RatDEGdb: a knowledge base of differentially expressed genes in the rat as a model object in biomedical research
The animal models used in biomedical research cover virtually every human disease. RatDEGdb, a knowledge base of the differentially expressed genes (DEGs) of the rat as a model object in biomedical research is a collection of published data on gene expression in rat strains simulating arterial hyper...
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Siberian Branch of the Russian Academy of Sciences, Federal Research Center Institute of Cytology and Genetics, The Vavilov Society of Geneticists and Breeders
2023-12-01
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| Series: | Вавиловский журнал генетики и селекции |
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| Online Access: | https://vavilov.elpub.ru/jour/article/view/3979 |
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| author | I. V. Chadaeva S. V. Filonov K. A. Zolotareva B. M. Khandaev N. I. Ershov N. L. Podkolodnyy R. V. Kozhemyakina D. A. Rasskazov A. G. Bogomolov E. Yu. Kondratyuk N. V. Klimova S. G. Shikhevich M. A. Ryazanova L. A. Fedoseeva О. Е. Redina О. S. Kozhevnikova N. A. Stefanova N. G. Kolosova A. L. Markel M. P. Ponomarenko Yu. D. Oshchepkov |
| author_facet | I. V. Chadaeva S. V. Filonov K. A. Zolotareva B. M. Khandaev N. I. Ershov N. L. Podkolodnyy R. V. Kozhemyakina D. A. Rasskazov A. G. Bogomolov E. Yu. Kondratyuk N. V. Klimova S. G. Shikhevich M. A. Ryazanova L. A. Fedoseeva О. Е. Redina О. S. Kozhevnikova N. A. Stefanova N. G. Kolosova A. L. Markel M. P. Ponomarenko Yu. D. Oshchepkov |
| author_sort | I. V. Chadaeva |
| collection | DOAJ |
| description | The animal models used in biomedical research cover virtually every human disease. RatDEGdb, a knowledge base of the differentially expressed genes (DEGs) of the rat as a model object in biomedical research is a collection of published data on gene expression in rat strains simulating arterial hypertension, age-related diseases, psychopathological conditions and other human afflictions. The current release contains information on 25,101 DEGs representing 14,320 unique rat genes that change transcription levels in 21 tissues of 10 genetic rat strains used as models of 11 human diseases based on 45 original scientific papers. RatDEGdb is novel in that, unlike any other biomedical database, it offers the manually curated annotations of DEGs in model rats with the use of independent clinical data on equal changes in the expression of homologous genes revealed in people with pathologies. The rat DEGs put in RatDEGdb were annotated with equal changes in the expression of their human homologs in affected people. In its current release, RatDEGdb contains 94,873 such annotations for 321 human genes in 836 diseases based on 959 original scientific papers found in the current PubMed. RatDEGdb may be interesting first of all to human geneticists, molecular biologists, clinical physicians, genetic advisors as well as experts in biopharmaceutics, bioinformatics and personalized genomics. RatDEGdb is publicly available at https://www.sysbio.ru/RatDEGdb. |
| format | Article |
| id | doaj-art-0c6cf91b7b744b219c02c841fa9405ae |
| institution | Kabale University |
| issn | 2500-3259 |
| language | English |
| publishDate | 2023-12-01 |
| publisher | Siberian Branch of the Russian Academy of Sciences, Federal Research Center Institute of Cytology and Genetics, The Vavilov Society of Geneticists and Breeders |
| record_format | Article |
| series | Вавиловский журнал генетики и селекции |
| spelling | doaj-art-0c6cf91b7b744b219c02c841fa9405ae2025-02-01T09:58:12ZengSiberian Branch of the Russian Academy of Sciences, Federal Research Center Institute of Cytology and Genetics, The Vavilov Society of Geneticists and BreedersВавиловский журнал генетики и селекции2500-32592023-12-0127779480610.18699/VJGB-23-921407RatDEGdb: a knowledge base of differentially expressed genes in the rat as a model object in biomedical researchI. V. Chadaeva0S. V. Filonov1K. A. Zolotareva2B. M. Khandaev3N. I. Ershov4N. L. Podkolodnyy5R. V. Kozhemyakina6D. A. Rasskazov7A. G. Bogomolov8E. Yu. Kondratyuk9N. V. Klimova10S. G. Shikhevich11M. A. Ryazanova12L. A. Fedoseeva13О. Е. Redina14О. S. Kozhevnikova15N. A. Stefanova16N. G. Kolosova17A. L. Markel18M. P. Ponomarenko19Yu. D. Oshchepkov20Institute of Cytology and Genetics of the Siberian Branch of the Russian Academy of SciencesInstitute of Cytology and Genetics of the Siberian Branch of the Russian Academy of Sciences; Novosibirsk State UniversityInstitute of Cytology and Genetics of the Siberian Branch of the Russian Academy of SciencesInstitute of Cytology and Genetics of the Siberian Branch of the Russian Academy of SciencesInstitute of Cytology and Genetics of the Siberian Branch of the Russian Academy of SciencesInstitute of Cytology and Genetics of the Siberian Branch of the Russian Academy of Sciences; Institute of Computational Mathematics and Mathematical Geophysics of the Siberian Branch of the Russian Academy of SciencesInstitute of Cytology and Genetics of the Siberian Branch of the Russian Academy of SciencesInstitute of Cytology and Genetics of the Siberian Branch of the Russian Academy of SciencesInstitute of Cytology and Genetics of the Siberian Branch of the Russian Academy of SciencesInstitute of Cytology and Genetics of the Siberian Branch of the Russian Academy of Sciences; Siberian Federal Scientific Centre of Agro-BioTechnologies of the Russian Academy of SciencesInstitute of Cytology and Genetics of the Siberian Branch of the Russian Academy of SciencesInstitute of Cytology and Genetics of the Siberian Branch of the Russian Academy of SciencesInstitute of Cytology and Genetics of the Siberian Branch of the Russian Academy of SciencesInstitute of Cytology and Genetics of the Siberian Branch of the Russian Academy of SciencesInstitute of Cytology and Genetics of the Siberian Branch of the Russian Academy of SciencesInstitute of Cytology and Genetics of the Siberian Branch of the Russian Academy of SciencesInstitute of Cytology and Genetics of the Siberian Branch of the Russian Academy of SciencesInstitute of Cytology and Genetics of the Siberian Branch of the Russian Academy of SciencesInstitute of Cytology and Genetics of the Siberian Branch of the Russian Academy of Sciences; Novosibirsk State UniversityInstitute of Cytology and Genetics of the Siberian Branch of the Russian Academy of SciencesInstitute of Cytology and Genetics of the Siberian Branch of the Russian Academy of SciencesThe animal models used in biomedical research cover virtually every human disease. RatDEGdb, a knowledge base of the differentially expressed genes (DEGs) of the rat as a model object in biomedical research is a collection of published data on gene expression in rat strains simulating arterial hypertension, age-related diseases, psychopathological conditions and other human afflictions. The current release contains information on 25,101 DEGs representing 14,320 unique rat genes that change transcription levels in 21 tissues of 10 genetic rat strains used as models of 11 human diseases based on 45 original scientific papers. RatDEGdb is novel in that, unlike any other biomedical database, it offers the manually curated annotations of DEGs in model rats with the use of independent clinical data on equal changes in the expression of homologous genes revealed in people with pathologies. The rat DEGs put in RatDEGdb were annotated with equal changes in the expression of their human homologs in affected people. In its current release, RatDEGdb contains 94,873 such annotations for 321 human genes in 836 diseases based on 959 original scientific papers found in the current PubMed. RatDEGdb may be interesting first of all to human geneticists, molecular biologists, clinical physicians, genetic advisors as well as experts in biopharmaceutics, bioinformatics and personalized genomics. RatDEGdb is publicly available at https://www.sysbio.ru/RatDEGdb.https://vavilov.elpub.ru/jour/article/view/3979knowledge basedegrattus norvegicusanimal models of human diseasesneurodegenerationalzheimer’s diseasehypertensionpremature agingpsychopathological statescatatonic syndromeepilepsyaggressionrna-seqpcrmicroarrays. |
| spellingShingle | I. V. Chadaeva S. V. Filonov K. A. Zolotareva B. M. Khandaev N. I. Ershov N. L. Podkolodnyy R. V. Kozhemyakina D. A. Rasskazov A. G. Bogomolov E. Yu. Kondratyuk N. V. Klimova S. G. Shikhevich M. A. Ryazanova L. A. Fedoseeva О. Е. Redina О. S. Kozhevnikova N. A. Stefanova N. G. Kolosova A. L. Markel M. P. Ponomarenko Yu. D. Oshchepkov RatDEGdb: a knowledge base of differentially expressed genes in the rat as a model object in biomedical research Вавиловский журнал генетики и селекции knowledge base deg rattus norvegicus animal models of human diseases neurodegeneration alzheimer’s disease hypertension premature aging psychopathological states catatonic syndrome epilepsy aggression rna-seq pcr microarrays. |
| title | RatDEGdb: a knowledge base of differentially expressed genes in the rat as a model object in biomedical research |
| title_full | RatDEGdb: a knowledge base of differentially expressed genes in the rat as a model object in biomedical research |
| title_fullStr | RatDEGdb: a knowledge base of differentially expressed genes in the rat as a model object in biomedical research |
| title_full_unstemmed | RatDEGdb: a knowledge base of differentially expressed genes in the rat as a model object in biomedical research |
| title_short | RatDEGdb: a knowledge base of differentially expressed genes in the rat as a model object in biomedical research |
| title_sort | ratdegdb a knowledge base of differentially expressed genes in the rat as a model object in biomedical research |
| topic | knowledge base deg rattus norvegicus animal models of human diseases neurodegeneration alzheimer’s disease hypertension premature aging psychopathological states catatonic syndrome epilepsy aggression rna-seq pcr microarrays. |
| url | https://vavilov.elpub.ru/jour/article/view/3979 |
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