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Manuel Spannagl - One of the best experts on this subject based on the ideXlab platform.

  • MIPS PlantsDB: a database framework for comparative plant Genome Research.
    Nucleic acids research, 2012
    Co-Authors: Thomas Nussbaumer, Mihaela M Martis, Stephan K Roessner, Matthias Pfeifer, Kai C Bader, Sapna Sharma, Heidrun Gundlach, Manuel Spannagl
    Abstract:

    The rapidly increasing amount of plant Genome (sequence) data enables powerful comparative analyses and integrative approaches and also requires structured and comprehensive information resources. Databases are needed for both model and crop plant organisms and both intuitive search/browse views and comparative genomics tools should communicate the data to Researchers and help them interpret it. MIPS PlantsDB (http://mips.helmholtz-muenchen.de/plant/Genomes.jsp) was initially described in NAR in 2007 [Spannagl,M., Noubibou,O., Haase,D., Yang,L., Gundlach,H., Hindemitt, T., Klee,K., Haberer,G., Schoof,H. and Mayer,K.F. (2007) MIPSPlantsDB-plant database resource for integrative and comparative plant Genome Research. Nucleic Acids Res., 35, D834-D840] and was set up from the start to provide data and information resources for individual plant species as well as a framework for integrative and comparative plant Genome Research. PlantsDB comprises database instances for tomato, Medicago, Arabidopsis, Brachypodium, Sorghum, maize, rice, barley and wheat. Building up on that, state-of-the-art comparative genomics tools such as CrowsNest are integrated to visualize and investigate syntenic relationships between monocot Genomes. Results from novel Genome analysis strategies targeting the complex and repetitive Genomes of triticeae species (wheat and barley) are provided and cross-linked with model species. The MIPS Repeat Element Database (mips-REdat) and Catalog (mips-REcat) as well as tight connections to other databases, e.g. via web services, are further important components of PlantsDB.

  • MIPSPlantsDB—plant database resource for integrative and comparative plant Genome Research
    Nucleic Acids Research, 2007
    Co-Authors: Manuel Spannagl, Heidrun Gundlach, Octave Noubibou, Dirk Haase, Li-li Yang, Tobias Hindemitt, Kathrin Klee, Georg Haberer, Heiko Schoof, Klaus F. X. Mayer
    Abstract:

    Genome-oriented plant Research delivers rapidly increasing amount of plant Genome data. Comprehensive and structured information resources are required to structure and communicate Genome and associated analytical data for model organisms as well as for crops. The increase in available plant genomic data enables powerful comparative analysis and integrative approaches. PlantsDB aims to provide data and information resources for individual plant species and in addition to build a platform for integrative and comparative plant Genome Research. PlantsDB is constituted from Genome databases for Arabidopsis, Medicago, Lotus, rice, maize and tomato. Complementary data resources for cis elements, repetive elements and extensive cross-species comparisons are implemented. The PlantsDB portal can be reached at http://mips.gsf.de/projects/plants.

  • MIPSPlantsDB--plant database resource for integrative and comparative plant Genome Research.
    Nucleic acids research, 2007
    Co-Authors: Manuel Spannagl, Heidrun Gundlach, Octave Noubibou, Dirk Haase, Tobias Hindemitt, Kathrin Klee, Georg Haberer, Heiko Schoof, Li Yang, Klaus F. X. Mayer
    Abstract:

    Genome-oriented plant Research delivers rapidly increasing amount of plant Genome data. Comprehensive and structured information resources are required to structure and communicate Genome and associated analytical data for model organisms as well as for crops. The increase in available plant genomic data enables powerful comparative analysis and integrative approaches. PlantsDB aims to provide data and information resources for individual plant species and in addition to build a platform for integrative and comparative plant Genome Research. PlantsDB is constituted from Genome databases for Arabidopsis, Medicago, Lotus, rice, maize and tomato. Complementary data resources for cis elements, repetive elements and extensive cross-species comparisons are implemented. The PlantsDB portal can be reached at http://mips.gsf.de/projects/plants.

Klaus F. X. Mayer - One of the best experts on this subject based on the ideXlab platform.

  • MIPSPlantsDB—plant database resource for integrative and comparative plant Genome Research
    Nucleic Acids Research, 2007
    Co-Authors: Manuel Spannagl, Heidrun Gundlach, Octave Noubibou, Dirk Haase, Li-li Yang, Tobias Hindemitt, Kathrin Klee, Georg Haberer, Heiko Schoof, Klaus F. X. Mayer
    Abstract:

    Genome-oriented plant Research delivers rapidly increasing amount of plant Genome data. Comprehensive and structured information resources are required to structure and communicate Genome and associated analytical data for model organisms as well as for crops. The increase in available plant genomic data enables powerful comparative analysis and integrative approaches. PlantsDB aims to provide data and information resources for individual plant species and in addition to build a platform for integrative and comparative plant Genome Research. PlantsDB is constituted from Genome databases for Arabidopsis, Medicago, Lotus, rice, maize and tomato. Complementary data resources for cis elements, repetive elements and extensive cross-species comparisons are implemented. The PlantsDB portal can be reached at http://mips.gsf.de/projects/plants.

  • MIPSPlantsDB--plant database resource for integrative and comparative plant Genome Research.
    Nucleic acids research, 2007
    Co-Authors: Manuel Spannagl, Heidrun Gundlach, Octave Noubibou, Dirk Haase, Tobias Hindemitt, Kathrin Klee, Georg Haberer, Heiko Schoof, Li Yang, Klaus F. X. Mayer
    Abstract:

    Genome-oriented plant Research delivers rapidly increasing amount of plant Genome data. Comprehensive and structured information resources are required to structure and communicate Genome and associated analytical data for model organisms as well as for crops. The increase in available plant genomic data enables powerful comparative analysis and integrative approaches. PlantsDB aims to provide data and information resources for individual plant species and in addition to build a platform for integrative and comparative plant Genome Research. PlantsDB is constituted from Genome databases for Arabidopsis, Medicago, Lotus, rice, maize and tomato. Complementary data resources for cis elements, repetive elements and extensive cross-species comparisons are implemented. The PlantsDB portal can be reached at http://mips.gsf.de/projects/plants.

Richard M Silver - One of the best experts on this subject based on the ideXlab platform.

  • clinical and serological features of systemic sclerosis in a multicenter african american cohort analysis of the Genome Research in african american scleroderma patients clinical database
    Medicine, 2017
    Co-Authors: Nadia D Morgan, Ami A Shah, Maureen D Mayes, Robyn T Domsic, Thomas A Medsger, Virginia D Steen, John Varga, Mary Carns, Paula S Ramos, Richard M Silver
    Abstract:

    AbstractRacial differences exist in the severity of systemic sclerosis (SSc). To enhance our knowledge about SSc in African Americans, we established a comprehensive clinical database from the largest multicenter cohort of African American SSc patients assembled to date (the Genome Research in Afric

  • clinical and serological features of systemic sclerosis in a multicenter african american cohort analysis of the Genome Research in african american scleroderma patients clinical database
    Medicine, 2017
    Co-Authors: Nadia D Morgan, Ami A Shah, Maureen D Mayes, Robyn T Domsic, Thomas A Medsger, Virginia D Steen, John Varga, Mary Carns, Paula S Ramos, Richard M Silver
    Abstract:

    Racial differences exist in the severity of systemic sclerosis (SSc). To enhance our knowledge about SSc in African Americans, we established a comprehensive clinical database from the largest multicenter cohort of African American SSc patients assembled to date (the Genome Research in African American Scleroderma Patients (GRASP) cohort).African American SSc patients were enrolled retrospectively and prospectively over a 30-year period (1987-2016), from 18 academic centers throughout the United States. The cross-sectional prevalence of sociodemographic, clinical, and serological features was evaluated. Factors associated with clinically significant manifestations of SSc were assessed using multivariate logistic regression analyses.The study population included a total of 1009 African American SSc patients, comprised of 84% women. In total, 945 (94%) patients met the 2013 American College of Rheumatology/European League Against Rheumatism (ACR/EULAR) classification criteria for SSc, with the remaining 64 (6%) meeting the 1980 ACR or CREST (calcinosis, Raynaud's phenomenon, esophageal dysmotility, sclerodactyly, telangiectasia) criteria. While 43% were actively employed, 33% required disability support. The majority (57%) had the more severe diffuse subtype and a young age at symptom onset (39.1 ± 13.7 years), in marked contrast to that reported in cohorts of predominantly European ancestry. Also, 1 in 10 patients had a severe Medsger cardiac score of 4. Pulmonary fibrosis evident on computed tomography (CT) chest was present in 43% of patients and was significantly associated with anti-topoisomerase I positivity. 38% of patients with CT evidence of pulmonary fibrosis had a severe restrictive ventilator defect, forced vital capacity (FVC) ≤50% predicted. A significant association was noted between longer disease duration and higher odds of pulmonary hypertension, telangiectasia, and calcinosis. The prevalence of potentially fatal scleroderma renal crisis was 7%, 3.5 times higher than the 2% prevalence reported in the European League Against Rheumatism Scleroderma Trials and Research (EUSTAR) cohort.Our study emphasizes the unique and severe disease burden of SSc in African Americans compared to those of European ancestry.

Heidrun Gundlach - One of the best experts on this subject based on the ideXlab platform.

  • MIPS PlantsDB: a database framework for comparative plant Genome Research.
    Nucleic acids research, 2012
    Co-Authors: Thomas Nussbaumer, Mihaela M Martis, Stephan K Roessner, Matthias Pfeifer, Kai C Bader, Sapna Sharma, Heidrun Gundlach, Manuel Spannagl
    Abstract:

    The rapidly increasing amount of plant Genome (sequence) data enables powerful comparative analyses and integrative approaches and also requires structured and comprehensive information resources. Databases are needed for both model and crop plant organisms and both intuitive search/browse views and comparative genomics tools should communicate the data to Researchers and help them interpret it. MIPS PlantsDB (http://mips.helmholtz-muenchen.de/plant/Genomes.jsp) was initially described in NAR in 2007 [Spannagl,M., Noubibou,O., Haase,D., Yang,L., Gundlach,H., Hindemitt, T., Klee,K., Haberer,G., Schoof,H. and Mayer,K.F. (2007) MIPSPlantsDB-plant database resource for integrative and comparative plant Genome Research. Nucleic Acids Res., 35, D834-D840] and was set up from the start to provide data and information resources for individual plant species as well as a framework for integrative and comparative plant Genome Research. PlantsDB comprises database instances for tomato, Medicago, Arabidopsis, Brachypodium, Sorghum, maize, rice, barley and wheat. Building up on that, state-of-the-art comparative genomics tools such as CrowsNest are integrated to visualize and investigate syntenic relationships between monocot Genomes. Results from novel Genome analysis strategies targeting the complex and repetitive Genomes of triticeae species (wheat and barley) are provided and cross-linked with model species. The MIPS Repeat Element Database (mips-REdat) and Catalog (mips-REcat) as well as tight connections to other databases, e.g. via web services, are further important components of PlantsDB.

  • MIPSPlantsDB—plant database resource for integrative and comparative plant Genome Research
    Nucleic Acids Research, 2007
    Co-Authors: Manuel Spannagl, Heidrun Gundlach, Octave Noubibou, Dirk Haase, Li-li Yang, Tobias Hindemitt, Kathrin Klee, Georg Haberer, Heiko Schoof, Klaus F. X. Mayer
    Abstract:

    Genome-oriented plant Research delivers rapidly increasing amount of plant Genome data. Comprehensive and structured information resources are required to structure and communicate Genome and associated analytical data for model organisms as well as for crops. The increase in available plant genomic data enables powerful comparative analysis and integrative approaches. PlantsDB aims to provide data and information resources for individual plant species and in addition to build a platform for integrative and comparative plant Genome Research. PlantsDB is constituted from Genome databases for Arabidopsis, Medicago, Lotus, rice, maize and tomato. Complementary data resources for cis elements, repetive elements and extensive cross-species comparisons are implemented. The PlantsDB portal can be reached at http://mips.gsf.de/projects/plants.

  • MIPSPlantsDB--plant database resource for integrative and comparative plant Genome Research.
    Nucleic acids research, 2007
    Co-Authors: Manuel Spannagl, Heidrun Gundlach, Octave Noubibou, Dirk Haase, Tobias Hindemitt, Kathrin Klee, Georg Haberer, Heiko Schoof, Li Yang, Klaus F. X. Mayer
    Abstract:

    Genome-oriented plant Research delivers rapidly increasing amount of plant Genome data. Comprehensive and structured information resources are required to structure and communicate Genome and associated analytical data for model organisms as well as for crops. The increase in available plant genomic data enables powerful comparative analysis and integrative approaches. PlantsDB aims to provide data and information resources for individual plant species and in addition to build a platform for integrative and comparative plant Genome Research. PlantsDB is constituted from Genome databases for Arabidopsis, Medicago, Lotus, rice, maize and tomato. Complementary data resources for cis elements, repetive elements and extensive cross-species comparisons are implemented. The PlantsDB portal can be reached at http://mips.gsf.de/projects/plants.

Nadia D Morgan - One of the best experts on this subject based on the ideXlab platform.

  • clinical and serological features of systemic sclerosis in a multicenter african american cohort analysis of the Genome Research in african american scleroderma patients clinical database
    Medicine, 2017
    Co-Authors: Nadia D Morgan, Ami A Shah, Maureen D Mayes, Robyn T Domsic, Thomas A Medsger, Virginia D Steen, John Varga, Mary Carns, Paula S Ramos, Richard M Silver
    Abstract:

    AbstractRacial differences exist in the severity of systemic sclerosis (SSc). To enhance our knowledge about SSc in African Americans, we established a comprehensive clinical database from the largest multicenter cohort of African American SSc patients assembled to date (the Genome Research in Afric

  • clinical and serological features of systemic sclerosis in a multicenter african american cohort analysis of the Genome Research in african american scleroderma patients clinical database
    Medicine, 2017
    Co-Authors: Nadia D Morgan, Ami A Shah, Maureen D Mayes, Robyn T Domsic, Thomas A Medsger, Virginia D Steen, John Varga, Mary Carns, Paula S Ramos, Richard M Silver
    Abstract:

    Racial differences exist in the severity of systemic sclerosis (SSc). To enhance our knowledge about SSc in African Americans, we established a comprehensive clinical database from the largest multicenter cohort of African American SSc patients assembled to date (the Genome Research in African American Scleroderma Patients (GRASP) cohort).African American SSc patients were enrolled retrospectively and prospectively over a 30-year period (1987-2016), from 18 academic centers throughout the United States. The cross-sectional prevalence of sociodemographic, clinical, and serological features was evaluated. Factors associated with clinically significant manifestations of SSc were assessed using multivariate logistic regression analyses.The study population included a total of 1009 African American SSc patients, comprised of 84% women. In total, 945 (94%) patients met the 2013 American College of Rheumatology/European League Against Rheumatism (ACR/EULAR) classification criteria for SSc, with the remaining 64 (6%) meeting the 1980 ACR or CREST (calcinosis, Raynaud's phenomenon, esophageal dysmotility, sclerodactyly, telangiectasia) criteria. While 43% were actively employed, 33% required disability support. The majority (57%) had the more severe diffuse subtype and a young age at symptom onset (39.1 ± 13.7 years), in marked contrast to that reported in cohorts of predominantly European ancestry. Also, 1 in 10 patients had a severe Medsger cardiac score of 4. Pulmonary fibrosis evident on computed tomography (CT) chest was present in 43% of patients and was significantly associated with anti-topoisomerase I positivity. 38% of patients with CT evidence of pulmonary fibrosis had a severe restrictive ventilator defect, forced vital capacity (FVC) ≤50% predicted. A significant association was noted between longer disease duration and higher odds of pulmonary hypertension, telangiectasia, and calcinosis. The prevalence of potentially fatal scleroderma renal crisis was 7%, 3.5 times higher than the 2% prevalence reported in the European League Against Rheumatism Scleroderma Trials and Research (EUSTAR) cohort.Our study emphasizes the unique and severe disease burden of SSc in African Americans compared to those of European ancestry.