fluorescence in situ hybridization

Summary

Summary: A type of IN SITU HYBRIDIZATION in which target sequences are stained with fluorescent dye so their location and size can be determined using fluorescence microscopy. This staining is sufficiently distinct that the hybridization signal can be seen both in metaphase spreads and in interphase nuclei.

Top Publications

  1. ncbi Recurrent fusion of TMPRSS2 and ETS transcription factor genes in prostate cancer
    Scott A Tomlins
    Department of Pathology, University of Michigan Medical School, 1301 Catherine Street, Ann Arbor, MI 48109 0602, USA
    Science 310:644-8. 2005
  2. ncbi HER2 amplification ratios by fluorescence in situ hybridization and correlation with immunohistochemistry in a cohort of 6556 breast cancer tissues
    Marilyn A Owens
    IMPATH, Inc, Los Angeles, CA 90066, USA
    Clin Breast Cancer 5:63-9. 2004
  3. pmc Mutations in the gene encoding the synaptic scaffolding protein SHANK3 are associated with autism spectrum disorders
    Christelle M Durand
    Human Genetics and Cognitive Functions, Institut Pasteur, Paris, France
    Nat Genet 39:25-7. 2007
  4. pmc Strong association of de novo copy number mutations with autism
    Jonathan Sebat
    Cold Spring Harbor Laboratory, 1 Bungtown Road, Cold Spring Harbor, NY 11724, USA
    Science 316:445-9. 2007
  5. pmc From silencing to gene expression: real-time analysis in single cells
    Susan M Janicki
    Cold Spring Harbor Laboratory, 1 Bungtown Road, Cold Spring Harbor, NY 11724, USA
    Cell 116:683-98. 2004
  6. pmc Fluorescence in situ hybridization and catalyzed reporter deposition for the identification of marine bacteria
    Annelie Pernthaler
    Max Planck Institute for Marine Microbiology, D 28359 Bremen, Germany
    Appl Environ Microbiol 68:3094-101. 2002
  7. pmc Stochastic mRNA synthesis in mammalian cells
    Arjun Raj
    Courant Institute of Mathematical Sciences, New York University, New York, New York, USA
    PLoS Biol 4:e309. 2006
  8. pmc Imaging individual mRNA molecules using multiple singly labeled probes
    Arjun Raj
    Department of Physics, Massachusetts Institute of Technology, Cambridge, Massachusetts 02139, USA
    Nat Methods 5:877-9. 2008
  9. ncbi TMPRSS2:ERG gene fusion associated with lethal prostate cancer in a watchful waiting cohort
    F Demichelis
    Department of Pathology, Brigham and Women s Hospital, Boston, MA 02115 6110, USA
    Oncogene 26:4596-9. 2007
  10. pmc Duplication of the fusion of TMPRSS2 to ERG sequences identifies fatal human prostate cancer
    G Attard
    Institute of Cancer Research, Male Urological Cancer Research Centre, Surrey, UK
    Oncogene 27:253-63. 2008

Detail Information

Publications411 found, 100 shown here

  1. ncbi Recurrent fusion of TMPRSS2 and ETS transcription factor genes in prostate cancer
    Scott A Tomlins
    Department of Pathology, University of Michigan Medical School, 1301 Catherine Street, Ann Arbor, MI 48109 0602, USA
    Science 310:644-8. 2005
    ..By using fluorescence in situ hybridization, we demonstrated that 23 of 29 prostate cancer samples harbor rearrangements in ERG or ETV1...
  2. ncbi HER2 amplification ratios by fluorescence in situ hybridization and correlation with immunohistochemistry in a cohort of 6556 breast cancer tissues
    Marilyn A Owens
    IMPATH, Inc, Los Angeles, CA 90066, USA
    Clin Breast Cancer 5:63-9. 2004
    To analyze HER2 amplification in a large cohort of diagnostic breast cancer specimens, fluorescence in situ hybridization (FISH) and immunohistochemistry (IHC) were performed on the same specimens with use of Food and Drug Administration&..
  3. pmc Mutations in the gene encoding the synaptic scaffolding protein SHANK3 are associated with autism spectrum disorders
    Christelle M Durand
    Human Genetics and Cognitive Functions, Institut Pasteur, Paris, France
    Nat Genet 39:25-7. 2007
    ..These mutations concern only a small number of individuals, but they shed light on one gene dosage-sensitive synaptic pathway that is involved in autism spectrum disorders...
  4. pmc Strong association of de novo copy number mutations with autism
    Jonathan Sebat
    Cold Spring Harbor Laboratory, 1 Bungtown Road, Cold Spring Harbor, NY 11724, USA
    Science 316:445-9. 2007
    ..Candidate genomic regions were validated by higher-resolution CGH, paternity testing, cytogenetics, fluorescence in situ hybridization, and microsatellite genotyping...
  5. pmc From silencing to gene expression: real-time analysis in single cells
    Susan M Janicki
    Cold Spring Harbor Laboratory, 1 Bungtown Road, Cold Spring Harbor, NY 11724, USA
    Cell 116:683-98. 2004
    ..Using this system, we are able to correlate changes in chromatin structure with the progression of transcriptional activation allowing us to obtain a real-time integrative view of gene expression...
  6. pmc Fluorescence in situ hybridization and catalyzed reporter deposition for the identification of marine bacteria
    Annelie Pernthaler
    Max Planck Institute for Marine Microbiology, D 28359 Bremen, Germany
    Appl Environ Microbiol 68:3094-101. 2002
    b>Fluorescence in situ hybridization (FISH) with horseradish peroxidase (HRP)-labeled oligonucleotide probes and tyramide signal amplification, also known as catalyzed reporter deposition (CARD), is currently not generally applicable to ..
  7. pmc Stochastic mRNA synthesis in mammalian cells
    Arjun Raj
    Courant Institute of Mathematical Sciences, New York University, New York, New York, USA
    PLoS Biol 4:e309. 2006
    ..These results demonstrate that gene expression in mammalian cells is subject to large, intrinsically random fluctuations and raise questions about how cells are able to function in the face of such noise...
  8. pmc Imaging individual mRNA molecules using multiple singly labeled probes
    Arjun Raj
    Department of Physics, Massachusetts Institute of Technology, Cambridge, Massachusetts 02139, USA
    Nat Methods 5:877-9. 2008
    ..We demonstrate simultaneous detection of three mRNA species in single cells and mRNA detection in yeast, nematodes, fruit fly wing discs, and mammalian cell lines and neurons...
  9. ncbi TMPRSS2:ERG gene fusion associated with lethal prostate cancer in a watchful waiting cohort
    F Demichelis
    Department of Pathology, Brigham and Women s Hospital, Boston, MA 02115 6110, USA
    Oncogene 26:4596-9. 2007
    ..005). These data suggest that TMPRSS2:ERG fusion prostate cancers may have a more aggressive phenotype, possibly mediated through increased ERG expression...
  10. pmc Duplication of the fusion of TMPRSS2 to ERG sequences identifies fatal human prostate cancer
    G Attard
    Institute of Cancer Research, Male Urological Cancer Research Centre, Surrey, UK
    Oncogene 27:253-63. 2008
    ..b>Fluorescence in situ hybridization (FISH) assays were used to assess ERG gene status in a cohort of 445 prostate cancers from patients ..
  11. ncbi Disjunction of homologous chromosomes in meiosis I depends on proteolytic cleavage of the meiotic cohesin Rec8 by separin
    S B Buonomo
    Research Institute of Molecular Pathology, University of Vienna, Austria
    Cell 103:387-98. 2000
    ..We show here that cleavage of Rec8 by separin at one of two different sites is necessary for the resolution of chiasmata and the disjunction of homologous chromosomes during meiosis...
  12. pmc Centrosome amplification drives chromosomal instability in breast tumor development
    Wilma L Lingle
    Division of Experimental Pathology, Tumor Biology Program, Mayo Clinic, Rochester, MN 55905, USA
    Proc Natl Acad Sci U S A 99:1978-83. 2002
    ..Twenty invasive breast tumors and seven normal breast tissues were analyzed by fluorescence in situ hybridization with centromeric probes to chromosomes 3, 7, and 17...
  13. pmc Mouse centric and pericentric satellite repeats form distinct functional heterochromatin
    Mounia Guenatri
    Institut Curie Research section, UMR218 du Centre National pour la Recherche Scientifique, 26 Rue d Ulm, 75248 Paris Cedex 05, France
    J Cell Biol 166:493-505. 2004
    ..Thus, we define functionally independent centromeric subdomains, which spatio-temporal isolation is proposed to be important for centromeric cohesion and dissociation during chromosome segregation...
  14. ncbi The male-specific region of the human Y chromosome is a mosaic of discrete sequence classes
    Helen Skaletsky
    Howard Hughes Medical Institute, Whitehead Institute, and Department of Biology, Massachusetts Institute of Technology, 9 Cambridge Center, Cambridge, Massachusetts 02142, USA
    Nature 423:825-37. 2003
    ..9% identity, which is maintained by frequent gene conversion (non-reciprocal transfer). The most prominent features here are eight massive palindromes, at least six of which contain testis genes...
  15. ncbi Active genes dynamically colocalize to shared sites of ongoing transcription
    Cameron S Osborne
    Laboratory of Chromatin and Gene Expression, The Babraham Institute, Babraham Research Campus, Cambridge, CB2 4AT, UK
    Nat Genet 36:1065-71. 2004
    ..Thus, rather than recruiting and assembling transcription complexes, active genes migrate to preassembled transcription sites...
  16. ncbi The shortest telomere, not average telomere length, is critical for cell viability and chromosome stability
    M T Hemann
    Department of Molecular Biology and Genetics, Johns Hopkins University School of Medicine, Baltimore, MD 21205, USA
    Cell 107:67-77. 2001
    ..Our data indicate that, while average telomere length is measured in most studies, it is not the average but rather the shortest telomeres that constitute telomere dysfunction and limit cellular survival in the absence of telomerase...
  17. ncbi Frequent amplification of chromosomal region 20q12-q13 in ovarian cancer
    M M Tanner
    Laboratory of Cancer Genetics, Institute of Medical Technology, Tampere University and University Hospital, Finland
    Clin Cancer Res 6:1833-9. 2000
    ..5% of the sporadic tumors. The high frequency of gene amplification at 20q12-q13.2 suggests that the genes amplified therein may play a central role in the pathogenesis of sporadic and hereditary ovarian carcinoma...
  18. ncbi Genome-wide analysis of sixteen chordomas by comparative genomic hybridization and cytogenetics of the first human chordoma cell line, U-CH1
    S Scheil
    Institute of Pathology, University Hospitals of Ulm, Ulm, Germany
    Genes Chromosomes Cancer 32:203-11. 2001
    ..sphenooccipital, and one spinal) from 13 patients using comparative genomic hybridization (CGH) and fluorescence in situ hybridization (FISH). On average, 3.2 losses and 4.2 gains were detected per tumor...
  19. doi TMPRSS2:ERG fusion identifies a subgroup of prostate cancers with a favorable prognosis
    Outi R Saramäki
    Institute of Medical Technology, University of Tampere, FIN 33014 Tampere, Finland
    Clin Cancer Res 14:3395-400. 2008
    ..Our aim was to assess the frequency of ERG overexpression and TMPRSS2:ERG rearrangement in prostate cancer and their association with clinicopathologic variables and outcome...
  20. ncbi Assessment of the HER2 status in breast cancer by fluorescence in situ hybridization: a technical review with interpretive guidelines
    David G Hicks
    Department of Anatomic Pathology, The Cleveland Clinic Foundation, Cleveland, OH 44195, USA
    Hum Pathol 36:250-61. 2005
    ..that can be assessed in routine clinical specimens include the evaluation of gene amplification by fluorescence in situ hybridization (FISH), enhanced messenger RNA expression by real-time polymerase chain reaction, and the assessment ..
  21. ncbi Recurrent gain of chromosomes 17q and 12 in cultured human embryonic stem cells
    Jonathan S Draper
    Department of Biomedical Science, University of Sheffield, Western Bank, Sheffield S10 2TN, UK
    Nat Biotechnol 22:53-4. 2004
    ..These observations are instructive for the future application of hES cells in transplantation therapies in which the use of aneuploid cells could be detrimental...
  22. ncbi BRAFE600-associated senescence-like cell cycle arrest of human naevi
    Chrysiis Michaloglou
    Division of Molecular Genetics, The Netherlands Cancer Institute, Plesmanlaan 121, 1066 CX Amsterdam, The Netherlands
    Nature 436:720-4. 2005
    ..Thus, both in vitro and in vivo, BRAF(V600E)-expressing melanocytes display classical hallmarks of senescence, suggesting that oncogene-induced senescence represents a genuine protective physiological process...
  23. ncbi HER2 testing by local, central, and reference laboratories in specimens from the North Central Cancer Treatment Group N9831 intergroup adjuvant trial
    Edith A Perez
    Mayo Clinic, 4500 San Pablo Rd, Jacksonville, FL 32224, USA
    J Clin Oncol 24:3032-8. 2006
    ..To evaluate concordance between local and central laboratory HER2 testing results in patients from the North Central Cancer Treatment Group (NCCTG) N9831 adjuvant trial of trastuzumab...
  24. pmc Cytogenetic analysis of HER1/EGFR, HER2, HER3 and HER4 in 278 breast cancer patients
    Andrea Sassen
    Institute of Pathology, University of Regensburg, Franz Josef Strauss Allee 11, 93053 Regensburg, Germany
    Breast Cancer Res 10:R2. 2008
    ..However, the clinical outcome with regard to total HER receptor state remains largely unknown...
  25. doi Does chromosome 17 centromere copy number predict polysomy in breast cancer? A fluorescence in situ hybridization and microarray-based CGH analysis
    Caterina Marchio
    The Breakthrough Breast Cancer Research Centre Institute of Cancer Research, London, UK
    J Pathol 219:16-24. 2009
    Approximately 8% of breast cancers show increased copy numbers of chromosome 17 centromere (CEP17) by fluorescence in situ hybridization (FISH) (ie average CEP17 >3.0 per nucleus)...
  26. ncbi Prognostic relevance of gene amplifications and coamplifications in breast cancer
    Khawla Al-Kuraya
    King Faisal Specialist Hospital and Research Centre, Riyadh, Saudi Arabia
    Cancer Res 64:8534-40. 2004
    ..In conclusion, these data support a major prognostic impact of genomic instability as determined by a broad gene amplification survey in breast cancer...
  27. pmc Fluorescence in situ hybridization analysis of circulating tumor cells in metastatic prostate cancer
    Margaret A Leversha
    Molecular Cytogenetics Core Laboratory, Department of Medicine, Memorial Sloan Kettering Cancer Center, New York, New York, USA
    Clin Cancer Res 15:2091-7. 2009
    To assess the feasibility of characterizing gene copy number alteration by fluorescence in situ hybridization (FISH) of circulating tumor cells (CTC) isolated using the CellSearch system in patients with progressive castration-resistant ..
  28. pmc Tissue-specific spatial organization of genomes
    Luis A Parada
    National Cancer Institute, National Institutes of Health, Bethesda, MD 20892
    Genome Biol 5:R44. 2004
    ..It is unclear whether the nonrandom spatial arrangement of chromosomes is conserved among tissues or whether spatial genome organization is tissue-specific...
  29. pmc A fluorescence in situ hybridization screen for E26 transformation-specific aberrations: identification of DDX5-ETV4 fusion protein in prostate cancer
    Bo Han
    Michigan Center for Translational Pathology, University of Michigan Medical School, Ann Arbor, Michigan 48109, USA
    Cancer Res 68:7629-37. 2008
    ..Here, we used a comprehensive fluorescence in situ hybridization (FISH) split probe strategy interrogating all 27 ETS family members and their five known 5' fusion ..
  30. doi An improved fluorescence in situ hybridization protocol for the identification of bacteria and archaea in marine sediments
    Kousuke Ishii
    Department of Molecular Ecology, Max Planck Institute for Marine Microbiology, Celsiusstrasse 1, Bremen, Germany
    FEMS Microbiol Ecol 50:203-13. 2004
    ..b>Fluorescence in situ hybridization with catalyzed reporter deposition (CARD-FISH) has the potential to overcome this limitation, and ..
  31. pmc Combining catalyzed reporter deposition-fluorescence in situ hybridization and microautoradiography to detect substrate utilization by bacteria and Archaea in the deep ocean
    Eva Teira
    Department of Biological Oceanography, Royal Netherlands Institute for Sea Research, P O Box 59, 1790 AB Den Burg, Texel, The Netherlands
    Appl Environ Microbiol 70:4411-4. 2004
    ....
  32. pmc Lineage-specific gene duplication and loss in human and great ape evolution
    Andrew Fortna
    Department of Pharmacology and Human Medical Genetics Program, University of Colorado Health Sciences Center, Denver, Colorado, USA
    PLoS Biol 2:E207. 2004
    ....
  33. ncbi Characterizing the composition and evolution of homoeologous genomes in hexaploid wheat through BAC-end sequencing on chromosome 3B
    Etienne Paux
    UMR ASP 1095, INRA, Universite Blaise Pascal, 63100 Clermont Ferrand, France
    Plant J 48:463-74. 2006
    ..Our data demonstrate that BAC-end sequencing from flow-sorted chromosomes is a powerful tool for analysing the structure and evolution of polyploid and highly repetitive genomes...
  34. pmc Frequency of the TMPRSS2:ERG gene fusion is increased in moderate to poorly differentiated prostate cancers
    Ashish B Rajput
    Genetic Pathology Evaluation Centre, Vancouver General Hospital, British Columbia Cancer Agency, University of British Columbia, Vancouver, British Columbia, Canada
    J Clin Pathol 60:1238-43. 2007
    ..2) to the 3' end of either ERG (21q22.3) or ETV1 (7p21.3). The consequence of these rearrangements is aberrant androgen receptor-driven expression of the potential oncogenes, ETV1 or ERG...
  35. pmc Chromosomal variation in neurons of the developing and adult mammalian nervous system
    S K Rehen
    Department of Pharmacology, School of Medicine, University of California, San Diego, CA 92093-0636, USA
    Proc Natl Acad Sci U S A 98:13361-6. 2001
    ..Interphase fluorescence in situ hybridization on embryonic cortical cells supported the rate of aneuploidy observed by spectral karyotyping and ..
  36. pmc Double labeling of oligonucleotide probes for fluorescence in situ hybridization (DOPE-FISH) improves signal intensity and increases rRNA accessibility
    Kilian Stoecker
    Department of Microbial Ecology, University of Vienna, Vienna, Austria
    Appl Environ Microbiol 76:922-6. 2010
    b>Fluorescence in situ hybridization (FISH) with singly labeled rRNA-targeted oligonucleotide probes is widely applied for direct identification of microbes in the environment or in clinical specimens...
  37. pmc A fluorescence in situ hybridization system for karyotyping soybean
    Seth D Findley
    Division of Plant Sciences, National Center for Soybean Biotechnology, University of Missouri, Columbia, Missouri 65211, USA
    Genetics 185:727-44. 2010
    ..The data confirm that this translocation is widespread in G. soja accessions and likely accounts for the semi-sterility found in some G. soja by G. max crosses...
  38. doi Spectral karyotyping and fluorescence in situ hybridization of murine cells
    Cornelia Rudolph
    Institute of Cell and Molecular Pathology, Hannover Medical School, Hannover, Germany
    Methods Mol Biol 506:453-66. 2009
    ..Furthermore, SKY is recommended for the cytogenetic characterization of newly established cell lines...
  39. ncbi Detection of microRNAs in frozen tissue sections by fluorescence in situ hybridization using locked nucleic acid probes and tyramide signal amplification
    Asli N Silahtaroglu
    Wilhelm Johannsen Centre for Functional Genome Research, Department of Cellular and Molecular Medicine, University of Copenhagen, Blegdamsvej 3, DK 2200 Copenhagen N, Denmark
    Nat Protoc 2:2520-8. 2007
    ..describes a method for fast and effective detection of miRNAs in frozen tissue sections using fluorescence in situ hybridization (FISH)...
  40. ncbi Fluorescence in situ hybridization (FISH) for direct visualization of microorganisms
    A Moter
    Institut für Mikrobiologie und Hygiene, Universitatsklinikum Charite, Humboldt Universitat zu Berlin, Berlin, Germany
    J Microbiol Methods 41:85-112. 2000
    ..visualization, identification, enumeration and localization of individual microbial cells, fluorescence in situ hybridization (FISH) is useful for many applications in all fields of microbiology...
  41. ncbi Cloning of BCAS3 (17q23) and BCAS4 (20q13) genes that undergo amplification, overexpression, and fusion in breast cancer
    Maarit Bärlund
    Laboratory of Cancer Genetics, Institute of Medical Technology, University of Tampere and Tampere University Hospital, Tampere, Finland
    Genes Chromosomes Cancer 35:311-7. 2002
    ..2, undergo amplification, overexpression, and fusion in breast cancer and therefore may have a role in the frequent chromosomal alterations affecting these two loci...
  42. ncbi Standardization of HER2 testing: results of an international proficiency-testing ring study
    Mitch Dowsett
    Academic Depertment of Biochemistry, Royal Marsden Hospital, London, UK
    Mod Pathol 20:584-91. 2007
    ..Routine HER2 tests, such as immunohistochemistry and fluorescence in situ hybridization (FISH), are subject to interlaboratory variation, and validation by laboratory proficiency testing ..
  43. ncbi Interphase FISH analysis of PTEN in histologic sections shows genomic deletions in 68% of primary prostate cancer and 23% of high-grade prostatic intra-epithelial neoplasias
    Maisa Yoshimoto
    Applied Molecular Oncology, Ontario Cancer Institute, Princess Margaret Hospital, Toronto, 610 University Ave, Room 9 721, Toronto, Ontario, M5G 2M9 Canada
    Cancer Genet Cytogenet 169:128-37. 2006
    ..the present time, there has been no systematic analysis of the incidence of genomic PTEN deletion by fluorescence in situ hybridization (FISH) in CaP and associated preneoplastic histologic lesions...
  44. ncbi Evaluation of clinical outcomes according to HER2 detection by fluorescence in situ hybridization in women with metastatic breast cancer treated with trastuzumab
    Robert D Mass
    Genentech, Inc, South San Francisco, CA 94080, USA
    Clin Breast Cancer 6:240-6. 2005
    We evaluated the influence of HER2 gene amplification, as determined by fluorescence in situ hybridization (FISH), on clinical outcomes (objective response rates, time to disease progression, and overall survival time) in women with ..
  45. ncbi The glucocorticoid receptor: rapid exchange with regulatory sites in living cells
    J G McNally
    Laboratory of Receptor Biology and Gene Expression, Building 41, Room B602, National Cancer Institute, Bethesda, MD 20892 5055, USA
    Science 287:1262-5. 2000
    ..Thus, the interaction of regulatory proteins with target sites in chromatin is a more dynamic process than previously believed...
  46. ncbi HER-2/neu gene amplification characterized by fluorescence in situ hybridization: poor prognosis in node-negative breast carcinomas
    M F Press
    Norris Comprehensive Cancer Center and Department of Pathology, University of Southern California School of Medicine, Los Angeles, CA 90033, USA
    J Clin Oncol 15:2894-904. 1997
    ..This investigation was performed to validate fluorescence in situ hybridization (FISH) as a sensitive and specific method for assessing HER-2/neu gene amplification in archival ..
  47. ncbi Recurrent integration of human papillomaviruses 16, 45, and 67 near translocation breakpoints in new cervical cancer cell lines
    L A Koopman
    Department of Pathology, Leiden University Medical Center, The Netherlands
    Cancer Res 59:5615-24. 1999
    ..HPV integration sites and karyotype abnormalities by using the multicolor combined binary ratio-fluorescence in situ hybridization method (Tanke et al...
  48. ncbi Nuclear organization of active and inactive chromatin domains uncovered by chromosome conformation capture-on-chip (4C)
    Marieke Simonis
    Department of Cell Biology and Genetics, Erasmus Medical Centre, PO Box 2040, 3000 CA Rotterdam, The Netherlands
    Nat Genet 38:1348-54. 2006
    ..Our data demonstrate that chromosomes fold into areas of active chromatin and areas of inactive chromatin and establish 4C technology as a powerful tool to study nuclear architecture...
  49. ncbi High resolution analysis of DNA copy number variation using comparative genomic hybridization to microarrays
    D Pinkel
    Cancer Genetics Program, UCSF Cancer Center, University of California San Francisco, 94143 0808, USA
    Nat Genet 20:207-11. 1998
    ..We demonstrate its ability to measure copy number with high precision in the human genome, and to analyse clinical specimens by obtaining new information on chromosome 20 aberrations in breast cancer...
  50. ncbi Amplification and overexpression of androgen receptor gene in hormone-refractory prostate cancer
    M J Linja
    Laboratory of Cancer Genetics, Institute of Medical Technology, University of Tampere and Tampere University Hospital, FIN-33014 Tampere, Finland
    Cancer Res 61:3550-5. 2001
    ..001). Four of 13 (31%) hormone-refractory tumors contained AR gene amplification detected by fluorescence in situ hybridization. Androgen-independent tumors with gene amplification expressed, on average, a 2-fold higher level of ..
  51. ncbi Myotonic dystrophy in transgenic mice expressing an expanded CUG repeat
    A Mankodi
    Department of Neurology, School of Medicine and Dentistry, University of Rochester, Box 673, 601 Elmwood Avenue, Rochester, NY 14642, USA
    Science 289:1769-73. 2000
    ..Thus, transcripts with expanded CUG repeats are sufficient to generate a DM phenotype. This result supports a role for RNA gain of function in disease pathogenesis...
  52. pmc Aneuploid neurons are functionally active and integrated into brain circuitry
    M A Kingsbury
    Department of Molecular Biology, Helen L Dorris Institute for the Study of Neurological and Psychiatric Disorders of Children and Adolescents, The Scripps Research Institute, 10550 North Torrey Pines Road, ICND 118, La Jolla, CA 92037, USA
    Proc Natl Acad Sci U S A 102:6143-7. 2005
    ..These results demonstrate that functioning neurons with aneuploid genomes form genetically mosaic neural circuitries as part of the normal organization of the mammalian brain...
  53. ncbi HER-2 testing in breast cancer using parallel tissue-based methods
    Hadi Yaziji
    PhenoPath Laboratories, Seattle, Wash 98103, USA
    JAMA 291:1972-7. 2004
    ..Some advocate gene testing by fluorescence in situ hybridization (FISH) vs protein testing by immunohistochemistry as the method which most accurately evaluates and ..
  54. pmc Allele-specific nuclear positioning of the monoallelically expressed astrocyte marker GFAP
    Takumi Takizawa
    National Cancer Institute, National Institutes of Health, Bethesda, Maryland 20892, USA
    Genes Dev 22:489-98. 2008
    ..These results provide direct evidence for function-related differential positioning of individual gene alleles within the interphase nucleus...
  55. ncbi Targeted mutagenesis of Tsix leads to nonrandom X inactivation
    J T Lee
    Department of Molecular Biology, Massachusetts General Hospital, Boston 02115, USA
    Cell 99:47-57. 1999
    ..Therefore, counting, choice, and silencing are genetically separable. Contrasting effects in XX and XY cells argue that negative and positive factors are involved in choosing active and inactive Xs...
  56. ncbi Androgen receptor gene amplification: a possible molecular mechanism for androgen deprivation therapy failure in prostate cancer
    P Koivisto
    Laboratory of Cancer Genetics, Institute of Medical Technology, University of Tampere, Finland
    Cancer Res 57:314-9. 1997
    ..tumors, but none of the untreated primary tumors, contained AR gene amplification as determined by fluorescence in situ hybridization. According to single-stranded conformation polymorphism analysis, the AR gene was wild type in all ..
  57. doi The application of cytogenetics and fluorescence in situ hybridization to fine-needle aspiration in the diagnosis and subclassification of renal neoplasms
    Michael H Roh
    Department of Pathology, University of Michigan Medical School, Ann Arbor, Michigan 48109 5054, USA
    Cancer Cytopathol 118:137-45. 2010
    ..This study summarizes our experience with the application of conventional cytogenetics and fluorescence in situ hybridization (FISH) to renal FNA specimens.
  58. doi Characterization of amplicons in neuroblastoma: high-resolution mapping using DNA microarrays, relationship with outcome, and identification of overexpressed genes
    Anne Fix
    INSERM U830, Laboratoire de Génétique et Biologie des Cancers, Institut Curie, 26 Rue d Ulm, 75248 Paris Cedex 05, France
    Genes Chromosomes Cancer 47:819-34. 2008
    ..Finally, our results suggest that the presence of amplicons localized outside of chromosome 2, in addition to MYCN amplification, may be linked to a particularly severe outcome in neuroblastoma patients...
  59. ncbi Chromosomal alterations in 15 breast cancer cell lines by comparative genomic hybridization and spectral karyotyping
    S Kytola
    Department of Molecular Medicine, Karolinska Hospital, Stockholm, Sweden
    Genes Chromosomes Cancer 28:308-17. 2000
    ..Genes Chromosomes Cancer 28:308-317, 2000...
  60. ncbi Myotonic dystrophy type 2 caused by a CCTG expansion in intron 1 of ZNF9
    C L Liquori
    Institute of Human Genetics MMC 206, 420 Delaware Street SE, University of Minnesota, Minneapolis, MN 55455, USA
    Science 293:864-7. 2001
    ..Parallels between these mutations indicate that microsatellite expansions in RNA can be pathogenic and cause the multisystemic features of DM1 and DM2...
  61. doi Characterization of 9p21 copy number alterations in human melanoma by fluorescence in situ hybridization
    Zsuzsa Rakosy
    Department of Preventive Medicine, Faculty of Public Health, Medical and Health Science Center, University of Debrecen, Kassai str 26 b, H 4028 Debrecen, Hungary
    Cancer Genet Cytogenet 182:116-21. 2008
    ..pattern of the 9p21 locus on a cell-by-cell basis in a large number of melanoma samples using fluorescence in situ hybridization (FISH)...
  62. ncbi The in vivo dynamics of Streptococcus spp., Actinomyces naeslundii, Fusobacterium nucleatum and Veillonella spp. in dental plaque biofilm as analysed by five-colour multiplex fluorescence in situ hybridization
    Ali Al-Ahmad
    Department of Operative Dentistry and Periodontology, Albert Ludwigs University, Freiburg, Germany
    J Med Microbiol 56:681-7. 2007
    ..acrylic appliance in situ to quantify dental plaque formation and composition using multiplex fluorescence in situ hybridization (FISH) and confocal laser scanning microscopy...
  63. ncbi Dermatofibrosarcoma protuberans COL1A1-PDGFB fusion is identified in virtually all dermatofibrosarcoma protuberans cases when investigated by newly developed multiplex reverse transcription polymerase chain reaction and fluorescence in situ hybridization
    Kayuri U Patel
    Department of Pathology at Texas Children s Hospital and Baylor College of Medicine, Houston, TX 77030, USA
    Hum Pathol 39:184-93. 2008
    ..Results were correlated with histology, immunohistochemistry, PDGFB break-apart fluorescence in situ hybridization analysis, and cytogenetics when available...
  64. pmc Velo-cardio-facial syndrome: 30 Years of study
    Robert J Shprintzen
    Department of Otolaryngology and Communication Science, Velo Cardio Facial Syndrome International Center, State University of New York, Upstate Medical University, Syracuse, NY 13210, USA
    Dev Disabil Res Rev 14:3-10. 2008
    ..diagnosis, today velo-cardio-facial syndrome can be diagnosed with extremely high accuracy by fluorescence in situ hybridization and several other laboratory techniques...
  65. ncbi Cloning of a gene highly overexpressed in cancer coding for a novel KH-domain containing protein
    F Mueller-Pillasch
    Department of Internal Medicine I, University of Ulm, Germany
    Oncogene 14:2729-33. 1997
    ..By fluorescence in situ hybridization (FISH) the identified gene named koc (KH domain containing protein overexpressed in cancer) was ..
  66. pmc Fluorescence in situ hybridization study shows association of PTEN deletion with ERG rearrangement during prostate cancer progression
    Bo Han
    Michigan Center for Translational Pathology, University of Michigan Medical School, Ann Arbor, MI, USA
    Mod Pathol 22:1083-93. 2009
    ..Using fluorescence in situ hybridization, we systematically validated the frequency and distribution of ERG and PTEN aberrations in a cohort ..
  67. ncbi Environment-specific expression of the immediate-early gene Arc in hippocampal neuronal ensembles
    J F Guzowski
    Virion Systems, Inc, 9610 Medical Center Drive, Suite 100, Rockville, Maryland 20850, USA
    Nat Neurosci 2:1120-4. 1999
    ..Arc gene induction is thus specifically linked to neural encoding processes...
  68. doi Immuno-fluorescence in situ hybridization index predicts survival in patients with diffuse large B-cell lymphoma treated with R-CHOP: a GELA study
    Christiane Copie-Bergman
    Assistance Publique Hopitaux de Paris, Groupe Henri Mondor Albert Chenevier, L Institut National de la Santé et de la Recherche Médicale, Unité 955, Institut Mondor de Recherche Biomédicale Université Paris 12, Faculte de Medecine, Creteil
    J Clin Oncol 27:5573-9. 2009
    ....
  69. pmc Common themes and cell type specific variations of higher order chromatin arrangements in the mouse
    Robert Mayer
    Department Biologie II, Ludwig Maximilians Universitat Munchen, Grosshaderner Str 2, 82152 Planegg Martinsried, Germany
    BMC Cell Biol 6:44. 2005
    ..types (lymphocytes, embryonic stem cells, macrophages, fibroblasts, myoblasts and myotubes) with fluorescence in situ hybridization and confocal laser scanning microscopy...
  70. ncbi Current status and the future of fluorescence in situ hybridization (FISH) in plant genome research
    Jiming Jiang
    Department of Horticulture, University of Wisconsin, Madison, WI 53706, USA
    Genome 49:1057-68. 2006
    b>Fluorescence in situ hybridization (FISH), which allows direct mapping of DNA sequences on chromosomes, has become the most important technique in plant molecular cytogenetics research...
  71. doi Investigation of chicken intestinal bacterial communities by 16S rRNA targeted fluorescence in situ hybridization
    K N Olsen
    Department of Veterinary Pathobiology, Faculty of Life Sciences, University of Copenhagen, Stigbøjlen 4, Frederiksberg C, Denmark
    Antonie Van Leeuwenhoek 94:423-37. 2008
    ..In chicken intestinal samples bacteria were quantified by fluorescence in situ hybridization with 16S rRNA oligonucleotides directed towards bacteria related to Lactobacillus, Bacillus, ..
  72. pmc Evidence for cytogenetic and fluorescence in situ hybridization risk stratification of newly diagnosed multiple myeloma in the era of novel therapie
    Prashant Kapoor
    Division of Hematology, Mayo Clinic, Rochester, MN 55905, USA
    Mayo Clin Proc 85:532-7. 2010
    ..on patient outcome in the era of novel therapies, evaluating each individual component of the model-fluorescence in situ hybridization (FISH), conventional cytogenetics (CG), and the plasma cell labeling index-that segregates patients ..
  73. pmc Detection and enumeration of methanotrophs in acidic Sphagnum peat by 16S rRNA fluorescence in situ hybridization, including the use of newly developed oligonucleotide probes for Methylocella palustris
    S N Dedysh
    Institute of Microbiology, Russian Academy of Sciences, Moscow 117811, Russia
    Appl Environ Microbiol 67:4850-7. 2001
    ..were developed for specific detection of the acidophilic methanotroph Methylocella palustris using fluorescence in situ hybridization (FISH)...
  74. ncbi Combined morphologic and fluorescence in situ hybridization analysis of voided urine samples for the detection and follow-up of bladder cancer in patients with benign urine cytology
    Michal Daniely
    BioView Ltd, Rehovot, Israel
    Cancer 111:517-24. 2007
    ..The UroVysion fluorescence in situ hybridization (FISH) test demonstrated higher sensitivity over urine cytology in detecting bladder cancer by most ..
  75. pmc Spatial organization of bacterial flora in normal and inflamed intestine: a fluorescence in situ hybridization study in mice
    Alexander Swidsinski
    Innere Klinik, Gastroenterologie, Charité Humboldt Universität, 10098 Berlin, Germany
    World J Gastroenterol 11:1131-40. 2005
    ..To study the role of intestinal flora in inflammatory bowel disease (IBD)...
  76. pmc Is PTEN loss associated with clinical outcome measures in human prostate cancer?
    P McCall
    Section of Surgery, Division of Cancer Sciences and Molecular Pathology, University of Glasgow, Glasgow Royal Infirmary, Glasgow G31 3ER, UK
    Br J Cancer 99:1296-301. 2008
    ..031, hazard ratio 0.52, 95%CI 0.29-0.95). The results from this study demonstrate a role for both cytoplasmic and nuclear PTEN in progression of prostate cancer to the hormone-refractory state...
  77. ncbi Increased epidermal growth factor receptor gene copy number is associated with poor prognosis in head and neck squamous cell carcinomas
    Christine H Chung
    Division of Hematology Oncology, Department of Medicine, Vanderbilt Ingram Comprehensive Cancer Center, Vanderbilt University School of Medicine, Nashville, TN 37232 6307, USA
    J Clin Oncol 24:4170-6. 2006
    ..A better understanding of the EGFR pathway may improve the use of EGFR inhibitors in HNSCC...
  78. pmc Fluorescence in situ hybridization markers for prediction of cervical lymph node metastases
    Darawalee Wangsa
    Department of Oncology Pathology, Karolinska Institute, Karolinska University Hospital, Stockholm, Sweden
    Am J Pathol 175:2637-45. 2009
    ..We examined single genetic markers and a composite marker, comprised of three fluorescence in situ hybridization (FISH) probes targeting the genes LAMP3, PROX1, and PRKAA1, in pretreatment cervical biopsies from ..
  79. pmc In vivo dynamics of RNA polymerase II transcription
    Xavier Darzacq
    Department of Anatomy and Structural Biology, Albert Einstein College of Medicine, Bronx, New York 10461, USA
    Nat Struct Mol Biol 14:796-806. 2007
    ..Our systems approach, quantifying both polymerase and mRNA kinetics on a defined DNA template in vivo with high temporal resolution, opens new avenues for studying regulation of transcriptional processes in vivo...
  80. ncbi Evaluation of HER-2 gene status in gastric carcinoma using immunohistochemistry, fluorescence in situ hybridization, and real-time quantitative polymerase chain reaction
    Min A Kim
    Department of Pathology, Seoul National University College of Medicine, Seoul 110 799, Korea
    Hum Pathol 38:1386-93. 2007
    ..in the surgically resected tissues of 248 gastric carcinoma cases using immunohistochemistry (IHC), fluorescence in situ hybridization (FISH), and real-time quantitative polymerase chain reaction (q-PCR) and compared the results...
  81. ncbi The giant B chromosome of the cyprinid fish Alburnus alburnus harbours a retrotransposon-derived repetitive DNA sequence
    C G Ziegler
    Department of Human Genetics, Biocenter, University of Wuerzburg, Wuerzburg, Germany
    Chromosome Res 11:23-35. 2003
    ..Our results suggest that the supernumerary chromosome of A. alburnus is not derived from the normal chromosome complement but has evolved independently...
  82. pmc Quantifying telomere lengths of human individual chromosome arms by centromere-calibrated fluorescence in situ hybridization and digital imaging
    Sven Perner
    Institute of Pathology, University Hospitals of Ulm, Albert Einstein Allee 11, D 89081 Ulm, Germany
    Am J Pathol 163:1751-6. 2003
    ..Using T/C-FISH we have discovered an epigenetic process occurring in the human male postzygote or early embryo: in umbilical cord blood lymphocytes, telomeres on male Xqs are around 1100 bp shorter than female Xqs...
  83. ncbi daime, a novel image analysis program for microbial ecology and biofilm research
    Holger Daims
    Department für Mikrobielle Okologie, Universitat Wien, Vienna, Austria
    Environ Microbiol 8:200-13. 2006
    ..The scope of these methods, which include fluorescence in situ hybridization (FISH) with rRNA-targeted probes, is extended by digital image analysis routines that extract from ..
  84. ncbi Sensitive fluorescence in situ hybridization signal detection in maize using directly labeled probes produced by high concentration DNA polymerase nick translation
    A Kato
    Division of Biological Sciences, Tucker Hall, University of Missouri Columbia, Columbia, Missouri, 65211 7400, USA
    Biotech Histochem 81:71-8. 2006
    The signal produced by fluorescence in situ hybridization (FISH) often is inconsistent among cells and sensitivity is low. Small DNA targets on the chromatin are difficult to detect...
  85. pmc Comprehensive molecular cytogenetic analysis of sorghum genome architecture: distribution of euchromatin, heterochromatin, genes and recombination in comparison to rice
    J S Kim
    Department of Biochemistry and Biophysics, Texas A and M University, College Station, TX 77843, USA
    Genetics 171:1963-76. 2005
    Cytogenetic maps of sorghum chromosomes 3-7, 9, and 10 were constructed on the basis of the fluorescence in situ hybridization (FISH) of approximately 18-30 BAC probes mapped across each of these chromosomes...
  86. ncbi T(14;18)(q32;q21) involving IGH and MALT1 is a frequent chromosomal aberration in MALT lymphoma
    Berthold Streubel
    Department of Pathology, Division of Oncology, Vienna General Hospital, University of Vienna, Vienna, Austria
    Blood 101:2335-9. 2003
    ..Subsequent fluorescence in situ hybridization (FISH) studies disclosed that the immunoglobulin heavy-chain locus (IGH) and the MALT1 gene were ..
  87. pmc Telomere lengths of translocation-associated and nontranslocation-associated sarcomas differ dramatically
    Elizabeth Montgomery
    Department of Pathology, Johns Hopkins Medical Institutions, Baltimore, Maryland 21231 1000, USA
    Am J Pathol 164:1523-9. 2004
    ..Using a fluorescence in situ hybridization/immunofluorescence method to assess telomere lengths in archival tissues we analyzed these two types ..
  88. doi Fluorescence in situ hybridization (FISH) analysis of the interactions between honeybee larvae and Paenibacillus larvae, the causative agent of American foulbrood of honeybees (Apis mellifera)
    Dominique Yue
    Institute for Bee Research, Friedrich Engels Str 32, 16540 Hohen Neuendorf, Germany
    Environ Microbiol 10:1612-20. 2008
    ..We used fluorescence in situ hybridization (FISH) performed with P...
  89. ncbi Population data suggest that deletions of 1p36 are a relatively common chromosome abnormality
    H A Heilstedt
    Department of Molecular and Human Genetics, Baylor College of Medicine, Houston, Texas, USA
    Clin Genet 64:310-6. 2003
    ..The use of fluorescence in situ hybridization (FISH) with telomere region-specific probes has aided in the diagnosis of patients...
  90. doi Human epidermal growth factor receptor 2 assessment in a case-control study: comparison of fluorescence in situ hybridization and quantitative reverse transcription polymerase chain reaction performed by central laboratories
    Frederick L Baehner
    University of California, San Francisco, 1600 Divisadero St, Rm R200, San Francisco, CA 94063, USA
    J Clin Oncol 28:4300-6. 2010
    ..Here, we compare central laboratory HER2 assessed by fluorescence in situ hybridization (FISH) and quantitative reverse transcriptase polymerase chain reaction (RT-PCR) using Oncotype DX ..
  91. pmc Cross-species bacterial artificial chromosome-fluorescence in situ hybridization painting of the tomato and potato chromosome 6 reveals undescribed chromosomal rearrangements
    Xiaomin Tang
    Wageningen UR Plant Breeding, PB Wageningen, The Netherlands
    Genetics 180:1319-28. 2008
    ..level, bacterial artificial chromosomes (BACs) can be positioned on pachytene complements by fluorescence in situ hybridization (FISH) on homeologous chromosomes of related species...
  92. ncbi Epidermal growth factor receptor in non-small-cell lung carcinomas: correlation between gene copy number and protein expression and impact on prognosis
    Fred R Hirsch
    Department of Pathology, University of Colorado Health Sciences Center, Denver, CO 80262, USA
    J Clin Oncol 21:3798-807. 2003
    ..The molecular mechanisms responsible for EGFR overexpression are poorly understood...
  93. pmc Quantification of Hyphomicrobium populations in activated sludge from an industrial wastewater treatment system as determined by 16S rRNA analysis
    A C Layton
    Center for Environmental Biotechnology, The University of Tennessee, Knoxville, Tennessee 37996, USA
    Appl Environ Microbiol 66:1167-74. 2000
    ..Hyphomicrobium 16S rRNA comprised approximately 5% of the 16S rRNA in the activated sludge...
  94. ncbi Molecular dissection of hyperdiploid multiple myeloma by gene expression profiling
    Wee J Chng
    Department of Hematology Oncology, Mayo Clinic, Scottsdale, Arizona, USA
    Cancer Res 67:2982-9. 2007
    ..Furthermore, the signatures that defined these clusters may provide a basis for tailoring treatment to individual patients...
  95. pmc Detection and differentiation of chlamydiae by fluorescence in situ hybridization
    Sven Poppert
    Abteilung für Medizinische Mikrobiologie und Hygiene, Universitat Ulm, Ulm, Germany
    Appl Environ Microbiol 68:4081-9. 2002
    ..b>Fluorescence in situ hybridization (FISH) using rRNA-targeted oligonucleotide probes is widely used for the investigation of uncultured ..
  96. pmc The neurobeachin gene is disrupted by a translocation in a patient with idiopathic autism
    D Castermans
    J Med Genet 40:352-6. 2003
  97. ncbi Estrogen-receptor-alpha exchange and chromatin dynamics are ligand- and domain-dependent
    Z Dave Sharp
    Molecular Medicine, University of Texas Instititue of Biotechnology, San Antonio, TX, USA
    J Cell Sci 119:4101-16. 2006
    ..Collectively, quantitative observations from this physiologically relevant biosensor suggest stochastic-based dynamics influence gene regulation at the promoter level...
  98. ncbi Mating type switching in yeast controlled by asymmetric localization of ASH1 mRNA
    R M Long
    Department of Anatomy and Structural Biology, Albert Einstein College of Medicine, 1300 Morris Park Avenue, Bronx, NY 10461, USA
    Science 277:383-7. 1997
    ..A cis-acting element in the 3'-untranslated region of ASH1 mRNA is sufficient to localize a chimeric RNA to daughter cells. These results suggest that localization of mRNA may have been an early property of the eukaryotic lineage...
  99. ncbi DNA processing is not required for ATM-mediated telomere damage response after TRF2 deletion
    Giulia B Celli
    Laboratory for Cell Biology and Genetic, The Rockefeller University, 1230 York Avenue, New York, NY 10021, USA
    Nat Cell Biol 7:712-8. 2005
    ..Thus, activation of the ATM kinase pathway at chromosome ends does not require overhang degradation or other overt DNA processing...
  100. ncbi Physical mapping of barley genes using an ultrasensitive fluorescence in situ hybridization technique
    J L Stephens
    Department of Bioagricultural Sciences and Pest Management, Colorado State University, Fort Collins, CO 80523, USA
    Genome 47:179-89. 2004
    ..with a physical map using ultrasensitive fluorescence in situ hybridization (FISH) techniques for detecting signals from restriction fragment length polymorphism (RFLP) clones...
  101. ncbi Tissue-specific nuclear architecture and gene expression regulated by SATB1
    Shutao Cai
    Life Sciences Division, Lawrence Berkeley National Laboratory, 1 Cyclotron Road 84 171, University of California, Berkeley, California 94720, USA
    Nat Genet 34:42-51. 2003
    ..This was shown by fluorescence in situ hybridization on wild-type and Satb1-null thymocytes using in vivo SATB1-bound sequences as probes...

Research Grants72

  1. Optimization of DNA Repair by Abh8
    Lauren Endres; Fiscal Year: 2013
    ..To assess levels of DNA damage, we will use Fluorescence In Situ Hybridization (FISH) staining with H2AX to detect DNA strand breaks and use COMET assays as a quantitative ..
  2. Sex-Hormones and the TMPRSS2: ERG Fusion in Prostate Cancer Progression
    Lorelei Mucci; Fiscal Year: 2013
    ....
  3. Herpesvirus-induced telomerase dysregulation and tumor formation
    Keith William Jarosinski; Fiscal Year: 2011
    ..It will also address the mechanism of herpesvirus integration into the host genome and its importance for latent infection and transformation of lymphocytes. ..
  4. Biofilm Infections in Postsurgical, Trauma, and Critically Ill Patients
    Carol L Wells; Fiscal Year: 2013
    ..microbiological methods, confocal microscopy and high resolution electron microscopy, cell sorting, fluorescence in situ hybridization, and biochemical analyses...
  5. Localization and characterization of the Clostridium difficile biofilm
    Adam Driks; Fiscal Year: 2013
    ..In Aim 2, we will examine possible mechanisms by which C. difficile biofilms may contribute to CDI. ..
  6. The role of satellite rasiRNA in the Segregation Distorter system of Drosophila
    AMANDA MARIE LARRACUENTE; Fiscal Year: 2013
    ..localization or expression by looking for a disruption of Rsp rasiRNAs in SD/SD+ testes using Fluorescence In Situ Hybridization (Aim 2)...
  7. Rapid Analysis of Single T Cell Immunity Signatures in Tuberculosis
    Sanjay Tyagi; Fiscal Year: 2013
    ..Induced gene expression will be detected by mRNA enumeration using single molecule fluorescence in situ hybridization (smFISH)...
  8. The Role of Syntrophic Bacteria in Methanogenic Metabolism in the Human Gut
    Catherine Lozupone; Fiscal Year: 2013
    ..smithii using Fluorescence In Situ Hybridization (FISH) and 2) metagenomic sequencing of cell populations that were concentrated using flow cytometry...
  9. The role of the nucleoporin Nup98 in gene regulation
    Martin W Hetzer; Fiscal Year: 2013
    ..In addition, a potential effect of Nup98 on mRNA processing and export will be determined by RNA fluorescence in situ hybridization and analysis of recruitment of mRNA processing and nuclear export factors...
  10. Tb-FISH (Fluorescent in Situ Hybridization) Assay for Direct Detection of M. tube
    JYOTSNA S SHAH; Fiscal Year: 2010
    ..Based on the feasibility study performed in Phase I, we would like get a FDA approval for the TB-FISH assay. Therefore, in Phase II we shall perform all the studies required by FDA for a PMA filing. ..
  11. Prostacyclin Synthase and Receptors in Pulmonary Arterial Hypertension
    Mark W Geraci; Fiscal Year: 2011
    ..or PPAR? down-regulation in micro-dissected PAH lesions using methylation specific PCR (MSP) and fluorescence in situ hybridization (FISH)...
  12. Mechanisms by which VZV IE proteins interact with cell antiviral proteins to prev
    MARIA ACENA NAGEL; Fiscal Year: 2013
    ..Thus, an understanding of viral and host cell interactions leading to VZV latency and reactivation will provide the basis for strategies to prevent serious neurological disease caused by VZV. ..
  13. Base J and transcription termination in Leishmania
    PETER JOHN MYLER; Fiscal Year: 2013
    ..3, we will use in vivo and i vitro transcription assays, genome-wide chromatin mapping, as well as fluorescence in situ hybridization and chromosome conformation capture experiments to determine whether J terminates transcription ..
  14. Basis for Lymphomagenesis in Akt2 Transgenic Mice
    Joseph R Testa; Fiscal Year: 2013
    ..b>Fluorescence in situ hybridization, PCR, and magnetic resonance microimaging analyses will be employed to establish when the inv(6) ..
  15. Unconventional Synaptic Modulation at the Vertebrate Neuromuscular Junction
    Clark A Lindgren; Fiscal Year: 2010
    ..be tested by measuring levels of COX mRNA using quantitative PCR and determining its location using fluorescence in situ hybridization. These studies, along with an electrophysiological investigation of NMJs at which the PSCs have been ..
  16. Advanced Immunocytochemistry, In Situ Hybridization and Live Cell Imaging Course
    TERRI I GRODZICKER; Fiscal Year: 2013
    ..experience in localizing genes, chromosomes, mRNAs and proteins, by immunocytochemistry and fluorescence in situ hybridization (FISH), preparing and using labeled nucleic acid probes for FISH and labeled antibodies for ..
  17. The Role of Uncultivated Bacteria in Bacterial Vaginosis
    DAVID NEAL FREDRICKS; Fiscal Year: 2013
    ..b>Fluorescence in situ hybridization (FISH) will be used to assess the prevalence of bacterial biofilms in vaginal samples obtained from ..
  18. Combinatorial Imaging of the Oral Microbiome
    Floyd E Dewhirst; Fiscal Year: 2010
    ..The technique of fluorescence in situ hybridization (FISH) targeting ribosomal RNA is widely used to identify microbes and can be specific and sensitive,..
  19. Translational regulation of cellular morphogenesis in early Drosophila embryos
    Paul M Macdonald; Fiscal Year: 2012
    ..use a combination of in vitro translation and polyribosome-association assays, and high resolution fluorescence in situ hybridization to localize mRNAs directly bound by dFMRP...
  20. Geobiological approaches to understanding pulmonary infections in situ
    Dianne K Newman; Fiscal Year: 2013
    ..b>Fluorescence in situ hybridization (FISH) using 16S rRNA-directed probes will enable the spatial organization between different ..
  21. The Role of Sam68 in Synaptic Transmission and Plasticity
    Matthew Klein; Fiscal Year: 2013
    ..We will examine the ability of Sam68 to regulate local protein synthesis at dendritic spines using fluorescence in situ hybridization, and the photoconvertable fluorescent protein Dendra2...
  22. Partial-wave spectroscopic microscopy for the diagnosis of cholangiocarcinoma
    Yang Liu; Fiscal Year: 2010
    ..g., fluorescence in situ hybridization (FISH)) were applied...
  23. Mechanisms underlying loss of neural stem cell competence.
    Minoree Kohwi; Fiscal Year: 2013
    ..Together, the above information will provide crucial insight into the origins of neural diversity and have wide implications in harnessing stem cells for tissue replacement therapies. ..
  24. Mechanisms of Altered Gastrointestinal Dysfunction
    QiQi Zhou; Fiscal Year: 2013
    ..miRNA recognition properties of locked nucleic acid (LNA) modified oligonucleotide probes with fluorescence in situ hybridization (FISH) using tyramide signal amplification (TSA) technology...
  25. Peptidergic Control of Appetitive Ingestive Behaviors
    TIMOTHY JON BARTNESS; Fiscal Year: 2013
    ..This will greatly impact behavioral or drug therapies for obesity and for the genetic disorder Prader-Willi-Syndrome characterized by obesity and uncontrollable FH. ..
  26. Molecular basis for spotted fever group Rickettsia vector competence in ticks
    Kevin R Macaluso; Fiscal Year: 2013
    ..The efficiency of vertical transmission of Rickettsia will be assessed by fluorescence in situ hybridization and quantitative real-time PCR (qPCR) and the influence of SFG Rickettsia carriage on tick fitness ..
  27. Effects of traumatic brain injury on hippocampal network activity: age difference
    Susanna Rosi; Fiscal Year: 2013
    ..Using imaging method called catFISH (cellular compartment analysis of temporal activity with fluorescence in situ hybridization) it is possible t detect the sub-cellular localization (nucleus and cytoplasm) of Arc mRNA in ..
  28. Naphthalene exposure, chromosomal aberrations in poor urban school children.
    Manuela A Orjuela; Fiscal Year: 2012
    ..This study aims to increase understanding of childhood exposure to an understudied indoor air pollutant. ..
  29. THE ORGANIZATION OF ANIMAL CELL NUCLEI
    Joseph G Gall; Fiscal Year: 2013
    ..These studies could reveal aspects of RNA transcription and processing that are missed by conventional in vitro molecular studies. ..
  30. Genomic Complexity and Clinical Outcome in Chronic Lymphocytic Leukemia
    SAMI NIMER MALEK; Fiscal Year: 2013
    ..abstract_text> ..
  31. Safety of Non-Medicated Intravaginal Rings for Microbicide Delivery
    Marla J Keller; Fiscal Year: 2010
    ..quantitative PCR assays to assess the impact of rings on the vaginal microbiota and fluorescence in situ hybridization to determine if rings alter the vaginal epithelium leading to biofilm formation...
  32. Quantitative stepwise analysis of RNA interference
    Sua Myong; Fiscal Year: 2012
    ..Fourth step employs single molecule fluorescence in situ hybridization (smFISH) to directly measure the silencing efficacy of a given RNAi substrate...
  33. Early events in infection of epithelial cells with Epstein-Barr Virus
    SARAH M VALENCIA; Fiscal Year: 2011
    ..This will be done using a combination of real-time quantitative PCR (RT-QPCR), fluorescence in situ hybridization (FISH) and confocal microscopy...
  34. Utility of Plasmids in Studying Nuclear Organizing Effects
    Barbara Sollner Webb; Fiscal Year: 2009
    ..By fluorescence in situ hybridization, we find that transiently transfected plasmids carrying like kinds of transcriptional control ..
  35. Multiscale Framework for Molecular Heterogeneity Analysis
    Lee Cooper; Fiscal Year: 2013
    ..b>Fluorescence in situ hybridization imaging will be used to measure DNA content...
  36. FISH-Flow platform for host-based tuberculosis diagnostics
    Maria Laura Gennaro; Fiscal Year: 2013
    ..antigen-specific immune responses, (2) the versatility and robustness of nucleic acid detection by fluorescence in situ hybridization (FISH), and (3) the diagnostic and prognostic power of single-cell analysis by flow cytometry...
  37. Neurotransmitter Fate Specification and the Role of Voltage-Gated Calcium Channel
    MARGARET SAHA; Fiscal Year: 2009
    ..In addition, the focus of this proposal is on the role of voltage-gated calcium channels which have been widely implicated in a profound range of neurological (and non-neurological) human diseases. ..
  38. Molecular Genetics of Innate Immunity in C. elegans
    Dennis H Kim; Fiscal Year: 2013
    ..We anticipate that these studies will illuminate how the microbial environment of the host can modulate diverse aspects of physiology, including processes contributing to aging and longevity. ..
  39. Control of TCR V Beta Rearrangement &Allelic Exclusion
    Michael S Krangel; Fiscal Year: 2013
    ..Tcrb alleles and the nuclear lamina will be probed using four-color, three dimensional immuno-fluorescence in situ hybridization (3D Immuno-FISH) and DamID to evaluate whether the Tcrb locus adopts distinct conformations at the ..
  40. Epigenetic regulation of decidual inflammation
    Adrian Erlebacher; Fiscal Year: 2013
    ..Aim III develops a novel histone mark immunostaining/DNA fluorescence in situ hybridization (DNA-FISH) protocol for detecting the decidual gene silencing program at the single cell level so ..
  41. Identification and Characterization of Gene Fusions in Lung Adenocarcinoma
    Arul M Chinnaiyan; Fiscal Year: 2013
    ..the frequency of occurrence of the novel HSPA1A-NFKBIL1 gene fusion in primary lung cancers using fluorescence in situ hybridization with tissue microarrays, followed by functional analyses of the oncogenic activity of the fusion ..
  42. Development of Population-Based Screening for DiGeorge Syndrome Type 1
    AOY MITCHELL; Fiscal Year: 2009
    ....
  43. Plasmodium Genus and P. falciparum - P. vivax FISH Assays
    Jyotsna Shah; Fiscal Year: 2009
    ..5) Results can be obtained in one hour or less would be valuable. (6) Provides parasite morphology as the Giemsa stained smear. (7) Easy to perform. (8) Low Cost. ..
  44. Non-canonical gene regulation through a Drosophila p53 enhancer
    PAULA SCHLOSSINGER KURTZ; Fiscal Year: 2013
    ..Chromosome conformation capture (3C) as well as fluorescence in situ hybridization (FISH) indicated that this p53RE regulates its target genes through physical interactions by ..
  45. Stem Cells in Cardiac Repair and Angiogenesis
    Muhammad Ashraf; Fiscal Year: 2013
    ..modulation of the cells with AKT and angiopoietinl or their pharmacological preconditioning prior to transplantation promoted their survival as well as angiogenic and myogenic potential in young and aging animal hearts ..
  46. Olympus NanoZoomer RS Whole Slide Imaging System
    Brendan F Boyce; Fiscal Year: 2010
    ..These efforts should accelerate the research of investigators and help them get new data faster, with the goal of assisting them to write new proposals and thus generate new jobs at URMC. ..
  47. Detection of Chromosomal Translocations by Single Molecule RNA Imaging
    Mona Batish; Fiscal Year: 2013
    ..We will develop a novel method for the detection of these gene fusion products, which uses fluorescence in situ hybridization probes that bind specifically to different regions of fused mRNAs...
  48. Systems Biology in Single Cells by Super-resolution Barcoding
    Long Cai; Fiscal Year: 2011
    ..mRNA can be uniquely identified by labeling them each with a distinct combination of fluorophores by Fluorescence in situ hybridization (FISH)...
  49. Prenatal Exposures & Procarcinogenic Mutations
    Manuela Orjuela; Fiscal Year: 2007
    ..and range of chromosome aberrations in cord blood in a small subset of the CCCEH population using fluorescence in situ hybridization (FISH) with whole chromosome painting probes for chromosomes 1-6...
  50. Functional Activity Mapping of Brain Networks
    Carol A Barnes; Fiscal Year: 2010
    ..The method involves a sensitive fluorescence in situ hybridization technique, combined with high resolution confocal microscopy...
  51. Understanding Etiology: Mapping Clostridium difficile Spatial Distribution and Mi
    William E Holben; Fiscal Year: 2013
    ..difficile is active which of its various disease states is manifested. In addition, fluorescence in situ hybridization (FISH) wil be used to perform a detailed analysis of the spatial organization of C...
  52. De novo copy number variation and gene discovery in human brain malformations
    William B Dobyns; Fiscal Year: 2012
    ..found in normal individuals from potentially disease-associated changes, and will confirm CNV using fluorescence in situ hybridization (FISH) and microsatellite (STRP) analysis...
  53. ErbB Family in Pituitary Tumors
    Odelia Cooper; Fiscal Year: 2013
    ..We will test targeted therapy against this pathway to develop novel therapies in recurrent tumors. ..
  54. The Human Microbiome in Pediatric Abdominal Pain and Intestinal Inflammation
    James Versalovic; Fiscal Year: 2012
    ..hybridization with the PhyloChip, denaturing HPLC, quantitative real-time PCR, and bacterial fluorescence in situ hybridization probes will be applied as complementary strategies to gain an understanding of the intestinal ..
  55. A novel approach for diagnosis and newborn screening for 22q11 deletion syndrome
    Lisa Kobrynski; Fiscal Year: 2009
    ..The high incidence of this disorder, along with the need for early intervention, makes 22q11.2 deletion syndrome a good candidate for newborn screening. ..
  56. Rapid FISH Detection of EBV-infected Cells
    RAYMOND PRESTON STOWE; Fiscal Year: 2010
    ..We will develop a novel FISH-based assay to detect EBV-infected cells in peripheral blood at the single-cell level which can be used to better understand the immunology of EBV in aging. ..
  57. Definition of chromosomal abnormalities by next generation sequencing
    Nara Sobreira; Fiscal Year: 2012
    ..More recently, molecular cytogenetic characterizations using fluorescence in situ hybridization, array comparative genomic hybridization, and SNP genotyping together with molecular methods such as ..
  58. OTHER FUNCTIONS - R&D BIOMEDICAL (BASIC RESEARCH)
    DR DAVID HOUT; Fiscal Year: 2012
    ..of both a comprehensive panel of quantitative polymerase chain reaction (qPCR)-based assays and a fluorescence in situ hybridization (FISH) assay to collectively be used as a broad-based NSCLC detection panel to classify a previously ..
  59. OTHER FUNCTIONS - R&D BIOMEDICAL (BASIC RESEARCH)
    DR DAVID HOUT; Fiscal Year: 2013
    ..of both a comprehensive panel of quantitative polymerase chain reaction (qPCR)-based assays and a fluorescence in situ hybridization (FISH) assay to collectively be used as a broad-based NSCLC detection panel to classify a previously ..
  60. Targeted genomic characterization of uncultured bacteria from the human microbiot
    Mircea Podar; Fiscal Year: 2011
    ..We will use fluorescence in situ hybridization (FISH) combined with flow cytometry to obtain single cells and populations of targeted phylotypes, ..
  61. Enhancement Of Bone Regeneration From Human Adipose-Derived Stromal Cells
    Benjamin Levi; Fiscal Year: 2010
    ....
  62. Mycobacterium avium subspecies in Crohn's Disease
    Saleh Naser; Fiscal Year: 2005
    ..Is MAP present in CD lesions? Is it culturable? Can MAP be identified using PCR, RT-PCR or fluorescence in situ hybridization (FISH) techniques? Is there any immune reaction activity against MAP in CD patients? Is it cellular, ..
  63. TB- FISH Assay for Direct Detection of M. tuberculosis in unprocessed sputum
    Jyotsna Shah; Fiscal Year: 2007
    ..4. Cost less than <$5.00 5. From time of receipt of sputum sample to result is less than 2 hours. [unreadable] [unreadable] [unreadable] [unreadable] [unreadable] [unreadable]..
  64. Multiplex TB-M.avium complex Fluorescent in Situ hybridization Assay, direct from
    Jyotsna Shah; Fiscal Year: 2009
    ..2. Has specificity of amplified assays and sensitivity equivalent or better than acid-fast staining. 3. Does not require expensive equipment other than a microscope. 4. From time of receipt of sputum sample to result is about 2 hours. ..
  65. CONFERENCE--ISOLATED FETAL CELLS IN MATERNAL BLOOD
    Joe Simpson; Fiscal Year: 1993
    ..We thus are employing fluorescence in situ hybridization (FISH) with chromosome-specific DNA probes...
  66. MAPPING AND CLONING TRANSLOCATION BREAKPOINTS
    Janet Rowley; Fiscal Year: 2004
    ..to identify the chromosome location of the involved genes using defined genomic probes and fluorescence in situ hybridization (FISH). Samples containing malignant cells will be analyzed from two groups...
  67. Development of a FISH-Based HPV-Associated Cancer Detection Test
    Jane Houldsworth; Fiscal Year: 2009
    ..In the current application, Cancer Genetics, Inc. proposes to develop and validate a fluorescence in situ hybridization (FISH)-based HPV- associated cancer detection test (FHACT) to detect the three genomic abnormalities ..
  68. Full karyotype single cell interphase analysis
    Santiago Munne; Fiscal Year: 2005
    ..PGD is based on interphase cell analysis using fluorescence in situ hybridization (FISH). This approach is sensitive to time constraints and the number of cells available (i.e...
  69. A Rickettsial Symbiont Model for the Control of Tick-borne Diseases
    Jianmin Zhong; Fiscal Year: 2009
    ..pacificus by real-time PCR and fluorescence in situ hybridization;and iii) to study the effects of the Rickettsia species on the fitness of I...
  70. M. tuberculosis Fluorescent In-Situ Hybridization
    Jyotsna Shah; Fiscal Year: 2004
    ..Phase III: Marketing within US and Outside US. Setting up manufacturing plant in an underdeveloped country where TB is endemic, e.g. Kenya. ..
  71. PATHOBIOLOGY OF BREAST CANCER AND HORMONE RECEPTORS
    Michael Press; Fiscal Year: 2003
    ..b>Fluorescence in situ hybridization (FISH) was shown to be suitable for gene amplification studies in archival clinical specimens...
  72. CHROMOSOME PAIRING AND NONDISJUNCTION IN HUMAN MEIOSIS
    Edith Cheng; Fiscal Year: 2000
    ..Multicolor FISH will be used to evaluate for heterologous associations in early meiosis to determine their significance in the formation of structural rearrangements. ..