sequence tagged sites

Summary

Summary: Short tracts of DNA sequence that are used as landmarks in GENOME mapping. In most instances, 200 to 500 base pairs of sequence define a Sequence Tagged Site (STS) that is operationally unique in the human genome (i.e., can be specifically detected by the polymerase chain reaction in the presence of all other genomic sequences). The overwhelming advantage of STSs over mapping landmarks defined in other ways is that the means of testing for the presence of a particular STS can be completely described as information in a database.

Top Publications

  1. pmc Multiplex sequencing of plant chloroplast genomes using Solexa sequencing-by-synthesis technology
    Richard Cronn
    Pacific Northwest Research Station, USDA Forest Service, Corvallis, OR 97331, USA
    Nucleic Acids Res 36:e122. 2008
  2. ncbi Characterization and mapping of sequence-tagged microsatellite sites in the chickpea (Cicer arietinum L.) genome
    P Winter
    Plant Molecular Biology, Biocenter, University of Frankfurt, Germany
    Mol Gen Genet 262:90-101. 1999
  3. pmc A universal TagModule collection for parallel genetic analysis of microorganisms
    Julia Oh
    Department of Genetics, Stanford University, Palo Alto, CA 94305, USA
    Nucleic Acids Res 38:e146. 2010
  4. pmc A soybean transcript map: gene distribution, haplotype and single-nucleotide polymorphism analysis
    Ik Young Choi
    Soybean Genomics and Improvement Laboratory, USDA, ARS, Beltsville, Maryland 20705, USA
    Genetics 176:685-96. 2007
  5. pmc The Soybean Genome Database (SoyGD): a browser for display of duplicated, polyploid, regions and sequence tagged sites on the integrated physical and genetic maps of Glycine max
    Jeffry L Shultz
    Genomics Core Facility, Southern Illinois University at Carbondale, Carbondale, IL 62901 4415, USA
    Nucleic Acids Res 34:D758-65. 2006
  6. pmc Next-generation DNA sequencing of paired-end tags (PET) for transcriptome and genome analyses
    Melissa J Fullwood
    Genome Institute of Singapore, Agency for Science, Technology and Research, Singapore 138672, Singapore
    Genome Res 19:521-32. 2009
  7. pmc A 3347-locus genetic recombination map of sequence-tagged sites reveals features of genome organization, transmission and evolution of cotton (Gossypium)
    Junkang Rong
    Plant Genome Mapping Laboratory, University of Georgia, Athens, Georgia 30602, USA
    Genetics 166:389-417. 2004
  8. pmc Wnk1 kinase deficiency lowers blood pressure in mice: a gene-trap screen to identify potential targets for therapeutic intervention
    Brian P Zambrowicz
    Lexicon Genetics, 8800 Technology Forest Place, The Woodlands, TX 77381, USA
    Proc Natl Acad Sci U S A 100:14109-14. 2003
  9. pmc ProSight PTM: an integrated environment for protein identification and characterization by top-down mass spectrometry
    Richard D LeDuc
    W M Keck Center for Comparative and Functional Genomics, University of Illinois, Urbana, IL 61801, USA
    Nucleic Acids Res 32:W340-5. 2004
  10. pmc SAGETTARIUS: a program to reduce the number of tags mapped to multiple transcripts and to plan SAGE sequencing stages
    Laurent Bianchetti
    Plate forme Bioinformatique de Strasbourg, Institut de Génétique et de Biologie Moléculaire et Cellulaire CNRS INSERM ULP BP 163, 67404 Illkirch Cedex, France
    Nucleic Acids Res 35:e122. 2007

Research Grants

  1. GENETIC ANALYSIS OF PAROXYSMAL DYSTONIC CHOREOATHETOSIS
    John Fink; Fiscal Year: 2000
  2. MAPPING AND SEQUENCING THE HUMAN GENOME
    Richard Myers; Fiscal Year: 1999
  3. KENNY CAFFY SYNDROME: BONE SCLEROSIS AND HYPOCALCEMIA
    George Diaz; Fiscal Year: 2003
  4. MOLECULAR MECHANISMS LEADING TO RETT SYNDROME
    Uta Francke; Fiscal Year: 2002
  5. INTEGRATED ZEBRAFISH GENOMIC RESOURCES
    Stephen Johnson; Fiscal Year: 2003
  6. Genetic control of cross-resistances in P. falciparum
    Michael Ferdig; Fiscal Year: 2007
  7. BRANCH CAPTURE REACTION IN PHYSICAL MAPPING
    James Wetmur; Fiscal Year: 1993
  8. HUMAN YEAST ARTIFICIAL CHROMOSOME LIBRARY DATABASE
    Mark Frisse; Fiscal Year: 1993
  9. HIGH RESOLUTION SNP MAP OF THE HUMAN GENOME
    Richard Myers; Fiscal Year: 2000
  10. FIRST INTERNATIONAL WORKSHOP ON CHROMOSOME 18
    MICHELLE LE BEAU; Fiscal Year: 1993

Detail Information

Publications216 found, 100 shown here

  1. pmc Multiplex sequencing of plant chloroplast genomes using Solexa sequencing-by-synthesis technology
    Richard Cronn
    Pacific Northwest Research Station, USDA Forest Service, Corvallis, OR 97331, USA
    Nucleic Acids Res 36:e122. 2008
    ..056%, and conspicuous errors are evident from the assembly process. This efficient sequencing approach yields high-quality draft genomes and should have immediate applicability to genomes with comparable complexity...
  2. ncbi Characterization and mapping of sequence-tagged microsatellite sites in the chickpea (Cicer arietinum L.) genome
    P Winter
    Plant Molecular Biology, Biocenter, University of Frankfurt, Germany
    Mol Gen Genet 262:90-101. 1999
    ..05) from the expected 1:1 ratio. The majority of these loci (73%) were located in three distinct regions of the genome. The present STMS marker map represents the most advanced co-dominant DNA marker map of the chickpea genome...
  3. pmc A universal TagModule collection for parallel genetic analysis of microorganisms
    Julia Oh
    Department of Genetics, Stanford University, Palo Alto, CA 94305, USA
    Nucleic Acids Res 38:e146. 2010
    ..The publicly available TagModule collection is a platform-independent resource for the functional genomics of a wide range of microbial systems in the post-genome era...
  4. pmc A soybean transcript map: gene distribution, haplotype and single-nucleotide polymorphism analysis
    Ik Young Choi
    Soybean Genomics and Improvement Laboratory, USDA, ARS, Beltsville, Maryland 20705, USA
    Genetics 176:685-96. 2007
    ....
  5. pmc The Soybean Genome Database (SoyGD): a browser for display of duplicated, polyploid, regions and sequence tagged sites on the integrated physical and genetic maps of Glycine max
    Jeffry L Shultz
    Genomics Core Facility, Southern Illinois University at Carbondale, Carbondale, IL 62901 4415, USA
    Nucleic Acids Res 34:D758-65. 2006
    ..The genome browser portal showed each data type as a separate track. Tetraploid, octoploid, diploid and homologous regions are shown clearly in relation to an integrated genetic and physical map...
  6. pmc Next-generation DNA sequencing of paired-end tags (PET) for transcriptome and genome analyses
    Melissa J Fullwood
    Genome Institute of Singapore, Agency for Science, Technology and Research, Singapore 138672, Singapore
    Genome Res 19:521-32. 2009
    ..With its versatile and powerful nature for DNA analysis, the PET sequencing strategy has a bright future ahead...
  7. pmc A 3347-locus genetic recombination map of sequence-tagged sites reveals features of genome organization, transmission and evolution of cotton (Gossypium)
    Junkang Rong
    Plant Genome Mapping Laboratory, University of Georgia, Athens, Georgia 30602, USA
    Genetics 166:389-417. 2004
    ..These data provide new insights into polyploid evolution and represent a foundation for assembly of a finished sequence of the cotton genome...
  8. pmc Wnk1 kinase deficiency lowers blood pressure in mice: a gene-trap screen to identify potential targets for therapeutic intervention
    Brian P Zambrowicz
    Lexicon Genetics, 8800 Technology Forest Place, The Woodlands, TX 77381, USA
    Proc Natl Acad Sci U S A 100:14109-14. 2003
    ..These results demonstrate that Wnk1 is a regulator of blood pressure critical for development and illustrate the utility of a functional screen driven by a sequence-based mutagenesis approach...
  9. pmc ProSight PTM: an integrated environment for protein identification and characterization by top-down mass spectrometry
    Richard D LeDuc
    W M Keck Center for Comparative and Functional Genomics, University of Illinois, Urbana, IL 61801, USA
    Nucleic Acids Res 32:W340-5. 2004
    ..The user can optionally control how much of this biological variability should be searched...
  10. pmc SAGETTARIUS: a program to reduce the number of tags mapped to multiple transcripts and to plan SAGE sequencing stages
    Laurent Bianchetti
    Plate forme Bioinformatique de Strasbourg, Institut de Génétique et de Biologie Moléculaire et Cellulaire CNRS INSERM ULP BP 163, 67404 Illkirch Cedex, France
    Nucleic Acids Res 35:e122. 2007
    ..SAGETTARIUS is web interfaced and freely accessible to academic users...
  11. pmc A bacterial artificial chromosome library for sequencing the complete human genome
    K Osoegawa
    Department of Cancer Genetics, Roswell Park Cancer Institute, Buffalo, New York 14263, USA
    Genome Res 11:483-96. 2001
    ....
  12. ncbi A rice gene activation/knockout mutant resource for high throughput functional genomics
    Yue Ie Hsing
    Institute of Plant and Microbial Biology, Academia Sinica, Nankang, Taipei 115, Taiwan, ROC
    Plant Mol Biol 63:351-64. 2007
    ..Our mutant population offers a highly valuable resource for high throughput rice functional analyses using both forward and reverse genetic approaches...
  13. pmc A web server for performing electronic PCR
    Kirill Rotmistrovsky
    National Center for Biotechnology Information, National Library of Medicine, National Institutes of Health, Bethesda, MD 20984, USA
    Nucleic Acids Res 32:W108-12. 2004
    Electronic PCR' (e-PCR) refers to a computational procedure that is used to search DNA sequences for sequence tagged sites (STSs), each of which is defined by a pair of primer sequences and an expected PCR product size...
  14. pmc CATMA: a complete Arabidopsis GST database
    Mark L Crowe
    The John Innes Centre, Norwich Research Park, Colney, Norwich NR4 7UH, UK
    Nucleic Acids Res 31:156-8. 2003
    ..The database is searchable by sequence name, sequence homology or direct SQL query, and is available through the CATMA website at http://www.catma.org/...
  15. pmc The impact of SNPs on the interpretation of SAGE and MPSS experimental data
    Ana Paula M Silva
    Laboratory of Molecular Biology, Ludwig Institute for Cancer Research, 01509 010, Sao Paulo, SP, Brazil
    Nucleic Acids Res 32:6104-10. 2004
    ..The availability of our SNP-associated alternative tag database will certainly improve the interpretation of SAGE and MPSS experiments...
  16. pmc High-density integrated linkage map based on SSR markers in soybean
    Tae Young Hwang
    National Agricultural Research Center for Hokkaido Region, Sapporo, Hokkaido 062 8555, Japan
    DNA Res 16:213-25. 2009
    ..8. Our high-density linkage map should facilitate ongoing and future genomic research such as analysis of quantitative trait loci and positional cloning in addition to marker-assisted selection in soybean breeding...
  17. pmc GABI-Kat SimpleSearch: an Arabidopsis thaliana T-DNA mutant database with detailed information for confirmed insertions
    Yong Li
    Institute of Genome Research, Center for Biotechnology CeBiTec, Bielefeld University, Universitaetsstrasse 25, D 33594 Bielefeld, Germany
    Nucleic Acids Res 35:D874-8. 2007
    ..This information not only helps users to evaluate the usefulness of the mutant lines, but also covers a big part of the molecular characterization of the insertion alleles...
  18. pmc Map-based cloning of leaf rust resistance gene Lr21 from the large and polyploid genome of bread wheat
    Li Huang
    Wheat Genetics Resource Center, Department of Plant Pathology, Kansas State University, Manhattan 66506 5502, USA
    Genetics 164:655-64. 2003
    ..The successful map-based cloning approach as demonstrated here now opens the door for cloning of many crop-specific agronomic traits located in the gene-rich regions of bread wheat...
  19. pmc Oryza Tag Line, a phenotypic mutant database for the Genoplante rice insertion line library
    Pierre Larmande
    CIRAD INRA SUPAGRO UMII, UMR 1098 DAP, Biological Systems Department, 2477 Avenue Agropolis, F 34398 Montpellier cedex 5, France
    Nucleic Acids Res 36:D1022-7. 2008
    ..8004 and 6101 of the 13,928 lines are characterized by at least one T-DNA and one Tos17 FST, respectively that OTL links to the rice genome browser OryGenesDB...
  20. ncbi A rescue strategy for multimapping short sequence tags refines surveys of transcriptional activity by CAGE
    Geoffrey J Faulkner
    The Institute for Molecular Bioscience, University of Queensland, Brisbane, QLD 4072, Australia
    Genomics 91:281-8. 2008
    ..These results suggest that the multimap tags produced by high-throughput, short sequence tag-based approaches can be rescued to augment greatly the transcriptome coverage provided by single-map tags alone...
  21. pmc A large-scale, gene-driven mutagenesis approach for the functional analysis of the mouse genome
    Jens Hansen
    Institute of Developmental Genetics, GSF National Research Center for Environment and Health, D 85764 Neuherberg, Germany
    Proc Natl Acad Sci U S A 100:9918-22. 2003
    ..Thus, gene trapping allows a large-scale and cost-effective production of ES cell clones with mutations distributed throughout the genome, a resource likely to accelerate genome annotation and the in vivo modeling of human disease...
  22. pmc Identifying novel transcripts and novel genes in the human genome by using novel SAGE tags
    Jianjun Chen
    Department of Medicine, University of Chicago, 5841 South Maryland, MC2115, Chicago, IL 60637, USA
    Proc Natl Acad Sci U S A 99:12257-62. 2002
    ..Our study indicates that by using novel SAGE tags as probes, we should be able to identify efficiently many novel transcripts/novel genes in the human genome that are difficult to identify by conventional methods...
  23. pmc A quantitative evaluation of SAGE
    J Stollberg
    Pacific Biomedical Research Center, University of Hawai i at Manoa, Honolulu, Hawaii 96822, USA
    Genome Res 10:1241-8. 2000
    ..It also is shown that while in many cases it is probable that a given tag sequence is unique within the genome, in larger genomes this cannot be safely assumed...
  24. pmc Diverse transcriptional initiation revealed by fine, large-scale mapping of mRNA start sites
    Y Suzuki
    Department of Virology, Institute of Medical Science, University of Tokyo, 4 6 1 Shirokanedai, Minato ku, Tokyo 108 8639, Japan
    EMBO Rep 2:388-93. 2001
    ..They were distributed over 61.7 bp with a standard deviation of 19.5. Our finding may reflect the dynamic nature of transcriptional initiation events of human genes in vivo...
  25. ncbi A physical map of the human Y chromosome
    C A Tilford
    Howard Hughes Medical Institute, and Department of Biology, Massachusetts Institute of Technology, Cambridge 02142, USA
    Nature 409:943-5. 2001
    ..The markers anchor 1,038 bacterial artificial chromosome clones, 199 of which form a tiling path for sequencing...
  26. ncbi A high-resolution metric HAPPY map of human chromosome 14
    P H Dear
    Medical Research Council Laboratory of Molecular Biology, Cambridge, United Kingdom
    Genomics 48:232-41. 1998
    ..We show also that the map serves as a robust scaffold for building physical maps using large-insert clones...
  27. pmc SAGEmap: a public gene expression resource
    A E Lash
    National Center for Biotechnology Information, National Institutes of Health, Bethesda, MD 20894 USA
    Genome Res 10:1051-60. 2000
    ....
  28. pmc Mapping of transcription start sites in Saccharomyces cerevisiae using 5' SAGE
    Zhihong Zhang
    Department of Molecular Genetics and Microbiology, Duke University Medical Center Durham, NC 27710, USA
    Nucleic Acids Res 33:2838-51. 2005
    ..The TSS data allowed the identification of a previously unrecognized gene, uncovered errors in previous annotation, and identified potential regulatory RNAs and upstream open reading frames in 5'-untranslated region...
  29. pmc Accurate and unambiguous tag-to-gene mapping in serial analysis of gene expression
    Rodrigo Malig
    Departamento de Genetica Molecular y Microbiologia, Facultad de Ciencias Biologicas, Pontificia Universidad Catolica de Chile, Alameda 340, Santiago, Chile
    BMC Bioinformatics 7:487. 2006
    ..The method provides a complete annotation of potential virtual SAGE tags within a genome, along with an estimation of their confidence for experimental observation that ranks tags that present multiple matches in the genome...
  30. pmc Construction of bovine whole-genome radiation hybrid and linkage maps using high-throughput genotyping
    S D McKay
    Department of Agricultural, Food and Nutritional Science, University of Alberta, Edmonton, AB, Canada
    Anim Genet 38:120-5. 2007
    ..0) in a fraction of the time it would have taken with conventional typing and genotyping methods...
  31. pmc OryGenesDB: a database for rice reverse genetics
    G Droc
    CIRAD, UMR PIA 1096 TA, 40 03 Avenue Agropolis, 34398 Montpellier Cedex 5, France
    Nucleic Acids Res 34:D736-40. 2006
    ..As a first step toward plant comparative genomics, we have linked the rice and Arabidopsis whole genome using all the predicted pairs of orthologs by best BLAST mutual hit (BBMH) connectors...
  32. ncbi FPC: a system for building contigs from restriction fingerprinted clones
    C Soderlund
    Sanger Centre, Hinxton, Cambridge, UK
    Comput Appl Biosci 13:523-35. 1997
    ..A contig contains two or more overlapping clones and a minimal tiling path of clones is selected to be sequenced. Interactive software with algorithmic support is necessary to assemble the clones into contigs quickly...
  33. pmc Next-generation tag sequencing for cancer gene expression profiling
    A Sorana Morrissy
    Genome Sciences Centre, Vancouver, British Columbia, Canada
    Genome Res 19:1825-35. 2009
    ....
  34. pmc Multiplex sequencing of paired-end ditags (MS-PET): a strategy for the ultra-high-throughput analysis of transcriptomes and genomes
    Patrick Ng
    Genome Institute of Singapore, 60 Biopolis Street, 02 01, Genome, Singapore 138672, Singapore
    Nucleic Acids Res 34:e84. 2006
    ....
  35. ncbi The new role of SAGE in gene discovery
    Kenneth R Boheler
    Laboratory of Cardiovascular Science, National Institute on Aging, National Institutes of Health, 5600 Nathan Shock Drive, Baltimore, MD 21224, USA
    Trends Biotechnol 21:55-7; discussion 57-8. 2003
    ..Genome and transcriptome complexity is thus greater than predicted and many of the missing genes are probably expressed in low copy numbers or only in early embryonic tissues...
  36. pmc DeepSAGE--digital transcriptomics with high sensitivity, simple experimental protocol and multiplexing of samples
    Kåre L Nielsen
    Department of Biotechnology, Chemistry and Environmental Engineering, Aalborg University DK 9000 Aalborg, Denmark
    Nucleic Acids Res 34:e133. 2006
    ..Importantly, many transcripts were detected that cannot be matched to known genes, but is likely to be part of the abiotic stress-response in potato...
  37. pmc Targeted high-throughput sequencing of tagged nucleic acid samples
    Matthias Meyer
    Max Planck Institute for Evolutionary Anthropology, Deutscher Platz 6, D 04103 Leipzig, Germany
    Nucleic Acids Res 35:e97. 2007
    ..PTS dramatically increases the sequencing throughput of samples in parallel and thus fully mobilizes the resources of the 454 technology for targeted sequencing...
  38. ncbi Polymorphism identification within 50 equine gene-specific sequence tagged sites
    D M Shubitowski
    Department of Large Animal Clinical Sciences, Michigan State University, East Lansing, MI 48824, USA
    Anim Genet 32:78-88. 2001
    ..The pool-and-sequence method allows identification of polymorphisms in horse populations and will be a valuable tool for future disease gene and comparative mapping in horses...
  39. ncbi A linkage map of hexaploid oat based on grass anchor DNA clones and its relationship to other oat maps
    V A Portyanko
    Department of Agronomy, Iowa State University, Ames 50010, USA
    Genome 44:249-65. 2001
    ..The relationships between many Avena linkage groups remain uncertain, however, due to incomplete coverage by comparative markers and to complications introduced by genomic duplications and rearrangements...
  40. ncbi Development of a STS marker assay for detecting loss of heterozygosity in rice hybrids
    X Li
    Forage and Range Research Laboratory, United States Department of Agriculture, Agricultual Research Services, Logan, UT 84322-6300, USA
    Genome 44:23-6. 2001
    ..This STS-marker system provides a robust assay for detecting the occurrence of LOH in rice hybrid progenies...
  41. ncbi Pm37, a new broadly effective powdery mildew resistance gene from Triticum timopheevii
    L D Perugini
    Department of Crop Science, North Carolina State University, Raleigh, NC 27695, USA
    Theor Appl Genet 116:417-25. 2008
    ..These new markers can be used in marker-assisted selection schemes to develop wheat cultivars with pyramids of powdery mildew resistance genes, including combinations of Pm37 in coupling linkage with alleles of the Pm1 locus...
  42. ncbi The Y chromosome-specific STS marker MS2 and its peripheral regions on the Y chromosome of the dioecious plant Silene latifolia
    Kotaro Ishii
    Department of Integrated Biosciences, Graduate School of Frontier Sciences, University of Tokyo, Kashiwanoha 5 1 5, Kashiwa, Chiba 277 8562, Japan
    Genome 51:251-60. 2008
    ..latifolia. These results suggest an accumulation of retrotransposons and segmental duplications in peripheral regions of MS2 during the early stage of sex chromosome evolution...
  43. ncbi Identification and mapping of pm2026: a recessive powdery mildew resistance gene in an einkorn (Triticum monococcum L.) accession
    Hongxing Xu
    The Applied Plant Genomics Lab, Crop Genomics and Bioinformatics Center and National Key Lab of Crop Genetics and Germplasm Enhancement, College of Agricultural Sciences, Nanjing Agricultural University, Nanjing 210095, Jiangsu, People s Republic of China
    Theor Appl Genet 117:471-7. 2008
    ..We have successfully transferred it to a tetraploid background, and this resistance stock will now be used as the bridge parent for its transfer to common wheat...
  44. ncbi Physical and transcriptional map of the mouse Chromosome 10 proximal region syntenic to human 6q16-q21
    N Chalhoub
    Institut de Recherches Cliniques de Montreal, Faculte de Medecine de l Universite de Montreal, 110 avenue des Pins Ouest, Montreal, Quebec, H2W 1R7, Canada
    Mamm Genome 12:887-92. 2001
    ..The physical and transcriptional map presented here will provide novel resources to isolate the gl locus associated with osteopetrosis, and will also provide candidate loci for other defects mapped on human Chr 6q...
  45. pmc Analysis and mapping of randomly chosen bacterial artificial chromosome clones from hexaploid bread wheat
    Katrien M Devos
    Department of Crop and Soil Sciences, University of Georgia, Athens, GA 30602, USA
    Proc Natl Acad Sci U S A 102:19243-8. 2005
    ....
  46. ncbi Assignment of developmentally regulated GTP-binding protein (DRG2) to human chromosome band 17p11.2 with somatic cell hybrids and localization to the Smith-Magenis syndrome critical interval
    C N Vlangos
    Department of Zoology and Pediatrics and Human Development, Michigan State University, East Lansing 48824, USA
    Cytogenet Cell Genet 88:283-5. 2000
  47. ncbi Assignment of E-cadherin (CDH1) and KSP-cadherin (CDH16) to chromosome 16q22.1 by radiation hybrid mapping
    D Baudry
    INSERM UR 383, Hopital Necker Enfants Malades, Paris, France
    Cytogenet Cell Genet 88:253-4. 2000
  48. ncbi Assignment of the human metabotropic glutamate receptor gene GRM4 to chromosome 6 band p21.3 by radiation hybrid mapping
    A Barbon
    Division of Biology and Genetics, Department of Biomedical Sciences and Biotechnologies, University of Brescia, Italy
    Cytogenet Cell Genet 88:210. 2000
  49. ncbi Equine synteny mapping of comparative anchor tagged sequences (CATS) from human Chromosome 5
    A R Caetano
    University of California Davis, Veterinary Genetics Laboratory, Davis, California 95616 8744, USA
    Mamm Genome 10:1082-4. 1999
    ....
  50. ncbi A radiation hybrid map of the zebrafish genome
    R Geisler
    Max Planck Institut fur Entwicklungsbiologie, Spemannstr 35, 72076 Tubingen, Germany
    Nat Genet 23:86-9. 1999
    ..9%. We found the average marker retention frequency to be 18.4%. One cR3000 is equivalent to 61 kb, resulting in a potential resolution of approximately 350 kb...
  51. ncbi Genetic and physical maps around the sex-determining M-locus of the dioecious plant asparagus
    Alexa Telgmann-Rauber
    Plant Breeding Institute, Christian Albrechts University Kiel, Olshausenstr 40, Kiel 24098, Germany
    Mol Genet Genomics 278:221-34. 2007
    ..Given that asparagus still rarely produces hermaphroditic flowers and has homomorphic sex chromosomes, this species may be an ideal system to further investigates early sex chromosome evolution and the origins of dioecy...
  52. ncbi BAC-derived diagnostic markers for sex determination in asparagus
    A Jamsari
    Plant Breeding Institute, Christian Albrechts University of Kiel, Olshausenstrasse 40, 24098, Kiel, Germany
    Theor Appl Genet 108:1140-6. 2004
    ..The markers are useful for further chromosome walking studies and as diagnostic markers for selecting male plants homozygous for the M gene...
  53. ncbi [NotI-STS markers for human chromosome 3 are gene markers]
    G E Sulimova
    Mol Biol (Mosk) 39:687-701. 2005
    ..Obtained data evidence possibility of NotI-STS marker application as gene markers and allow considering constructed NotI-map as gene map of human chromosome 3...
  54. ncbi Development and characterization of CATS markers for genetic linkage mapping in the house musk shrew, Suncus murinus
    Samuel Adjei
    Laboratory of Animal Genetics, Department of Applied Molecular Biosciences, Graduate School of Bioagricultural Science, Nagoya University, Japan
    Exp Anim 54:173-80. 2005
    ....
  55. ncbi AFLP targeting of the 1-cM region conferring the vrs1 gene for six-rowed spike in barley, Hordeum vulgare L
    Congfen He
    Genetic Diversity Department, National Institute of Agrobiological Science, Tsukuba 305 8602, Japan
    Genome 47:1122-9. 2004
    ..Allelism between the AFLPs and corresponding STS markers was confirmed genetically, indicating the usefulness of the STSs as genetic markers...
  56. ncbi Relationships among 3 Kochia species based on PCR-generated molecular sequences and molecular cytogenetics
    B S Lee
    Department of Biology, School of Natural Sciences, Jeonju University, Republic of Korea
    Genome 48:1104-15. 2005
    ..prostrata, K. americana, and K. scoparia, respectively. It is concluded that these 3 Kochia species are so genomically distinct that gene introgression among them would be extremely rare...
  57. ncbi Development and linkage mapping of E-STS and RGA markers for functional gene homologues in apple
    Suresh Naik
    Agriculture and Agri Food Canada, Pacific Agri Food Centre, Summersland, Canada
    Genome 49:959-68. 2006
    ..Clusters of E-STS and RGA loci were located in linkage groups previously identified to carry resistance genes, some of which confer resistance to apple scab disease caused by Venturia inaequalis (Cke.) Wint...
  58. ncbi Development of PCR-based codominant markers flanking the Alt3 gene in rye
    - Miftahudin
    Department of Agronomy, University of Missouri Columbia, 65211, USA
    Genome 47:231-8. 2004
    ..4 cM and can be used to facilitate high-resolution mapping of the gene. The markers might also be used for marker-assisted selection in rye or wheat (Triticum aestivum L.) breeding programs to obtain Al-tolerant lines and (or) cultivars...
  59. pmc High-density rat radiation hybrid maps containing over 24,000 SSLPs, genes, and ESTs provide a direct link to the rat genome sequence
    Anne E Kwitek
    Human and Molecular Genetics Center and Department of Physiology, Medical College of Wisconsin, Milwaukee, Wisconsin 53226, USA
    Genome Res 14:750-7. 2004
    ..This new integrated RH map contains approximately 10 RH-mapped elements per Mb on the genome assembly, enabling the RH maps to serve as a scaffold for a variety of data visualization tools...
  60. ncbi Development of PCR markers for the Pl5/Pl8 locus for resistance to Plasmopara halstedii in sunflower, Helianthus annuus L. from complete CC-NBS-LRR sequences
    O Radwan
    UMR 1095 INRA UBP Amélioration et Santé des Plantes, Universite Blaise Pascal, 24 avenue des Landais, 63177 Aubiere Cedex, France
    Theor Appl Genet 109:176-85. 2004
    ..The two sequences were then used to develop 14 sequence tagged sites (STS) within the Pl5/Pl8 locus conferring resistance to a wide range of P. halstedii races...
  61. ncbi PCR-based markers for the powdery mildew resistance gene Pm4a in wheat
    Z Q Ma
    National Key Lab of Crop Genetics and Germplasm Enhancement, College of Agricultural Sciences, Nanjing Agricultural University, 210095 Jiangsu, China
    Theor Appl Genet 109:140-5. 2004
    ..Based on these sequences a new PCR marker was identified, which detected a 470-bp product only in the Pm4a-containing lines. These PCR-based markers provide a cost-saving option for marker-assisted selection of Pm4a...
  62. ncbi An SSR- and AFLP-based genetic linkage map of tall fescue (Festuca arundinacea Schreb.)
    Malay C Saha
    The Samuel Roberts Noble Foundation, 2510 Sam Noble Parkway, Ardmore, OK 73402, USA
    Theor Appl Genet 110:323-36. 2005
    ..Except for a few gaps, markers are well distributed throughout the genome. Clustering of those markers showing significant segregation distortion (23% of total) was observed in four of the LGs of the integrated map...
  63. ncbi STS markers for the wheat yellow rust resistance gene Yr5 suggest a NBS-LRR-type resistance gene cluster
    P H Smith
    Department of Disease and Stress Biology, John Innes Centre, Colney Lane, Norwich NR4 7UH, UK
    Genome 50:259-65. 2007
    ....
  64. ncbi Allelic imbalance at intragenic markers of Tbx18 is a hallmark of murine osteosarcoma
    M Rosemann
    Institute of Pathology, GSF National Research Center for Environment and Health, Neuherberg, Germany
    Carcinogenesis 24:371-6. 2003
    ..Given the haploinsufficiency phenotypes reported for other T-box genes, we speculate that AI may influence the function of Tbx18 during osteosarcomagenesis...
  65. ncbi Fine mapping and targeted SNP survey using rice-wheat gene colinearity in the region of the Bo1 boron toxicity tolerance locus of bread wheat
    Thorsten Schnurbusch
    Australian Centre for Plant Functional Genomics, University of Adelaide, Waite Campus, PMB1, Glen Osmond, SA, 5064, Australia
    Theor Appl Genet 115:451-61. 2007
    ..The markers and rice colinearity described here represent tools that will assist B tolerance breeding and the positional cloning of Bo1...
  66. ncbi Genetic mapping and tagging of wheat genes using RAPD, STS and SSR markers
    Elena K Khlestkina
    Institute of Cytology and Genetics, Siberian Branch of the Russian Academy of Sciences, Novosibirsk, 630090, Russia
    Cell Mol Biol Lett 7:795-802. 2002
    ..Therefore, they could be used for mapping and/or tagging the vernalisation response (Vrn-A1, Vrn-B1, Vrn-D1) and homoeologous pairing (Ph1) genes...
  67. ncbi Molecular characterization of a polymorphic 3-Mb deletion at chromosome Yp11.2 containing the AMELY locus in Singapore and Malaysia populations
    Rita Y Y Yong
    Defence Medical and Environmental Research Institute, DSO National Laboratories, 27 Medical Drive 12 00, Singapore, Singapore
    Hum Genet 122:237-49. 2007
    ..The breakpoint sequences provide further information to a better understanding of the NAHR mechanism and DNA rearrangements due to higher order genomic architecture...
  68. ncbi Tpm1, a locus controlling IL-12 responsiveness, acts by a cell-autonomous mechanism
    M L Guler
    Department of Pathology and Center for Immunology, Howard Hughes Medical Institute, Washington University School of Medicine, St Louis, MO 63110, USA
    J Immunol 162:1339-47. 1999
    ..This result strongly implies that despite the proximity of our locus to the IL-13/IL-4 gene cluster, these cytokines are not candidates for Tpm1...
  69. pmc A yeast artificial chromosome-based map of the region of chromosome 20 containing the diabetes-susceptibility gene, MODY1, and a myeloid leukemia related gene
    M Stoffel
    Howard Hughes Medical Institute, University of Chicago, IL 60637, USA
    Proc Natl Acad Sci U S A 93:3937-41. 1996
    ..The myeloid tumor suppressor gene was localized to an 18-centimorgan interval (approximately equal to 13 Mb) between RPN2 and D20S17. This physical map will facilitate the isolation of MODY1 and the myeloid tumor suppressor gene...
  70. ncbi A YAC contig joining the desmocollin and desmoglein loci on human chromosome 18 and ordering of the desmocollin genes
    C M Cowley
    Division of Membrane Biology, National Institute for Medical Research, The Ridgeway, Mill Hill, London, United Kingdom
    Genomics 42:208-16. 1997
    ....
  71. ncbi A sequence-tagged site map of human chromosome 11
    M W Smith
    Molecular Genetics Laboratory, Salk Institute for Biological Studies, La Jolla, California 92037
    Genomics 17:699-725. 1993
    ..Computer analysis of this sequence has identified and therefore mapped at least eight new genes on chromosome 11...
  72. pmc A 3-Mb contig from D11S987 to MLK3, a gene-rich region in 11q13
    C M Smith
    Genome Res 7:835-42. 1997
    ....
  73. ncbi Sequence correction and reassignment of the TaqI polymorphic site in the human inter-gamma-globin gene region, an African-specific marker
    C Guidal
    Laboratoire de Biochimie Genetique, Hopital Robert Debre, Paris, France
    Hum Biol 66:323-8. 1994
    ..Accordingly, the polymorphic TaqI site, originally described at position 37503 as an African-specific marker, is actually located at position 37992. A PCR-based assay for this anthropologically important genetic marker is described...
  74. ncbi Regional assignment of seven loci to 12p13.2-pter by PCR analysis of somatic cell hybrids containing the der(12) or the der(X) chromosome from a mesothelioma showing t(X;12)(q22;p13)
    J Aerssens
    Arthritis and Metabolic Bone Disease Research Unit, Center for Human Genetics K U, Leuven, Belgium
    Genomics 20:119-21. 1994
    ..PCR analysis based on genomic sequences, with DNA from both somatic cell hybrids, enabled us to map CACNL1A1, FGF6, D12S370, D12S38OE, D12S381E, and D12S382E distally to the 12p13 breakpoint and to VWF...
  75. ncbi A novel tandem repeat sequence located on human chromosome 4p: isolation and characterization
    M Kogi
    Ikeda GenoSPHERE Project, ERATO, JRDC, Tokai University School of Medicine, Kanagawa, Japan
    Genomics 42:278-83. 1997
    ..However, two homologous STS markers were found in the database. We concluded that CRS447/pRS447 is a novel tandem repeat sequence that is mainly specific to human chromosome 4p...
  76. ncbi Continuum of overlapping clones spanning the entire human chromosome 21q
    I Chumakov
    Centre d Etude du Polymorphisme Humain CEPH, Paris, France
    Nature 359:380-7. 1992
    ..The resulting order of sequence-tagged sites is consistent with other physical and genetic mapping data. This set of overlapping clones will promote our knowledge of the structure of this chromosome and the function of its genes...
  77. ncbi Assignment of the creatine transporter gene (SLC6A8) to human chromosome Xq28 telomeric to G6PD
    P Gregor
    Molecular Neurobiology Branch, National Institute on Drug Abuse, Baltimore, Maryland 21224, USA
    Genomics 25:332-3. 1995
  78. ncbi Mapping of the taurine transporter gene to mouse chromosome 6 and to the short arm of human chromosome 3
    A Patel
    Neuroscience Branch, National Institute on Drug Abuse, National Institutes of Health, Baltimore, Maryland 21224, USA
    Genomics 25:314-7. 1995
    ..These data extend a conserved linkage group on mouse chromosome 6 and human chromosome 3p. Deletion of TAUT might contribute to some phenotypic features of the 3p- syndrome...
  79. ncbi A 2-Mb YAC contig and physical map of the natural killer gene complex on mouse chromosome 6
    M G Brown
    Department of Medicine, Washington University School of Medicine, St Louis, Missouri 63110, USA
    Genomics 42:16-25. 1997
    ..The high-resolution NKC map will facilitate investigation of NKC gene regulation and identification of phenotypically defined gene products that confer NK cell defense against viral pathogens...
  80. ncbi Regional mapping of short tandem repeats on human chromosome 10: cytochrome P450 gene CYP2E, D10S196, D10S220, and D10S225
    K Kölble
    Department of Biochemistry, University of Oxford, United Kingdom
    Genomics 18:702-4. 1993
    ..The close synteny of CYP2E, CYP2C, and CYP17 belonging to two different cytochrome P450 families suggests a central role for the long arm of chromosome 10 in the evolution of this large gene superfamily...
  81. ncbi Assignment of the human alpha-tropomyosin gene TPM4 to band 19p13.1 by fluorescence in situ hybridization
    S D Wilton
    Australian Neuromuscular Research Institute, QE II Medical Centre, Nedlands, Western Australia, Australia
    Cytogenet Cell Genet 72:294-6. 1996
    ..The other, a product from a long-range PCR, was used directly as a probe to refine the localization of TPM4 to 19p13.1 by fluorescence in situ hybridization to metaphase chromosome spreads...
  82. ncbi Localization of the human homolog of the yeast cell division control 27 gene (CDC27) proximal to ITGB3 on human chromosome 17q21.3
    P P Ho
    Wayne State University, Department of Immunology and Microbiology, Detroit, Michigan 48201, USA
    Somat Cell Mol Genet 21:351-5. 1995
    ..The estimated distance between ITGB3 and human CDC27 is less than 600 kb...
  83. ncbi Integrated physical, genetic, and genic map covering 3 Mb around the human NGF gene (NGFB) at 1p13
    A Carrier
    Génétique Moléculaire et Biologie du Développement, CNRS UPR 420, Villejuif, France
    Genomics 31:80-9. 1996
    ..This work provides an integrated physical, genetic, and genic map of this chromosome 1 region. It constitutes a basis for determining the structure of the NGF gene and for further characterizing its genic environment...
  84. pmc Fine mapping of the EDA gene: a translocation breakpoint is associated with a CpG island that is transcribed
    A K Srivastava
    Department of Molecular Microbiology, Washington University School of Medicine, St Louis, USA
    Am J Hum Genet 58:126-32. 1996
    ..The two most telomeric CpG islands map 350 kb telomeric of the two translocations. Taken together, the results suggest that the CpG island just proximal of the AK translocation breakpoint lies at the 5' end of a candidate gene for EDA...
  85. ncbi Characterization of a YAC contig containing the NBCCS locus and a novel Kruppel-type zinc finger sequence on chromosome segment 9q22.3
    A Chidambaram
    Intramural Research Support Program, SAIC Frederick, National Cancer Institute, Frederick Cancer Research and Development Center, Frederick, Maryland, USA
    Genes Chromosomes Cancer 18:212-8. 1997
    ..We used the YAC contigs to identify a new zinc finger gene containing a highly informative microsatellite locus...
  86. ncbi Molecular cloning of the RNA polymerase I transcription factor hUBF/NOR-90 (UBTF) gene and localization to 17q21.3 by fluorescence in situ hybridization and radiation hybrid mapping
    A G Matera
    Department of Genetics, Case Western Reserve University, Cleveland, Ohio 44106, USA
    Genomics 41:135-8. 1997
    ..77 cR distal to MIT framework marker UTR-9641. The order of the markers (a partial list) from this region was UTR-9641, SGC30031, WI-17308, D17S930, NOR53/33, WI-16100, D17S920, WI-16913, and WI-6808...
  87. ncbi A YAC contig and an EST map in the pericentromeric region of chromosome 13 surrounding the loci for neurosensory nonsyndromic deafness (DFNB1 and DFNA3) and limb-girdle muscular dystrophy type 2C (LGMD2C)
    P Guilford
    Unite de Genetique Moleculaire Humaine, URA CNRS 1968, Institut Pasteur, Paris, France
    Genomics 29:163-9. 1995
    ..YAC screening of a cDNA library derived from mouse cochlea allowed us to identify an alpha-tubulin gene (TUBA2) that was subsequently precisely mapped within the candidate region...
  88. ncbi Localization of the intronless gene coding for calmodulin-like protein CLP to human chromosome 10p13-ter
    M W Berchtold
    Institut für Pharmakologie und Biochemie, Universitat Zurich Irchel, Switzerland
    Hum Genet 90:496-500. 1993
    ..The generation of a human CLP gene-specific sequence tag site specified by the two primers used for PCR should prove useful for future linkage studies...
  89. ncbi Isolation of a human gene (HES1) with homology to an Escherichia coli and a zebrafish protein that maps to chromosome 21q22.3
    H S Scott
    Department of Genetics and Microbiology, University of Geneva Medical School, Switzerland
    Hum Genet 99:616-23. 1997
    ..In addition, the initial method of EST identification for gene isolation presented here is valid for many genes and can be used to obtain initial sequence contigs without cloning or library screening...
  90. ncbi Molecular cloning of the interleukin-1 gene cluster: construction of an integrated YAC/PAC contig and a partial transcriptional map in the region of chromosome 2q13
    H G Nothwang
    University Children s Hospital, Freiburg University, Germany
    Genomics 41:370-8. 1997
    ..FISH analysis localized PAC clones containing the IL-1 gene cluster to 2q12-q13. The data provide the basis for further characterization of the IL-1 gene cluster and for the construction of a sequence-ready PAC contig of this region...
  91. ncbi Assignment of the 36.5-kDa (RFC5), 37-kDa (RFC4), 38-kDa (RFC3), and 40-kDa (RFC2) subunit genes of human replication factor C to chromosome bands 12q24.2-q24.3, 3q27, 13q12.3-q13, and 7q11.23
    K Okumura
    Division of Human Genome Research and Gene Bank, Tsukuba Life Science Center, Ibaraki, Japan
    Genomics 25:274-8. 1995
    ..5 (RFC5), p37 (RFC4), p38 (RFC3), and p40 (RFC2)] using both PCR amplification from DNAs of a panel of somatic hybrids and fluorescence in situ hybridization to bands 12q24.2-q24.3, 3q27, 13q12.3-q13, and 7q11.23, respectively...
  92. ncbi Refined mapping of the human dentin sialophosphoprotein (DSPP) gene within the critical dentinogenesis imperfecta type II and dentin dysplasia type II loci
    M MacDougall
    Department of Pediatric Dentistry, University of Texas Health Science Center at San Antonio, 78284 8888, USA
    Eur J Oral Sci 106:227-33. 1998
    ..Both DSPP and DMP-1 have been placed on the physical map of human chromosome 4 within the interval defined by markers D4S564 and D4S1292. DSPP is thereby strengthened as a candidate gene for both DGI-II and DD-II...
  93. ncbi Organization of the human keratin type II gene cluster at 12q13
    S J Yoon
    Department of Molecular Genetics, Albert Einstein College of Medicine, Bronx, New York 10461
    Genomics 24:502-8. 1994
    ..Careful examination of the cluster also revealed that there may be a number of additional keratin genes at this locus that have not been described previously...
  94. ncbi Chromosomal assignment of seventeen porcine microsatellites and genes by use of a somatic cell hybrid mapping panel
    G Rettenberger
    Abteilung Klinische Genetik, Universitat Ulm, Germany
    Anim Genet 26:269-73. 1995
    ..The confirmed and the new assignments extend the information of the previously established linkage maps and provide framework loci on which to order additional informative markers...
  95. ncbi Comparative mapping of distal murine chromosome 11 and human 17q21.3 in a region containing a modifying locus for murine plasma von Willebrand factor level
    K L Mohlke
    Department of Human Genetics, University of Michigan Medical School, Ann Arbor, Michigan, 48109, USA
    Genomics 54:19-30. 1998
    ..These data may also aid in the localization of other disease loci mapped to this region, including the gene for tricho-dento-osseous syndrome and a murine locus for susceptibility to ozone-induced acute lung injury...
  96. ncbi Large-scale identification, mapping, and genotyping of single-nucleotide polymorphisms in the human genome
    D G Wang
    Whitehead Institute for Biomedical Research, Nine Cambridge Center, Cambridge, MA 02142, USA
    Science 280:1077-82. 1998
    ..The results provide a characterization of human diversity at the nucleotide level and demonstrate the feasibility of large-scale identification of human SNPs...
  97. ncbi Generation of a transcriptional map for a 700-kb region surrounding the polycystic kidney disease type 1 (PKD1) and tuberous sclerosis type 2 (TSC2) disease genes on human chromosome 16p3.3
    T C Burn
    Department of Human Genetics, Integrated Genetics, Framingham, Massachusetts 01701, USA
    Genome Res 6:525-37. 1996
    ..In this report we present a transcriptional map for the 700 kb of DNA surrounding the PKD1 and TSC2 genes...
  98. ncbi Anisomastia associated with interstitial duplication of chromosome 16, mental retardation, obesity, dysmorphic facies, and digital anomalies: molecular mapping of a new syndrome by fluorescent in situ hybridization and microsatellites to 16q13 (D16S419-D1
    C A Stratakis
    Unit on Genetics and Endocrinology, Developmental Endocrinology Branch, National Institute of Child Health and Human Development, National Institutes of Health, Bethesda, Maryland 20892 1862, USA
    J Clin Endocrinol Metab 85:3396-401. 2000
    ....
  99. pmc Cytogenetic and Y chromosome microdeletion screening studies in infertile males with Oligozoospermia and Azoospermia in Southeast Turkey
    M Balkan
    Department of Medical Biology and Genetic, Medical Faculty, University of Dicle, 21280, Diyarbakir, Turkey
    J Assist Reprod Genet 25:559-65. 2008
    ....
  100. ncbi Molecular evolution of the endosperm starch synthesis pathway genes in rice (Oryza sativa L.) and its wild ancestor, O. rufipogon L
    Guoqin Yu
    Department of Biology, Washington University, St Louis, Missouri, USA
    Mol Biol Evol 28:659-71. 2011
    ..Genome-wide sequence tagged sites data were used as a neutral reference to overcome the problems of detecting selection in species with ..
  101. ncbi Genetics of human male infertility
    J Poongothai
    Computational Engineering and Networking Department, Amrita Viswha Vidyapeetham, Ettimadai, Coimbatore 638107, Tamil Nadu, India
    Singapore Med J 50:336-47. 2009
    ..of the AZF locus on the long arm of the Y chromosome could be revealed only with the development of sequence tagged sites. Random attacks on the naked mitochondrial DNA (mtDNA) of sperm by reactive oxygen species or free ..

Research Grants45

  1. GENETIC ANALYSIS OF PAROXYSMAL DYSTONIC CHOREOATHETOSIS
    John Fink; Fiscal Year: 2000
    ..application, except the Aim 2, which is new and relates to the evaluation chromosome 2q33-35 Expressed Sequence Tagged Sites (ESTS). The Specific Aims, their rationale and methodology are described in a satisfactory fashion...
  2. MAPPING AND SEQUENCING THE HUMAN GENOME
    Richard Myers; Fiscal Year: 1999
    ..Projects 1 and 3 will develop 30,000 unique DNA landmarks as Sequence Tagged Sites (STSs) which will serve as the genetic markers for our mapping studies...
  3. KENNY CAFFY SYNDROME: BONE SCLEROSIS AND HYPOCALCEMIA
    George Diaz; Fiscal Year: 2003
    ..abstract_text> ..
  4. MOLECULAR MECHANISMS LEADING TO RETT SYNDROME
    Uta Francke; Fiscal Year: 2002
    ..Newborn screening programs could identify presymptomatic mutation carriers. One the causative genetic mechanism is known, understanding of the pathophysiology may lead to early therapeutic intervention. ..
  5. INTEGRATED ZEBRAFISH GENOMIC RESOURCES
    Stephen Johnson; Fiscal Year: 2003
    ..approach to genomic resource development, including EST sequencing, that will be used to develop sequence tagged sites (STSs), that will in turn be used to identify single nucleotide polymorphisms (SNPs) between inbred ..
  6. Genetic control of cross-resistances in P. falciparum
    Michael Ferdig; Fiscal Year: 2007
    ..b>Sequence tagged sites will link genetic loci to DNA contigs and facilitate the search for positional candidate genes from which ..
  7. BRANCH CAPTURE REACTION IN PHYSICAL MAPPING
    James Wetmur; Fiscal Year: 1993
    ..a high resolution physical map of human chromosome 9, including both ordered clones and an ordered set of unique sequence tagged sites (STS). The BCR method will be available for collaborative studies of other human chromosomes.
  8. HUMAN YEAST ARTIFICIAL CHROMOSOME LIBRARY DATABASE
    Mark Frisse; Fiscal Year: 1993
    ....
  9. HIGH RESOLUTION SNP MAP OF THE HUMAN GENOME
    Richard Myers; Fiscal Year: 2000
    ..to screen 24,000 sequence tagged sites (STSs) per year for polymorphic variation using Affymetrix DNA arrays...
  10. FIRST INTERNATIONAL WORKSHOP ON CHROMOSOME 18
    MICHELLE LE BEAU; Fiscal Year: 1993
    ..3. To begin to assemble a collection of DNA markers, preferably in the form of sequence tagged sites (STSs), along the length of the chromosome, which will be used as reference markers for further physical ..
  11. AUTOMATIC MULTIPLE-PARALLEL DNA PROBE SYNTHESIZER
    Norman Anderson; Fiscal Year: 1991
    ..With the present design 50 or more primers can be made in parallel. The system will be more compact and cheaper than present synthesizers, and can be built on either a micro- or macro-scale...
  12. A POLYMERASE CHAIN REACTION METHOD FOR LARGE DNA REGIONS
    David Patterson; Fiscal Year: 1993
    ..If this procedure can be developed, it could be coupled with sequence tagged sites (STSs) to greatly simplify major aspects of the human genome project...
  13. FRAMEWORK LINKAGE MAP FOR CHROMOSOME 14
    Deborah Nickerson; Fiscal Year: 1993
    ..This will generate a framework map for human chromosome 14 that can be rapidly and automatically typed to detect genetic linkage of human disease-causing genes or phenotypic traits...
  14. MURINE SINGLE NUCLEOTIDE POLYMORPHISMS
    Michael Weil; Fiscal Year: 1999
    ..Phase I application is focused on producing a 1 cM, SNP-based map of chromosome 11 by re-sequencing STSs (sequence tagged sites) in 10 widely used inbred mouse strains...
  15. MOLECULAR BASIS OF AN X-LINKED INHERITED ARTHROPATHY
    George Tiller; Fiscal Year: 2002
    ..identify candidate genes which both map to the region and are transcribed in cartilage using expressed sequence tagged sites (ESTs) and cDNA selection techniques...
  16. LINKED GROWTH FACTOR GENES ON CHROMOSOME 5
    Michael Lovett; Fiscal Year: 1992
    ..b>Sequence tagged sites will be used in conjunction with a novel cDNA enrichment scheme, to select the cDNAs that are encoded by ..
  17. Genome Instability in Cells and Tissues of the Zebrafish
    Forrest Spencer; Fiscal Year: 2006
    ..abstract_text> ..
  18. Gene Expression Phenotype in Autosomal Recessive Disease
    Vivian Cheung; Fiscal Year: 2007
    ..The approach can also be broadened to study the contribution of heterozygosity of recessive diseases to the complex genetic architecture of human diseases and traits. [unreadable] [unreadable]..
  19. Ditag technologies for complete transcriptome annotation
    Yijun Ruan; Fiscal Year: 2006
    ..We seek to identify all genes that are responsive to p53, and to ascertain through GIS-ChIP cloning and through our novel GIS analysis strategy all possible cis-regulatory fragments. [unreadable] [unreadable]..
  20. Genomic dissection of a QTL affecting the lipid profile
    Michael Olivier; Fiscal Year: 2007
    ..abstract_text> ..
  21. VIRUSES, NUCLEIC ACIDS AND CANCER
    HENRY RULEY; Fiscal Year: 2007
    ..unreadable] [unreadable]..
  22. DELIVERY OF THE CGN INFORMATION RESOURCE DATABASE
    Prakash Nadkarni; Fiscal Year: 2006
    ..Informatics assistance will be provided to the individual nodes to assist the task of data exchange, and when necessary, to assist the design of local data collection systems. ..
  23. Alternatives to antibiotic resistance selective markers for Francisella
    Colin Manoil; Fiscal Year: 2008
    ..unreadable] [unreadable] [unreadable]..
  24. IBD MAPPING & PATTERN OF HUMAN MEIOTIC RECOMBINATION
    Vivian Cheung; Fiscal Year: 2008
    ..It will also give insights into the pattern of human meiotic recombination, a key process that contributes to genetic diversity and to risk of non-disjunction. ..
  25. Genetic Determinants of Genomic Plasticity and Chromosome Evolution
    Forrest A Spencer; Fiscal Year: 2010
    ..In humans, distinct chromosome nondisjunction signatures that reveal specific dysfunctional pathways could enhance diagnosis and treatment of disease. ..
  26. Genome-wide analysis of genetic variation and expression.
    Vivian G Cheung; Fiscal Year: 2010
    ..Therefore, the molecular and analytical approaches developed here can be generalized and applied to the study of other quantitative traits in humans, including complex genetic diseases. ..
  27. Whole Genome Chromatin Interaction Analysis using Pair-End-diTagging (CIA-PET)
    Yijun Ruan; Fiscal Year: 2010
    ..This project will provide unprecedented insight into the mechanisms of transcription regulations allowing us to better understand how cancer cells develop and how stem cells retain pluripotency. ..
  28. Integrating Genetic and Genomic Resources for C Briggsae
    Raymond Miller; Fiscal Year: 2006
    ..The tools provided by this proposal will enable a powerful new style of science using what will be two Caenorhabditis model organisms. [unreadable] [unreadable] [unreadable]..
  29. ROBUST QUERY OF HETEROGENEOUS CLINICAL DATABASES
    Prakash Nadkarni; Fiscal Year: 2002
    ..In particular, research will be performed on utilization of newer database technologies, such as new indexing methods, as well as parallel database implementations. ..
  30. CHARACTERIZATION OF MAPPED HUMAN BAC CLONES
    Vivian Cheung; Fiscal Year: 2002
    ..In the process of characterizing the clones, we will also get information that gives us insight into the concordance rate between RH map, genome sequence map and cytogenetic map. ..
  31. DESIGN AND IMPLEMENTATION OF PHARMACOGENETIC DATABASE
    Prakash Nadkarni; Fiscal Year: 2002
    ..Informatics assistance will be provided to the individual nodes to assist the task of data exchange, and when necessary, to assist the design of local data collection systems. ..
  32. FUNCTIONAL GENOMICS BY TAGGED SEQUENCE MUTAGENESIS
    H Ruley; Fiscal Year: 2002
    ..The process will facilitate a functional analysis of a mammalian genome and will provide animal models for human genetic diseases. ..
  33. Gene Entrapment Strategy for Proteomics in Mice
    H Ruley; Fiscal Year: 2003
    ..Co-purifying cellular proteins will be identified by mass spectrometry. Finally, transmission of tagged fusion genes into the germline will be used to analyze protein-protein interactions in normal mouse tissues. ..
  34. C. elegans models for human transport disorders
    Colin Manoil; Fiscal Year: 2002
    ..Based on this information, stable loss of function mutations will be sought for those genes judged to be the most promising candidates for transporter disease models. ..
  35. Chromosome Transmission Fidelity
    Forrest Spencer; Fiscal Year: 2004
    ....
  36. Molecular Genetics of Cervical Cancer Progression
    Murty Vundavalli; Fiscal Year: 2004
    ..The data generated from these studies will be used to determine the clinical significance and to develop a genetic prognostic model for identifying high-risk CINs that progress into invasive cancer. ..
  37. Genome-Wide Growth Factor Discovery in the CNS
    John Harrington; Fiscal Year: 2004
    ..Identifying proteins that further enable regulation of these populations will provide tools that may greatly extend our ability to achieve such important goals as repair of CNS damage. ..
  38. Small Molecular Inhibitors of Artemis as Radiosensitizer
    John Harrington; Fiscal Year: 2004
    ..2) Screen a approximately 100,000-member small molecule compound library for inhibitors of Artemis. 3) Determine compound specificity toward Artemis and obtain IC50 values for specific compounds. ..
  39. A Genomics Approach to Study C. neoformans var. grubii
    Fred Dietrich; Fiscal Year: 2006
    ..The resulting data and material from this study will expand our knowledge of the nature of pathogenicity in this important human fungal pathogen. [unreadable] [unreadable]..
  40. Autologous cell therapy with SMC modified MAPCs
    John Harrington; Fiscal Year: 2004
    ..abstract_text> ..
  41. Genetic model of retinal pigment epithelium degeneration
    Douglas Vollrath; Fiscal Year: 2005
    ....
  42. The Genetic and Genomic Study of MicroRNA in Bipolar and Schizophrenia
    Chunyu Liu; Fiscal Year: 2010
    ..These findings will potentially enhance our understanding of the miRNA genes and their potential roles in etiology of BD and SZ. Development of new diagnoses and treatments may result. ..
  43. Genetic tools for analyzing B. pseudomallei virulence
    Colin Manoil; Fiscal Year: 2006
    ..unreadable] [unreadable] [unreadable]..
  44. Genomics resources and infrastructure for B. schlosseri
    Anthony De Tomaso; Fiscal Year: 2006
    ..In addition, these resources will be used to generate preliminary data for future funding. [unreadable] [unreadable]..