinocerebellar ataxias and other neurodegenerative diseases. J Hum Genet (2002) 0.75