Datasets:
longevity-genie
/
tacutu_papers

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9,124,140
2022-03-22T16:26:07Z
CCBY
https://academic.oup.com/nar/article-pdf/43/D1/D873/7330380/gku843.pdf
GOLD
1ef366e034d08317e9305bb390aed643459baba4
null
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journals/nar/CraigSTWWSJSMAM15
10.1093/nar/gku843
2169010206
25232097
4384002
The Digital Ageing Atlas: integrating the diversity of age-related changes into a unified resource 2015 Thomas Craig Integrative Genomics of Ageing Group Institute of Integrative Biology University of Liverpool LiverpoolUK Chris Smelick University of North Carolina at Chapel Hill NCUSA Robi Tacutu Integrative Ge...
[ "Multiple studies characterizing the human ageing phenotype have been conducted for decades. However, there is no centralized resource in which data on multiple age-related changes are collated. Currently, researchers must consult several sources, including primary publications, in order to obtain age-related data ...
[ "Thomas Craig \nIntegrative Genomics of Ageing Group\nInstitute of Integrative Biology\nUniversity of Liverpool\nLiverpoolUK\n", "Chris Smelick \nUniversity of North Carolina at Chapel Hill\nNCUSA\n", "Robi Tacutu \nIntegrative Genomics of Ageing Group\nInstitute of Integrative Biology\nUniversity of Liverpool\...
[ "Integrative Genomics of Ageing Group\nInstitute of Integrative Biology\nUniversity of Liverpool\nLiverpoolUK", "University of North Carolina at Chapel Hill\nNCUSA", "Integrative Genomics of Ageing Group\nInstitute of Integrative Biology\nUniversity of Liverpool\nLiverpoolUK", "Integrative Genomics of Ageing ...
[ "Thomas", "Chris", "Robi", "Daniel", "Shona", "H", "Henry", "Georges", "Ekaterina", "Alexey", "Robert", "JoΓ£o" ]
[ "Craig", "Smelick", "Tacutu", "Wuttke", "Wood", "Stanley", "Janssens", "Savitskaya", "Moskalev", "Arking", "Pedro De MagalhΓ£es" ]
[ "L Partridge, ", "M Mangel, ", "B Arking, ", "P S Timiras, ", "T B Kirkwood, ", "E Cevenini, ", "E Bellavista, ", "P Tieri, ", "G Castellani, ", "F Lescai, ", "M Francesconi, ", "M Mishto, ", "A Santoro, ", "S Valensin, ", "S Salvioli, ", "J P De MagalhΓ£es, ", "J Curado, ", "G M Ch...
[ "L", "M", "B", "P", "S", "T", "B", "E", "E", "P", "G", "F", "M", "M", "A", "S", "S", "J", "P", "J", "G", "M", "S", "A", "I", "J", "M", "N", "C", "A", "T", "Y", "S", "Y", "C", "I", "J", "B", "A", "T", "S", "E", "P", "C", "I", "...
[ "Partridge", "Mangel", "Arking", "Timiras", "Kirkwood", "Cevenini", "Bellavista", "Tieri", "Castellani", "Lescai", "Francesconi", "Mishto", "Santoro", "Valensin", "Salvioli", "De MagalhΓ£es", "Curado", "Church", "Welle", "Brooks", "Delehanty", "Needler", "Thornton", "Lu"...
[ "Messages from mortality: the evolution of death rates in the old. L Partridge, M Mangel, Trends Ecol. Evol. 14Partridge,L. and Mangel,M. (1999) Messages from mortality: the evolution of death rates in the old. Trends Ecol. Evol., 14, 438-442.", "B Arking, Biology of Aging: Observations and Principles. USAOxford ...
[ "(1)", "(2,", "3)", "(4,", "5)", "(6)", "(7)", "(8)", "(9)", "(10,", "11)", "(13)", "(14)", "(6)", "(6)", "(6)", "(16)", "(18)" ]
[ "Messages from mortality: the evolution of death rates in the old", "Systems biology of ageing and longevity", "Systems biology and longevity: an emerging approach to identify innovative anti-aging targets and strategies", "Meta-analysis of age-related gene expression profiles identifies common signatures of ...
[ "USA", "Trends Ecol. Evol", "Biology of Aging: Observations and Principles", "Physiological Basis of Aging and Geriatrics", "Philos. Trans. R. Soc. Lond. B. Biol. Sci", "Curr. Pharm. Des", "Bioinformatics", "Physiol. Genomics", "Nature", "Nucleic Acids Res", "PLoS Biol", "Bioinformatics", "N...
[ "\nFigure 1 .\n1The DAA anatomical model. Moving the mouse over a given organ reveals the number of age-related changes in the DAA, along with a breakdown of the number of each specific type of change. Colours indicate the number of changes for each change type (orange: physiological, red: pathological, blue: molec...
[ "The DAA anatomical model. Moving the mouse over a given organ reveals the number of age-related changes in the DAA, along with a breakdown of the number of each specific type of change. Colours indicate the number of changes for each change type (orange: physiological, red: pathological, blue: molecular, green: ps...
[ "(Figure 1", "Figure 2", "(Figure 3", "Figure 2", "(Figure 4" ]
[]
[ "Ageing can be defined as a progressive functional decline, or a gradual deterioration of physiological function with age, often including a decrease in fecundity (1). Human ageing is characterized by multiple changes at different levels of bi-ological organization (2,3). It is still not clear which (if any) molecu...
[]
[ "INTRODUCTION", "DATA SELECTION AND CURATION", "AVAILABILITY", "CONCLUSION", "Figure 1 .", "Figure 3 .", "Figure 4 .", "Table 1 ." ]
[ "Type of change \nDescription \n" ]
[ "Table 1" ]
[ "The Digital Ageing Atlas: integrating the diversity of age-related changes into a unified resource", "The Digital Ageing Atlas: integrating the diversity of age-related changes into a unified resource" ]
[ "Nucleic Acids Research" ]
231,756,643
2022-01-15T10:33:33Z
CCBY
https://www.mdpi.com/1422-0067/22/3/1073/pdf
GOLD
8e7ed1b584fe0542b030798e61721097dbea002d
null
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10.3390/ijms22031073
null
33499037
7865694
Machine Learning Analysis of Longevity-Associated Gene Expression Landscapes in Mammals 2021 Anton Y Kulaga Systems Biology of Aging Group Institute of Biochemistry of the Romanian Academy 060031BucharestRomania International Longevity Alliance 92330SceauxFrance CellFabrik SRL 060512BucharestRomania Eugen Ursu S...
[ "Citation: Kulaga, A.Y.; Ursu, E.; Toren, D.; Tyshchenko, V.; Guinea, R.; Pushkova, M.; Fraifeld, V.E.; Tacutu, R. Machine Learning Analysis of Longevity-Associated Gene Expression Landscapes in Mammals." ]
[ "Anton Y Kulaga \nSystems Biology of Aging Group\nInstitute of Biochemistry of the Romanian Academy\n060031BucharestRomania\n\nInternational Longevity Alliance\n92330SceauxFrance\n\nCellFabrik SRL\n060512BucharestRomania\n", "Eugen Ursu \nSystems Biology of Aging Group\nInstitute of Biochemistry of the Romanian A...
[ "Systems Biology of Aging Group\nInstitute of Biochemistry of the Romanian Academy\n060031BucharestRomania", "International Longevity Alliance\n92330SceauxFrance", "CellFabrik SRL\n060512BucharestRomania", "Systems Biology of Aging Group\nInstitute of Biochemistry of the Romanian Academy\n060031BucharestRoman...
[ "Anton", "Y", "Eugen", "Dmitri", "Vladyslava", "Rodrigo", "Malvina", "Vadim", "E", "Robi" ]
[ "Kulaga", "Ursu", "Toren", "Tyshchenko", "Guinea", "Pushkova", "Fraifeld", "Tacutu" ]
[ "A Budovsky, ", "A Abramovich, ", "R Cohen, ", "V Chalifa-Caspi, ", "V Fraifeld, ", "H Yanai, ", "A Budovsky, ", "T Barzilay, ", "R Tacutu, ", "V E Fraifeld, ", "R Tacutu, ", "D Thornton, ", "E Johnson, ", "A Budovsky, ", "D Barardo, ", "T Craig, ", "E Diana, ", "G Lehmann, ", "D...
[ "A", "A", "R", "V", "V", "H", "A", "T", "R", "V", "E", "R", "D", "E", "A", "D", "T", "E", "G", "D", "J", "L", "Y", "A", "W", "R", "Y", "C", "J", "A", "J", "D", "R", "R", "A", "A", "E", "J", "P", "D", "H", "M", "A", "V", "E", "...
[ "Budovsky", "Abramovich", "Cohen", "Chalifa-Caspi", "Fraifeld", "Yanai", "Budovsky", "Barzilay", "Tacutu", "Fraifeld", "Tacutu", "Thornton", "Johnson", "Budovsky", "Barardo", "Craig", "Diana", "Lehmann", "Toren", "Wang", "Sun", "Spong", "Swindell", "Fang", "Hill", "...
[ "Longevity network: Construction and implications. A Budovsky, A Abramovich, R Cohen, V Chalifa-Caspi, V Fraifeld, 10.1016/j.mad.2006.11.018Mech. Age. Dev. 128Budovsky, A.; Abramovich, A.; Cohen, R.; Chalifa-Caspi, V.; Fraifeld, V. Longevity network: Construction and implications. Mech. Age. Dev. 2007, 128, 117-124...
[ "[1]", "[2]", "[3]", "[4]", "[5,", "6]", "[3]", "[7]", "[8]", "[9]", "[10]", "[15]", "[16]", "[17]", "38", "3)", "3)", "[2,", "18,", "19]", "[9]", "[10,", "20]", "[21]", "[22]", "[23]", "[24,", "25]", "[26]", "[27]", "[28]", "[29]", "[16]", "[30]", ...
[ "Longevity network: Construction and implications", "Wide-scale comparative analysis of longevity genes and interventions", "Human ageing genomic resources: New and updated databases", "org: A new, structured and curated database of current therapeutic interventions in aging and age-related disease", "The D...
[ "Mech. Age. Dev", "Aging Cell", "Nucl. Acids Res", "Growth hormone-releasing hormone disruption extends lifespan and regulates response to caloric restriction in mice", "Aging", "Aging Cell", "Cell Rep", "Nat. Rev. Genet", "Aging Cell", "Semin. Cell Dev. Biol", "Aging Cell", "Cell culture-base...
[ "\nFigure 1 .\n1Schematic representation of the analysis workflow used in this study.", "\nFigure 1 .\n1Schematic representation of the analysis workflow used in this study.", "\nFigure 2 .\n2(a) Top linear correlations for species features and gene expression. The heatmap represents significant statistical ass...
[ "Schematic representation of the analysis workflow used in this study.", "Schematic representation of the analysis workflow used in this study.", "(a) Top linear correlations for species features and gene expression. The heatmap represents significant statistical associations (FDR < 0.05, R 2 > 0.3) between the...
[ "Figure 1", "(Figure 2a", "(Figure 2a", "(Figure 2b", "(Figure 2b", "(Figure 2b", "Figure S1", "Figure S1a)", "Figure S1b)", "Figure 3", "(Figure 3a)", "Figure 3b", "Figure 3d", "Figure 3c)", "Figure 3c", "Figure S2", "Figure S2a)", "(Supplementary Figure S2b)", "Figure S2c)", ...
[]
[ "Numerous studies have showed that the average lifespan, and in some cases even maximum lifespan (MLS), could be modified by genetic interventions. Hundreds of genes have been shown to be involved in the control of longevity in model organisms or in the etiopathogenesis of aging-related diseases, with many being hi...
[]
[ "Introduction", "Results and Discussion", "Data Collection and Processing of Gene Expression across Mammalian Species", "Linear Correlations between Gene Expression and Maximum Lifespan", "Linear Correlations between Gene Expression and Maximum Lifespan", "Linear Relationships between Maximum Lifespan and...
[ "Organ \nNumber of \nSamples \n\nRMSE \n(Years) \nR 2 \nMAE \nSignificant Genes for the Linear Regression \n\nBrain \n132 \n15.47 \n0.79 \n8.72 \nC1orf56, LRR1, C6orf89, CALCOCO2, CEL, DCTD, \nDNAJC15, PPP1CA, SPATA20, DPP9 \n\nHeart \n39 \n12.43 \n0.78 \n7.12 \nC1orf56, C6orf89, CALCOCO2, CEL, DCTD, DNAJC15, \nSPA...
[ "Supplementary Table S2", "Supplementary Table S2", "Supplementary Table S2", "Supplementary Table S3", "Supplementary Table S2", "Supplementary Table S3", "Supplementary Table S4", "Table S5", "Table S5)", "Table S6", "(Supplementary Table S6", "Supplementary Table S5", "(Supplementary Ta...
[ "Machine Learning Analysis of Longevity-Associated Gene Expression Landscapes in Mammals", "Machine Learning Analysis of Longevity-Associated Gene Expression Landscapes in Mammals" ]
[ "International Journal of Molecular Sciences Article Int. J. Mol. Sci" ]
21,237,600
2022-08-31T06:02:33Z
CCBY
https://academic.oup.com/nar/article-pdf/44/D1/D1262/9482914/gkv1187.pdf
GOLD
9a929618736bf8a69f64ef9087381ee99394fe74
null
null
null
journals/nar/TorenBTLMF16
10.1093/nar/gkv1187
2174493298
26590258
4702847
MitoAge: a database for comparative analysis of mitochondrial DNA, with a special focus on animal longevity 2016 Dmitri Toren The Shraga Segal Department of Microbiology, Immunology and Genetics Center for Multidisciplinary Research on Aging Ben-Gurion University of the Negev Beer-ShevaIsrael Thomer Barzilay The S...
[ "Mitochondria are the only organelles in the animal cells that have their own genome. Due to a key role in energy production, generation of damaging factors (ROS, heat), and apoptosis, mitochondria and mtDNA in particular have long been considered one of the major players in the mechanisms of aging, longevity and a...
[ "Dmitri Toren \nThe Shraga Segal Department of Microbiology, Immunology and Genetics\nCenter for Multidisciplinary Research on Aging\nBen-Gurion University of the Negev\nBeer-ShevaIsrael\n", "Thomer Barzilay \nThe Shraga Segal Department of Microbiology, Immunology and Genetics\nCenter for Multidisciplinary Resea...
[ "The Shraga Segal Department of Microbiology, Immunology and Genetics\nCenter for Multidisciplinary Research on Aging\nBen-Gurion University of the Negev\nBeer-ShevaIsrael", "The Shraga Segal Department of Microbiology, Immunology and Genetics\nCenter for Multidisciplinary Research on Aging\nBen-Gurion University...
[ "Dmitri", "Thomer", "Robi", "Gilad", "Khachik", "K", "Vadim", "E" ]
[ "Toren", "Barzilay", "Tacutu", "Lehmann", "Muradian", "Fraifeld" ]
[ "D C Wallace, ", "C Lopez-Otin, ", "M A Blasco, ", "L Partridge, ", "M Serrano, ", "G Kroemer, ", "N Apostolova, ", "A Blas-Garcia, ", "J V Esplugues, ", "G Lehmann, ", "E Segal, ", "K K Muradian, ", "V E Fraifeld, ", "F Sevini, ", "C Giuliani, ", "D Vianello, ", "E Giampieri, ", "...
[ "D", "C", "C", "M", "A", "L", "M", "G", "N", "A", "J", "V", "G", "E", "K", "K", "V", "E", "F", "C", "D", "E", "A", "F", "P", "G", "D", "M", "K", "D", "D", "A", "P", "J", "A", "J", "R", "T", "A", "D", "G", "D", "J", "V", "E", "...
[ "Wallace", "Lopez-Otin", "Blasco", "Partridge", "Serrano", "Kroemer", "Apostolova", "Blas-Garcia", "Esplugues", "Lehmann", "Segal", "Muradian", "Fraifeld", "Sevini", "Giuliani", "Vianello", "Giampieri", "Santoro", "Biondi", "Garagnani", "Passarino", "Luiselli", "Capri", ...
[ "A mitochondrial paradigm of metabolic and degenerative diseases, aging, and cancer: a dawn for evolutionary medicine. D C Wallace, Annu. Rev. Genet. 39Wallace,D.C. (2005) A mitochondrial paradigm of metabolic and degenerative diseases, aging, and cancer: a dawn for evolutionary medicine. Annu. Rev. Genet., 39, 359...
[ "(1)", "(2)", "(3)", "(4)", "(5)", "(6)", "(7,", "8)", "(10)", "(5,", "11,", "12)", "(4,", "6,", "(13)", "(14)", "(15)", "(16)", "(17)", "(18)", "(19)", "(9)", "(20)" ]
[ "A mitochondrial paradigm of metabolic and degenerative diseases, aging, and cancer: a dawn for evolutionary medicine", "The hallmarks of aging", "Mitochondria sentencing about cellular life and death: a matter of oxidative stress", "Do mitochondrial DNA and metabolic rate complement each other in determinati...
[ "Annu. Rev. Genet", "Cell", "Curr. Pharm. Des", "Rejuvenation Res", "Exp. Gerontol", "Prog. Mol. Biol. Transl. Sci", "Hum. Reprod", "Exp. Physiol", "Nucleic Acids Res", "Gene", "J. Gerontol. A Biol. Sci. Med. Sci", "Aging Cell", "Front. Genet", "Mech. Ageing Dev", "Trends Genet", "Mito...
[ "\nCFigure 1 .\n1The Author(s) 2015. Published by Oxford University Press on behalf of Nucleic Acids Research. This is an Open Access article distributed under the terms of the Creative Commons Attribution License (http://creativecommons.org/licenses/by/4.0/), which permits unrestricted reuse, distribution, and rep...
[ "The Author(s) 2015. Published by Oxford University Press on behalf of Nucleic Acids Research. This is an Open Access article distributed under the terms of the Creative Commons Attribution License (http://creativecommons.org/licenses/by/4.0/), which permits unrestricted reuse, distribution, and reproduction in any...
[ "(Figures 1 and 2)" ]
[]
[ "Mitochondria are the only organelles in the animal cells that have their own genome. The stability of the mitochondrial DNA (mtDNA) is vital for mitochondrial proper functioning; therefore, changes in mtDNA may have far-reaching consequences for the cell fate and, ultimately, for the whole organism. Not surprising...
[]
[ "INTRODUCTION", "DATABASE CONTENT AND INTERFACE", "DATA SOURCES AND DATA CURATION", "DATA CALCULATION", "AVAILABILITY", "CONCLUSION", "CFigure 1 .", "Figure 2 .", "FUNDING", "Table 1 ." ]
[ "Taxa (scientific name) \n" ]
[ "Table 1" ]
[ "MitoAge: a database for comparative analysis of mitochondrial DNA, with a special focus on animal longevity", "MitoAge: a database for comparative analysis of mitochondrial DNA, with a special focus on animal longevity" ]
[ "Nucleic Acids Research" ]
212,751,312
2022-08-27T11:09:50Z
CCBY
https://www.mdpi.com/2073-4425/11/3/286/pdf
GOLD
b34684ec3cbc3c9e40621ece2d4af67510153c76
null
null
null
null
10.3390/genes11030286
3009570400
32182725
7140858
LRRpredictor-A New LRR Motif Detection Method for Irregular Motifs of Plant NLR Proteins Using an Ensemble of Classifiers Eliza C Martin eliza.martin@biochim.roe.c.m. Department of Bioinformatics and Structural Biochemistry Institute of Biochemistry of the Romanian Academy Splaiul Independentei 296060031BucharestRo...
[ "Leucine-rich-repeats (LRRs) belong to an archaic procaryal protein architecture that is widely involved in protein-protein interactions. In eukaryotes, LRR domains developed into key recognition modules in many innate immune receptor classes. Due to the high sequence variability imposed by recognition specificity,...
[ "Eliza C Martin eliza.martin@biochim.roe.c.m. \nDepartment of Bioinformatics and Structural Biochemistry\nInstitute of Biochemistry of the Romanian Academy\nSplaiul Independentei 296060031BucharestRomania\n", "C A Octavina ", "Sukarta \nLaboratory of Nematology\nWageningen University and Research\n6700ESWagenin...
[ "Department of Bioinformatics and Structural Biochemistry\nInstitute of Biochemistry of the Romanian Academy\nSplaiul Independentei 296060031BucharestRomania", "Laboratory of Nematology\nWageningen University and Research\n6700ESWageningenThe Netherlands", "Department of Bioinformatics and Structural Biochemist...
[ "Eliza", "C", "C", "A", "Laurentiu", "Laurentiu", "G", "Vlad", "Robi", "Aska", "Andrei-Jose" ]
[ "Martin", "Octavina", "Sukarta", "Spiridon", "Grigore", "Constantinescu", "Tacutu", "Goverse", "Petrescu" ]
[ "P Enkhbayar, ", "M Kamiya, ", "M Osaki, ", "T Matsumoto, ", "N Matsushima, ", "R F Warren, ", "A Henk, ", "P Mowery, ", "E Holub, ", "R W Innes, ", "Y Jia, ", "S A Mcadams, ", "G T Bryan, ", "H P Hershey, ", "B Valent, ", "F Moghaddas, ", "P Zeng, ", "Y Zhang, ", "H SchΓΌtzle, ",...
[ "P", "M", "M", "T", "N", "R", "F", "A", "P", "E", "R", "W", "Y", "S", "A", "G", "T", "H", "P", "B", "F", "P", "Y", "H", "S", "S", "R", "R", "Y", "B", "X", "C", "S", "E", "W", "W", "P", "J", "M", "A", "L", "S", "A", "M", "N", "...
[ "Enkhbayar", "Kamiya", "Osaki", "Matsumoto", "Matsushima", "Warren", "Henk", "Mowery", "Holub", "Innes", "Jia", "Mcadams", "Bryan", "Hershey", "Valent", "Moghaddas", "Zeng", "Zhang", "SchΓΌtzle", "Brenner", "Hofmann", "Berner", "Zhao", "Lu", "Chen", "PaisΓ‘n-RuΓ­z", ...
[ "Structural Principles of Leucine-Rich Repeat (LRR) Proteins. P Enkhbayar, M Kamiya, M Osaki, T Matsumoto, N Matsushima, 10.1002/prot.10605Proteins Struct. Funct. Bioinform. 54PubMedEnkhbayar, P.; Kamiya, M.; Osaki, M.; Matsumoto, T.; Matsushima, N. Structural Principles of Leucine-Rich Repeat (LRR) Proteins. Prote...
[ "[1]", "[2]", "[3]", "[4]", "[21,", "22]", "[10,", "25]", "[26]", "[27]", "[28]", "[29]", "[30]", "[31]", "[32]", "[33]", "[28]", "[34]", "[35]", "[36]", "[37]", "[38,", "39]", "[40]", "[41,", "42]", "[43]", "[44]", "[45]", "[46]", "[47]", "[48]", "[49...
[ "Structural Principles of Leucine-Rich Repeat (LRR) Proteins", "A mutation within the leucine-rich repeat domain of the arabidopsis disease resistance gene RPS5 partially suppresses multiple bacterial and downy mildew resistance genes", "Direct interaction of resistance gene and avirulence gene products confers...
[ "Proteins Struct. Funct. Bioinform", "Plant Cell", "EMBO J", "J. Allergy Clin. Immunol", "Neuron", "Neuron", "Osteoarthritis Cartilage", "Ageing Res. Rev", "Semin. Cell Dev. Biol", "Proc. Natl. Acad. Sci", "Biomolecules", "Protein Sci", "BMC Genom", "Curr. Opin. Struct. Biol", "Proc. Nat...
[ "\nFigure 1 .\n1Available leucine-rich-repeat (LRR) domains in structural data. (a) LRR structural dataset construction. (b) LRR domain horseshoe architecture illustrated on the only plant NLR cryo-EM structure available-ZAR1-from Arabidopsis thaliana (left) and zoom-in view of a LRR repeat (right) (PDB: 6J5W). The...
[ "Available leucine-rich-repeat (LRR) domains in structural data. (a) LRR structural dataset construction. (b) LRR domain horseshoe architecture illustrated on the only plant NLR cryo-EM structure available-ZAR1-from Arabidopsis thaliana (left) and zoom-in view of a LRR repeat (right) (PDB: 6J5W). The hydrophobic po...
[ "Figure A1a", "Figure 1", "Figure 1e", "Figure 1c", "Figure 2d", "Figure 1a", "Figure 1b)", "Figure A1d", "Figure 1b", "Figure A1c", "(Figure 1c)", "Figure A1b", "(Figure 1d", "(Figure 1d", "(Figure 1d", "Figure 1c", "Figure A1c", "(Figure 1c", "Figure A1b", "(Figure 1d", "(F...
[ "d(i, j) = s(i, i) + s( j, j) βˆ’ 2Β·s(i, j)(1)", "D a,b = l i=0 d(a i , b i ),(2)" ]
[ "The leucine-rich-repeat (LRR) domains are present in all of the tree of life branches. As they are involved in protein-protein interactions, LRR domains are found in receptors having a vast number of functions such as pathogen detection, immune response propagation, hormone perception, enzyme inhibition, or cell a...
[]
[ "Introduction", "Materials and Methods", "Assembly and Analysis of the LRR Structural Dataset", "Training and Testing Datasets Construction", "Feature Selection and Data Pre-Processing", "Machine Learning Model Selection", "Assembly of Protein Family Sets Containing LRR Domains", "Assessment of LRR Mo...
[ "Full NonLRR Proteins \nLRR Proteins \n\n", "Dataset \nClassifier \n\nIn-Sample \nOut-Of Sample \n\nPrecision Recall F1-Score \nPrecision Recall F1-Score \n\nTN \nFP \nFN \nTP \nRecall on Core(L) Only \n-\nNon-LRR \nProteins \n\nLRR \nProteins \n\nN-Entry \n(N) \n\nCore \n(L) \n\nC-Exit \n(C) \n\nN-Entry \n(N) \n...
[ "Table 1", "(Table 1", "Table A1", "(Table A1)", "(Table A1)", "Table A1" ]
[ "LRRpredictor-A New LRR Motif Detection Method for Irregular Motifs of Plant NLR Proteins Using an Ensemble of Classifiers", "LRRpredictor-A New LRR Motif Detection Method for Irregular Motifs of Plant NLR Proteins Using an Ensemble of Classifiers" ]
[]
237,479,797
2022-01-10T05:35:55Z
CCBY
https://doi.org/10.18632/aging.203518
GOLD
1c8fde34e660e157d40048091edfdda3d5b367eb
null
null
null
null
10.18632/aging.203518
null
34506301
8457566
Knock-down of odr-3 and ife-2 additively extends lifespan and healthspan in C. elegans Published: September 9, 2021 Ioan Valentin Matei Systems Biology of Aging Group Institute of Biochemistry of the Romanian Academy BucharestRomania Vimbai Netsai Charity Samukange Systems Biology of Aging Group Institute of Bioc...
[ "Genetic manipulations can ameliorate the aging process and extend the lifespan of model organisms. The aim of this research was to identify novel genetic interventions that promote both lifespan and healthspan, by combining the effects of multiple longevity-associated gene inactivations in C. elegans. For this, th...
[ "Ioan Valentin Matei \nSystems Biology of Aging Group\nInstitute of Biochemistry of the Romanian Academy\nBucharestRomania\n", "Vimbai Netsai ", "Charity Samukange \nSystems Biology of Aging Group\nInstitute of Biochemistry of the Romanian Academy\nBucharestRomania\n", "Gabriela Bunu \nSystems Biology of Agin...
[ "Systems Biology of Aging Group\nInstitute of Biochemistry of the Romanian Academy\nBucharestRomania", "Systems Biology of Aging Group\nInstitute of Biochemistry of the Romanian Academy\nBucharestRomania", "Systems Biology of Aging Group\nInstitute of Biochemistry of the Romanian Academy\nBucharestRomania", "...
[ "Ioan", "Valentin", "Vimbai", "Charity", "Gabriela", "Dmitri", "Simona", "Robi" ]
[ "Matei", "Netsai", "Samukange", "Bunu", "Toren", "Ghenea", "Tacutu" ]
[ "J M Phillip, ", "I Aifuwa, ", "J Walston, ", "D Wirtz, ", "M Lemoine, ", "R N Butler, ", "R A Miller, ", "D Perry, ", "B A Carnes, ", "T F Williams, ", "C Cassel, ", "J Brody, ", "M A Bernard, ", "L Partridge, ", "T Kirkwood, ", "G M Martin, ", "S J Olshansky, ", "R A Miller, ", ...
[ "J", "M", "I", "J", "D", "M", "R", "N", "R", "A", "D", "B", "A", "T", "F", "C", "J", "M", "A", "L", "T", "G", "M", "S", "J", "R", "A", "K", "P", "C", "J", "L", "J", "P", "E", "M", "R", "L", "Y", "R", "D", "Johnson", "E", "A", "D...
[ "Phillip", "Aifuwa", "Walston", "Wirtz", "Lemoine", "Butler", "Miller", "Perry", "Carnes", "Williams", "Cassel", "Brody", "Bernard", "Partridge", "Kirkwood", "Martin", "Olshansky", "Miller", "High", "Kenyon", "Partridge", "Deelen", "Slagboom", "Lezzerini", "Smith", ...
[ "The Mechanobiology of Aging. J M Phillip, I Aifuwa, J Walston, D Wirtz, 10.1146/annurev-bioeng-071114-04082926643020Annu Rev Biomed Eng. 17Phillip JM, Aifuwa I, Walston J, Wirtz D. The Mechanobiology of Aging. Annu Rev Biomed Eng. 2015; 17:113-41. https://doi.org/10.1146/annurev-bioeng-071114- 040829 PMID:26643020...
[ "[1,", "2]", "[3]", "[4]", "[5]", "[6]", "[7]", "[8]", "[9]", "[9]", "[10]", "[13]", "[14]", "[15]", "[9]", "[16,", "17]", "[18]", "[6,", "19,", "20]", "[21]", "[22]", "[23]", "[24]", "[25]", "[26]", "[27]", "[28]", "[29]", "[13,", "30,", "31]", "[32...
[ "The Mechanobiology of Aging", "Defining aging", "New model of health promotion and disease prevention for the 21st century", "Dividends\" from research on aging--can biogerontologists, at long last, find something useful to do?", "Infrastructure and resources for an aging population: embracing complexity i...
[ "Annu Rev Biomed Eng", "Biol Philos", "BMJ", "J Gerontol A Biol Sci Med Sci", "Transl Res", "Nature", "Nature", "Biogerontology", "Nucleic Acids Res", "Aging Cell", "Aging Cell", "Int J Mol Sci", "Nature", "Cell", "Aging Cell", "Nat Rev Genet", "Nat Rev Genet", "Sci Data", "Aging...
[ "\nFigure 1 .\n1Kaplan-Meier survival curves depicting the effects of combined genetic interventions on odr-3, ife-2 and cku-70 at 20Β° C. (A-D) Lifespan comparisons in the WT background (continuous lines). (E-H) Lifespan comparisons in the daf-16(mu86) background (dashed lines). Survival curves represent: (A, E) od...
[ "Kaplan-Meier survival curves depicting the effects of combined genetic interventions on odr-3, ife-2 and cku-70 at 20Β° C. (A-D) Lifespan comparisons in the WT background (continuous lines). (E-H) Lifespan comparisons in the daf-16(mu86) background (dashed lines). Survival curves represent: (A, E) odr-3(n1605) and ...
[ "Figure 1A", "Figure 1B", "Figure 1A", "Figure 1B", "Figure 1A-1C)", "Figure 1D", "Figure 1C", "Figure 1D", "Figure 1E", "Figure 1E", "Figure 2)", "Figure 1F", "Figure 1H", "Figure 2", "(Figure 2", "Figure 2", "Figure 3A", "Figure 3B", "Figure 3C", "Figure 4A", "Figure 4)", ...
[]
[ "The aging process might be defined by the progressive loss of viability and by an increase in fragility and vulnerability [1,2]. This in turn, results in a huge health-related cost for the elderly and a dramatic growth in the mortality rate. Understanding the mechanisms underlying aging is one of the major biologi...
[]
[ "INTRODUCTION", "RESULTS", "RNA interference of ife-2 but not cku-70 increases lifespan of the long-lived odr-3 mutants", "AGING", "AGING", "The extended longevity of odr-3; ife-2 double intervention might be independent of DAF-16", "AGING", "The odr-3; ife-2 impaired animals display increased motilit...
[ "Strain RNAi* Mean lifespan days Β± SD \nEffect vs control \np-value Strain RNAi* \nMean lifespan days Β± SD Effect vs control \np-value \n\nWT \nEV \n20.6Β±0.2 \n[control] \nWT \nEV \n20.6Β±0.2 \n[control] \n\nodr-3 \n26.0Β±0.3 \n26.2 % \n<2.0E-16 odr-3 \n26.0Β±0.3 \n26.2 % \n<2.00E-16 \n\nWT \nife-2 \n24.3Β±0.2 \n18.0 %...
[ "Table 1)", "Supplementary Table 1", "(Table 1)", "Table 1", "Table 1 and Supplementary Table 1", "(Table 1)", "(Table 1)", "Table 1", "Table 1", "Table 1", "Table 2", "Table 2", "(Supplementary Table 2", "Table 1" ]
[ "Knock-down of odr-3 and ife-2 additively extends lifespan and healthspan in C. elegans", "Knock-down of odr-3 and ife-2 additively extends lifespan and healthspan in C. elegans" ]
[]
708,686
2022-07-14T06:45:02Z
CCBY
https://journals.plos.org/plosone/article/file?id=10.1371/journal.pone.0048282&type=printable
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Prediction of C. elegans Longevity Genes by Human and Worm Longevity Networks Published October 29, 2012 Robi Tacutu The Shraga Segal Department of Microbiology, Immunology and Genetics Center for Multidisciplinary Research on Aging Ben-Gurion University of the Negev Beer-ShevaIsrael David E Shore Department of Mo...
[ "Intricate and interconnected pathways modulate longevity, but screens to identify the components of these pathways have not been saturating. Because biological processes are often executed by protein complexes and fine-tuned by regulatory factors, the first-order protein-protein interactors of known longevity gene...
[ "Robi Tacutu \nThe Shraga Segal Department of Microbiology, Immunology and Genetics\nCenter for Multidisciplinary Research on Aging\nBen-Gurion University of the Negev\nBeer-ShevaIsrael\n", "David E Shore \nDepartment of Molecular Biology\nMassachusetts General Hospital\nBostonMassachusetts\n\nUnited States of Am...
[ "The Shraga Segal Department of Microbiology, Immunology and Genetics\nCenter for Multidisciplinary Research on Aging\nBen-Gurion University of the Negev\nBeer-ShevaIsrael", "Department of Molecular Biology\nMassachusetts General Hospital\nBostonMassachusetts", "United States of America\n", "Department of Gen...
[ "Robi", "David", "E", "Arie", "JoΓ£", "Pedro", "Gary", "Vadim", "E", "Sean", "P" ]
[ "Tacutu", "Shore", "Budovsky", "De MagalhΓ£ Es", "Ruvkun", "Fraifeld", "Curran" ]
[ "S S Lee, ", "M R Klass, ", "C Kenyon, ", "J Chang, ", "E Gensch, ", "A Rudner, ", "R Tabtiang, ", "E L Greer, ", "A Brunet, ", "M Hansen, ", "A L Hsu, ", "A Dillin, ", "C Kenyon, ", "B Hamilton, ", "Y Dong, ", "M Shindo, ", "W Liu, ", "I Odell, ", "S Curran, ", "G Ruvkun, ", ...
[ "S", "S", "M", "R", "C", "J", "E", "A", "R", "E", "L", "A", "M", "A", "L", "A", "C", "B", "Y", "M", "W", "I", "S", "G", "T", "E", "S", "S", "E", "S", "H", "T", "E", "E", "Hegi", "S", "J", "S", "S", "H", "D", "G", "T", "J", "M", ...
[ "Lee", "Klass", "Kenyon", "Chang", "Gensch", "Rudner", "Tabtiang", "Greer", "Brunet", "Hansen", "Hsu", "Dillin", "Kenyon", "Hamilton", "Dong", "Shindo", "Liu", "Odell", "Curran", "Ruvkun", "Johnson", "Henderson", "Murakami", "De Castro", "De Castro", "Johnson", "D...
[ "Whole genome RNAi screens for increased longevity: important new insights but not the whole story. S S Lee, Exp Gerontol. 41Lee SS (2006) Whole genome RNAi screens for increased longevity: important new insights but not the whole story. Exp Gerontol 41: 968-973.", "A method for the isolation of longevity mutants...
[ "[1]", "[2]", "[3,", "4]", "[5,", "6]", "[1]", "[7]", "[8,", "9]", "[10,", "11,", "12,", "13,", "14,", "15]", "[7,", "16,", "17,", "18,", "19]", "[20]", "Samuelson et al. (2007)", "[21]", "[22,", "23]", "[24]", "[16,", "18,", "25]", "[26]", "[19,", "22...
[ "Whole genome RNAi screens for increased longevity: important new insights but not the whole story", "A method for the isolation of longevity mutants in the nematode Caenorhabditis elegans and initial results", "A C. elegans mutant that lives twice as long as wild type", "Different dietary restriction regimen...
[ "Exp Gerontol", "Mech Ageing Dev", "Nature", "Aging Cell", "PLoS Genet", "Genes Dev", "PLoS Genet", "Journal Inherit Metab Dis", "Exp Gerontol", "Cell", "Cell", "Nature", "Proc Natl Acad Sci U S A", "Cell", "Science", "Rejuvenation Res", "Mech Ageing Dev", "FEBS Lett", "Aging (Al...
[ "\nFigure 2 .\n2Disruption of translation extends longevity in C. elegans. The gene inactivations found to extend lifespan by the greatest percentage function in translation. T23D8.3 is the C. elegans ortholog of human LTV1, which is required for the nuclear export and processing f the 40S ribosomal subunit. The ri...
[ "Disruption of translation extends longevity in C. elegans. The gene inactivations found to extend lifespan by the greatest percentage function in translation. T23D8.3 is the C. elegans ortholog of human LTV1, which is required for the nuclear export and processing f the 40S ribosomal subunit. The ribosomal protein...
[ "Figure 1", "(Figure 1", "Figure 3", "(Tables 1 and 2", "(Table 1, Figure 2", "Figure 2", "Figure 3", "Figure 3" ]
[]
[ "Numerous pathways contribute to longevity, but the identification of their components has not been saturating [1]. Because of their short lifespan and genetic tractability, C. elegans have proven indispensable in the study of longevity. The first screen to identify C. elegans genes that regulate longevity was an E...
[]
[ "Introduction", "Materials and Methods", "Data Sources", "Network Construction", "Prediction of New Worm Longevity Regulators Based on WLN/HLN", "Detection of Functional Enrichment", "Strains and Culture Conditions", "Post-developmental RNAi", "Survival Analysis", "Adult Lifespan Analysis", "Res...
[ "Gene \nCommon name \nLifespan (%D mean) a \nLifespan (%D max) a \nFunction \n\nT23D8.3 \nT23D8.3 \n25.7 \n34.7 \nTranslation \n\nF37C12.9 \nrps-14 \n16.6 \n21.7 \nTranslation \n\nT09A5.10 \nlin-5 \n16.4 \n8.7 \nCell division \n\nC03C10.3 b \nrnr-2 \n14.2 \n21.7 \nDNA biosynthesis \n\nF54E7.2 \nrps-12 \n11.6 \n21.7...
[ "Table 3", "(Tables S2 and S3", "(Table S1", "(Table S2", "(Table S3)", "(Table S1", "(Table S2", "(Table S3)", "Tables 3 and 4" ]
[ "Prediction of C. elegans Longevity Genes by Human and Worm Longevity Networks", "Prediction of C. elegans Longevity Genes by Human and Worm Longevity Networks" ]
[]
20,067,865
2022-03-13T19:59:13Z
CCBY
https://doi.org/10.1111/acel.12659
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Wide-scale comparative analysis of longevity genes and interventions Hagai Yanai The Shraga Segal Department of Microbiology, Immunology and Genetics Center for Multidisciplinary Research on Aging Ben-Gurion University of the Negev POB 6538410501Beer ShevaIsrael Arie Budovsky The Shraga Segal Department of Microb...
[ "Hundreds of genes, when manipulated, affect the lifespan of model organisms (yeast, worm, fruit fly, and mouse) and thus can be defined as longevity-associated genes (LAGs). A major challenge is to determine whether these LAGs are model-specific or may play a universal role as longevity regulators across diverse t...
[ "Hagai Yanai \nThe Shraga Segal Department of Microbiology, Immunology and Genetics\nCenter for Multidisciplinary Research on Aging\nBen-Gurion University of the Negev\nPOB 6538410501Beer ShevaIsrael\n", "Arie Budovsky \nThe Shraga Segal Department of Microbiology, Immunology and Genetics\nCenter for Multidiscipl...
[ "The Shraga Segal Department of Microbiology, Immunology and Genetics\nCenter for Multidisciplinary Research on Aging\nBen-Gurion University of the Negev\nPOB 6538410501Beer ShevaIsrael", "The Shraga Segal Department of Microbiology, Immunology and Genetics\nCenter for Multidisciplinary Research on Aging\nBen-Gur...
[ "Hagai", "Arie", "Thomer", "Robi", "Vadim", "E" ]
[ "Yanai", "Budovsky", "Barzilay", "Tacutu", "Fraifeld" ]
[ "M V Blagosklonny, ", "A Budovsky, ", "A Abramovich, ", "R Cohen, ", "V Chalifa-Caspi, ", "V Fraifeld, ", "A Budovsky, ", "R Tacutu, ", "H Yanai, ", "A Abramovich, ", "M Wolfson, ", "V Fraifeld, ", "A Chatr-Aryamontri, ", "B J Breitkreutz, ", "R Oughtred, ", "L Boucher, ", "S Heinick...
[ "M", "V", "A", "A", "R", "V", "V", "A", "R", "H", "A", "M", "V", "A", "B", "J", "R", "L", "S", "D", "C", "A", "N", "O&apos;", "L", "T", "J", "L", "A", "A", "C", "J", "C", "J", "M", "S", "K", "M", "F", "A", "J", "J", "K", "D", "S...
[ "Blagosklonny", "Budovsky", "Abramovich", "Cohen", "Chalifa-Caspi", "Fraifeld", "Budovsky", "Tacutu", "Yanai", "Abramovich", "Wolfson", "Fraifeld", "Chatr-Aryamontri", "Breitkreutz", "Oughtred", "Boucher", "Heinicke", "Chen", "Stark", "Breitkreutz", "Kolas", "Donnell", "R...
[ "M(o)TOR of aging: MTOR as a universal molecular hypothalamus. M V Blagosklonny, Aging (Albany NY). 5Blagosklonny MV (2013) M(o)TOR of aging: MTOR as a universal molecular hypothalamus. Aging (Albany NY) 5, 490-494.", "Longevity network: construction and implications. A Budovsky, A Abramovich, R Cohen, V Chalifa-...
[ "(Vijg & Suh, 2005;", "Kenyon, 2010)", "(Tacutu et al., 2013)", "(Budovsky et al., 2007;", "Tacutu et al., 2013)", "(Budovsky et al., 2007)", "(Budovsky et al., 2007;", "Wolfson et al., 2009;", "Tacutu et al., 2010a", "Tacutu et al., , 2011", "Tacutu et al., , 2012", "(Budovsky et al., 2007", ...
[ "M(o)TOR of aging: MTOR as a universal molecular hypothalamus", "Longevity network: construction and implications", "Common gene signature of cancer and longevity", "The BioGRID interaction database: 2015 update", "Assessing performance of orthology detection strategies applied to eukaryotic genomes", "Li...
[ "Aging (Albany NY)", "Mech. Ageing Dev", "Mech. Ageing Dev", "Nucleic Acids Res", "PLoS ONE", "PLoS Genet", "Int. Rev. Neurobiol", "BMC Genom", "Gerontology", "Annu. Rev. Physiol", "Aging Cell", "Genes Dev", "PLoS Genet", "Cell", "Nucleic Acids Res", "Genome Biol", "Nat. Protoc", "...
[ "\n\n(a) Saccharomyces cerevisiae, n = 6590 for control, 824 for all LAGs, and 277 for LSE-LAGs. (b) C. elegans, n = 20 325 for control, 733 for all LAGs, 491 for LSE-LAGs, 127 for PD RNAi LAGs, and 107 for PD RNAi LSE-LAGs. (c) Drosophila melanogaster, n = 13 250 for control, 136 for all LAGs, and 85 for LSE-LAGs....
[ "(a) Saccharomyces cerevisiae, n = 6590 for control, 824 for all LAGs, and 277 for LSE-LAGs. (b) C. elegans, n = 20 325 for control, 733 for all LAGs, 491 for LSE-LAGs, 127 for PD RNAi LAGs, and 107 for PD RNAi LSE-LAGs. (c) Drosophila melanogaster, n = 13 250 for control, 136 for all LAGs, and 85 for LSE-LAGs. (d)...
[ "Fig. 1", "(Fig. 2)", "(Fig. 1)", "Fig. 2a)", "(Fig. 1b)", "(Fig. 1b)", "Fig. 1", "Fig. S1", "(Fig. S2", "Fig. 2", "Fig. 3", "(Fig. 3)", "Fig. S3", "Fig. S3", "(Fig. 4)", "Fig. 4", "(Fig. 5, Table S8", "(Fig. 5a, white)", "(Fig. 5b)", "Fig. S4", "Fig. 5", "Fig. S5", "(Fig...
[]
[ "The role of genetic factors in determination of longevity and aging patterns is an intensively studied issue (Vijg & Suh, 2005;Kenyon, 2010). Hundreds of genes, when manipulated, have been shown to affect the lifespan of model organisms (yeast, worm, fruit fly, and mouse) (Tacutu et al., 2013). These genes (furthe...
[]
[ "Introduction", "Results", "Orthology of longevity-associated genes", "'Public' and 'private' LAG categories", "Stress response genes and the importance of overexpression interventions", "Concordancy and discordancy in lifespan-modulating genetic interventions", "Discussion", "Experimental procedures ...
[ "Public/Private \nSaccharomyces cerevisiae \nCaenorhabditis elegans \nDrosophila melanogaster \nMus musculus \n\nPublic \nTaxa groups \nwhere orthologs \nare present \n\nat least 12 phyla \nat least 12 phyla \nat least 10 phyla \nat least 10 phyla \n\nAll LAGs \nRibosome and translation \nMitochondria \nCitrate cyc...
[ "(Table S1)", "Table S1", "(Table S2", "Table S1", "Table S3", "Table 1", "Table S4", "(Table 1", "Table S4", "Table S3", "Table 1, Table S5", "Table 1 and Table S5", "Table 1 and Table S6", "(Table S4)", "(Table 1)", "Table S7", "Table S7", "Table S8", "(Table S7)", "(Table 1)...
[ "Wide-scale comparative analysis of longevity genes and interventions", "Wide-scale comparative analysis of longevity genes and interventions" ]
[]
52,829,264
2022-03-01T11:08:03Z
CCBY
https://doi.org/10.1093/nar/gkx1042
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Human Ageing Genomic Resources: new and updated databases 2018 Robi Tacutu Integrative Genomics of Ageing Group Institute of Ageing and Chronic Disease University of Liverpool L7 8TXLiverpoolUK Institute of Biochemistry Computational Biology of Aging Group Romanian Academy 060031BucharestRomania Daniel Thornton I...
[ "In spite of a growing body of research and data, human ageing remains a poorly understood process. Over 10 years ago we developed the Human Ageing Genomic Resources (HAGR), a collection of databases and tools for studying the biology and genetics of ageing. Here, we present HAGR's main functionalities, highlightin...
[ "Robi Tacutu \nIntegrative Genomics of Ageing Group\nInstitute of Ageing and Chronic Disease\nUniversity of Liverpool\nL7 8TXLiverpoolUK\n\nInstitute of Biochemistry\nComputational Biology of Aging Group\nRomanian Academy\n060031BucharestRomania\n", "Daniel Thornton \nIntegrative Genomics of Ageing Group\nInstitu...
[ "Integrative Genomics of Ageing Group\nInstitute of Ageing and Chronic Disease\nUniversity of Liverpool\nL7 8TXLiverpoolUK", "Institute of Biochemistry\nComputational Biology of Aging Group\nRomanian Academy\n060031BucharestRomania", "Integrative Genomics of Ageing Group\nInstitute of Ageing and Chronic Disease...
[ "Robi", "Daniel", "Emily", "Arie", "Diogo", "Thomas", "Eugene", "Gilad", "Dmitri", "Jingwei", "Vadim", "E", "JoΓ£o", "P" ]
[ "Tacutu", "Thornton", "Johnson", "Budovsky", "Barardo", "Craig", "Diana", "Lehmann", "Toren", "Wang", "Fraifeld", "De MagalhΓ£es" ]
[ "C Lopez-Otin, ", "M A Blasco, ", "L Partridge, ", "M Serrano, ", "G Kroemer, ", "J P De Magalhaes, ", "J Costa, ", "O Toussaint, ", "R Tacutu, ", "T Craig, ", "A Budovsky, ", "D Wuttke, ", "G Lehmann, ", "D Taranukha, ", "J Costa, ", "V E Fraifeld, ", "De Magalhaes, ", "J P De Mag...
[ "C", "M", "A", "L", "M", "G", "J", "P", "J", "O", "R", "T", "A", "D", "G", "D", "J", "V", "E", "J", "P", "A", "G", "J", "Y", "V", "G", "M", "M", "M", "W", "T", "L", "B", "M", "W", "J", "L", "M", "R", "C", "M", "T", "Y", "P", "...
[ "Lopez-Otin", "Blasco", "Partridge", "Serrano", "Kroemer", "De Magalhaes", "Costa", "Toussaint", "Tacutu", "Craig", "Budovsky", "Wuttke", "Lehmann", "Taranukha", "Costa", "Fraifeld", "De Magalhaes", "De Magalhaes", "Budovsky", "Lehmann", "Costa", "Li", "Fraifeld", "Chur...
[ "The hallmarks of aging. C Lopez-Otin, M A Blasco, L Partridge, M Serrano, G Kroemer, Cell. 153Lopez-Otin,C., Blasco,M.A., Partridge,L., Serrano,M. and Kroemer,G. (2013) The hallmarks of aging. Cell, 153, 1194-1217.", "HAGR: the Human Ageing Genomic Resources. J P De Magalhaes, J Costa, O Toussaint, Nucleic Acids...
[ "(1)", "(2)", "(2)", "(3)", "(4)", "(5)", "(6)", "(8)", "(9)", "(4)", "(11)", "(12)", "(13)", "(14)", "(15)", "(16)", "(2)", "(17)", "(3,", "18)", "(3,", "18)", "(3,", "4,", "18)", "(19)", "(20)", "(21)", "(22)", "(23)", "(3,", "23)", "(3)", "(24)", ...
[ "The hallmarks of aging", "HAGR: the Human Ageing Genomic Resources", "Human Ageing Genomic Resources: integrated databases and tools for the biology and genetics of ageing", "The Human Ageing Genomic Resources: online databases and tools for biogerontologists", "Hierarchical deterioration of body systems i...
[ "Cell", "Nucleic Acids Res", "Nucleic Acids Res", "Aging Cell", "Mech. Ageing Dev", "Nature", "Nat. Rev. Mol. Cell Biol", "Adv. Cancer Res", "Nature", "Genes Dev", "Hum. Mol. Genet", "PLoS One", "Aging (Albany NY)", "Nucleic Acids Res", "Biogerontology", "Integr. Comp. Biol", "and Ba...
[ "\nFigure 1 .\n1Patterns of ageing research for different human genes over time. The proportion of publications that focused mainly on ageing research are shown in red, the remaining publications are shown in blue.", "\nFigure 2 .\n2(A) Combined HAGR and senescence.info unique visitors per month (black line). The...
[ "Patterns of ageing research for different human genes over time. The proportion of publications that focused mainly on ageing research are shown in red, the remaining publications are shown in blue.", "(A) Combined HAGR and senescence.info unique visitors per month (black line). The secondary axis and grey bars ...
[ "(Figure 1", "(Figure 1", "(Figure 2A)", "Figure 2B" ]
[]
[ "Ageing is a complex biological process that, despite decades of research, is not yet well understood. Many age-related changes have been described, however the theories regarding which mechanisms drive ageing changes are still controversial (1). Since their conception, the Human Ageing Genomic Resources (HAGR) hav...
[]
[ "INTRODUCTION", "DATABASE CONTENT", "GenAge--the ageing gene database", "AnAge--the database of animal ageing and longevity", "D1086 Nucleic Acids Research, 2018, Vol. 46, Database issue", "GenDR--a database of dietary restriction-related genes", "LongevityMap--human genetic variants associated with lon...
[ "Database \nSpecies \n" ]
[ "(Table 1)", "(Table 1)" ]
[ "Human Ageing Genomic Resources: new and updated databases", "Human Ageing Genomic Resources: new and updated databases" ]
[ "Nucleic Acids Research" ]
238,230,569
2023-02-22T16:52:05Z
CCBY
https://www.nature.com/articles/s41598-021-98674-6.pdf
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Systems biology analysis of lung fibrosis-related genes in the bleomycin mouse model 0123456789. 2021 Dmitri Toren Systems Biology of Aging Group Institute of Biochemistry of the Romanian Academy 060031BucharestRomania Hagai Yanai Epigenetics and Stem Cell Unit Translational Gerontology Branch National Institute o...
[ "Tissue fibrosis is a major driver of pathology in aging and is involved in numerous age-related diseases. The lungs are particularly susceptible to fibrotic pathology which is currently difficult to treat. The mouse bleomycin-induced fibrosis model was developed to investigate lung fibrosis and widely used over th...
[ "Dmitri Toren \nSystems Biology of Aging Group\nInstitute of Biochemistry of the Romanian Academy\n060031BucharestRomania\n", "Hagai Yanai \nEpigenetics and Stem Cell Unit\nTranslational Gerontology Branch\nNational Institute on Aging, NIH\n21224BaltimoreMDUSA\n", "Reem Abu Taha ", "Gabriela Bunu \nSystems Bi...
[ "Systems Biology of Aging Group\nInstitute of Biochemistry of the Romanian Academy\n060031BucharestRomania", "Epigenetics and Stem Cell Unit\nTranslational Gerontology Branch\nNational Institute on Aging, NIH\n21224BaltimoreMDUSA", "Systems Biology of Aging Group\nInstitute of Biochemistry of the Romanian Acade...
[ "Dmitri", "Hagai", "Reem", "Gabriela", "Eugen", "Rolf", "Robi", "E" ]
[ "Toren", "Yanai", "Abu Taha", "Bunu", "Ursu", "Ziesche", "Tacutu", "Vadim", "Fraifeld" ]
[ "V J Thannickal, ", "J L Schneider, ", "R Ziesche, ", "M Golec, ", "E Samaha, ", "S Gulati, ", "V J Thannickal, ", "D C Zank, ", "M Bueno, ", "A L Mora, ", "M Rojas, ", "A L Mora, ", "M Rojas, ", "A Pardo, ", "M Selman, ", "B Moore, ", "E Samaha, ", "V J Thannickal, ", "T Liu, ",...
[ "V", "J", "J", "L", "R", "M", "E", "S", "V", "J", "D", "C", "M", "A", "L", "M", "A", "L", "M", "A", "M", "B", "E", "V", "J", "T", "F", "G", "S", "H", "A", "K", "D", "J", "M", "N", "V", "A", "S", "M", "A", "P", "H", "E", "L L", ...
[ "Thannickal", "Schneider", "Ziesche", "Golec", "Samaha", "Gulati", "Thannickal", "Zank", "Bueno", "Mora", "Rojas", "Mora", "Rojas", "Pardo", "Selman", "Moore", "Samaha", "Thannickal", "Liu", "De Los Santos", "Phan", "Moeller", "Ask", "Warburton", "Gauldie", "Kolb", ...
[ "Aging, antagonistic pleiotropy and fibrotic disease. V J Thannickal, Int. J. Biochem. Cell Biol. 42Thannickal, V. J. Aging, antagonistic pleiotropy and fibrotic disease. Int. J. Biochem. Cell Biol. 42, 1398-1400 (2010).", "The aging lung: Physiology, disease, and immunity. J L Schneider, Cell. 184Schneider, J. L...
[ "16", "19", "21", "15,", "21", "21,", "23", "24", "25", "15", "22", "27", "28", "29", "6,", "27,", "30,", "31", "32,", "33", "34", "11,", "12", "10,", "25,", "35", "36", "37", "38", "15,", "39,", "40", "16", "44", "45", "24", "24", "47" ]
[ "Aging, antagonistic pleiotropy and fibrotic disease", "The aging lung: Physiology, disease, and immunity", "The RESOLVE concept: approaching pathophysiology of fibroproliferative disease in aged individuals", "The aging lung and idiopathic pulmonary fibrosis", "Idiopathic pulmonary fibrosis: Aging, mitocho...
[ "the 9th Python in Science Conference 92-96", "Int. J. Biochem. Cell Biol", "Cell", "Biogerontology", "Am. J. Med. Sci", "Front. Med (Lausanne)", "Nat. Rev. Drug Discov", "Am. J. Respir. Cell Mol. Biol", "Am. J. Respir. Cell Mol. Biol", "Biogerontology", "Methods Mol. Biol", "Int. J. Biochem. ...
[ "\nFigure 3 .\n3Functional module network of the pulmonary fibrosis-related genes (PFRGs) in lung tissue. The network was built for the lung tissue, using HumanBase, with the human orthologs of PFRGs as input. The interaction network is built using the closest gene neighbors and then clustered based on enrichment i...
[ "Functional module network of the pulmonary fibrosis-related genes (PFRGs) in lung tissue. The network was built for the lung tissue, using HumanBase, with the human orthologs of PFRGs as input. The interaction network is built using the closest gene neighbors and then clustered based on enrichment in GO categories...
[ "Fig. 1", "Fig. 2", "Fig. 3a", "Figure 1", "(Fig. 3b)", "Figure 2", "(Fig. 4", "Fig. 4", "(Fig. 4", "Fig. 4", "(Fig. 3b", "(Fig. 4a, b)", "(Fig. 3c, MC1", "Fig. 4a)", "(Fig. 3", "Fig. 3", "Fig. 5a", "Fig. 5b", "Fig. 3", "(Fig. 2)", "(Fig. 3b)", "(Fig. 3c)", "(Fig. 4, pan...
[]
[ "www.nature.com/scientificreports/ two or more manipulations. As seen in Table 2, over 85% of the different types of manipulations, applied either in the same study or in independent studies, are fully consistent with one another with regard to their effects on bleomycin-induced lung fibrosis. The rest were either ...
[]
[ "Type of manipulation Number of studies", "MiR overexpression 1", "Additional models of lung fibrosis Number of studies", "Functional module analysis.", "Scientific", "Discussion", "Methods", "Protein-protein interaction network.", "Figure 3 .", "Figure 4 .", "Figure 5 .", "Table 2 .", "Tabl...
[ "Consistency between bleomycin model and IPF \nNumber of manipulations Percentage (%) \n\nFull \n93 \n79.5 \n\nPartial \n2 \n1.7 \n\nInconsistent \n10 \n8.5 \n\nNot clear \n12 \n10.3 \n\nConsistency between the effects of different manipulations \n\nFull \n54 \n85.7 \n\nPartial \n7 \n11.1 \n\nNot clear \n2 \n3.2 \n...
[ "Table 2", "(Table 3", "(Supplementary Table ST1", "(Supplementary Table ST1", "Table 1", "Supplementary Table ST1", "Table 3", "(Table 2", "(Table 4)", "Supplementary Table ST5", "Table 5", "Table ST6", "(Table 1", "Supplementary Table ST5", "Excel table in Supplementary Table ST1", ...
[ "Systems biology analysis of lung fibrosis-related genes in the bleomycin mouse model", "Systems biology analysis of lung fibrosis-related genes in the bleomycin mouse model" ]
[ "Scientific Reports |" ]
3,501,718
2022-08-05T22:03:00Z
CCBY
https://academic.oup.com/hmg/article-pdf/25/21/4804/10018079/ddw307.pdf
HYBRID
aeb03017edd17faff128c007ed3ed54e86ada8cc
null
null
null
null
10.1093/hmg/ddw307
2513896837
28175300
5418736
Systematic analysis of the gerontome reveals links between aging and age-related diseases Maria Fernandes Integrative Genomics of Ageing Group Institute of Ageing and Chronic Disease University of Liverpool LiverpoolUK Faculty of Sciences LaSIGE -Large-Scale Informatics Systems Laboratory University of Lisbon Port...
[ "In model organisms, over 2,000 genes have been shown to modulate aging, the collection of which we call the 'gerontome'. Although some individual aging-related genes have been the subject of intense scrutiny, their analysis as a whole has been limited. In particular, the genetic interaction of aging and age-relate...
[ "Maria Fernandes \nIntegrative Genomics of Ageing Group\nInstitute of Ageing and Chronic Disease\nUniversity of Liverpool\nLiverpoolUK\n\nFaculty of Sciences\nLaSIGE -Large-Scale Informatics Systems Laboratory\nUniversity of Lisbon\nPortugal\n", "Cen Wan \nSchool of Computing\nUniversity of Kent\nCanterburyUK\n\n...
[ "Integrative Genomics of Ageing Group\nInstitute of Ageing and Chronic Disease\nUniversity of Liverpool\nLiverpoolUK", "Faculty of Sciences\nLaSIGE -Large-Scale Informatics Systems Laboratory\nUniversity of Lisbon\nPortugal", "School of Computing\nUniversity of Kent\nCanterburyUK", "Department of Computer Sci...
[ "Maria", "Cen", "Robi", "Diogo", "Ashish", "Jingwei", "Harikrishnan", "Daniel", "Chenhao", "Alex", "JoΓ£o" ]
[ "Fernandes", "Wan", "Tacutu", "Barardo", "Rajput", "Wang", "Thoppil", "Thornton", "Yang", "Freitas", "Pedro De MagalhΓ£es" ]
[ "C Franceschi, ", "M Bonafe, ", "S Valensin, ", "F Olivieri, ", "M De Luca, ", "E Ottaviani, ", "G De Benedictis, ", "C Lopez-Otin, ", "M A Blasco, ", "L Partridge, ", "M Serrano, ", "G Kroemer, ", "J P De Magalhaes, ", "I Stuart-Hamilton, ", "J P De Magalhaes, ", "C J Kenyon, ", "R ...
[ "C", "M", "S", "F", "M", "E", "G", "C", "M", "A", "L", "M", "G", "J", "P", "I", "J", "P", "C", "J", "R", "T", "A", "D", "G", "D", "J", "V", "E", "J", "B", "H", "C", "A", "A", "J", "P", "J", "P", "O", "Q", "R", "J", "R", "W", "...
[ "Franceschi", "Bonafe", "Valensin", "Olivieri", "De Luca", "Ottaviani", "De Benedictis", "Lopez-Otin", "Blasco", "Partridge", "Serrano", "Kroemer", "De Magalhaes", "Stuart-Hamilton", "De Magalhaes", "Kenyon", "Tacutu", "Craig", "Budovsky", "Wuttke", "Lehmann", "Taranukha", ...
[ "Inflamm-aging -An evolutionary perspective on immunosenescence. C Franceschi, M Bonafe, S Valensin, F Olivieri, M De Luca, E Ottaviani, G De Benedictis, Mol. Cell. Gerontol. 908Franceschi, C., Bonafe, M., Valensin, S., Olivieri, F., De Luca, M., Ottaviani, E. and De Benedictis, G. (2000) Inflamm-aging - An evoluti...
[ "(2)", "(3)", "(4)", "(5)", "(7)", "(4)", "(5)", "(8)", "(9)", "(10)", "(11)", "(12)", "(13)", "(14)", "(15)", "(16)", "(17)", "(18)", "(19)", "(6)", "(6)", "(8)", "(9,", "10,", "14)", "(20)", "(20)", "(6)", "(21)", "(22)", "(17)", "(11)", "(23)", "(...
[ "Inflamm-aging -An evolutionary perspective on immunosenescence", "Open-minded scepticism: inferring the causal mechanisms of human ageing from genetic perturbations", "The genetics of ageing", "Human Ageing Genomic Resources: Integrated databases and tools for the biology and genetics of ageing", "Gerontom...
[ "Cambridge", "London, UK", "Mol. Cell. Gerontol", "The Hallmarks of Aging. Cell", "An Introduction to Gerontology", "Ageing Res. Rev", "Nature", "Nucleic Acids Res", "BMC Genomics", "IEEE-ACM Transact. Comput. Biol. Bioinform", "FEBS Lett", "Hum Mol Genet", "BMC Genomics", "Bioinformatics"...
[ "\nFigure 1 .\n1Protein-protein interactions between worm aging-related genes. Pro-longevity genes are depicted in red and anti-longevity genes in green. For each of the two gene sets, the smaller inside ellipse indicates genes that form a continuously connected network. Left right straight and curved arrows are us...
[ "Protein-protein interactions between worm aging-related genes. Pro-longevity genes are depicted in red and anti-longevity genes in green. For each of the two gene sets, the smaller inside ellipse indicates genes that form a continuously connected network. Left right straight and curved arrows are used to summarize...
[ "(Fig. 1", "Fig. S1", "Fig. 2A)", "Fig. 2A)", "(Fig. 3", "Fig. 2A)", "Fig. S2", "(Fig. 2B", "Figure 2A", "Fig. S3", "Fig. S3", "Fig. 2A)", "(Fig. 4A", "(Fig. 4B", "(Fig. 5)", "Figure 6A", "(Fig. 6A)", "(Fig. 6B)", "Figure 7A", "(Fig. 7B)", "Figure 5", "(Fig. 8)", "Fig. 2...
[]
[ "Aging is a major social and medical challenge of the 21 st century. The most accepted mechanisms of aging include inflammation (1), apoptosis, oxidative stress, accumulation of DNA damage, cell cycle deregulation and mitochondrial dysfunction (2)(3)(4). In addition, one of the major breakthroughs in the field of a...
[]
[ "Introduction", "Results", "Processes and pathways overrepresented in pro-and anti-longevity genes", "Pro-and anti-longevity networks are interwined", "Comparison with longevity-associated human genes", "Overlap between aging-related genes and age-related diseases", "Publication bias effects and correct...
[ "Dataset a \nNum. of \ngenes \n\nAverage \nnum. pubs. \n\nMedian \nnum. pubs. \n\nHuman genome (NCBI) \n20183 b \n8.7 \n6 \nHuman interactome (BioGRID) \n15000 c \n10.4 \n8 \nHuman aging-related genes \n298 \n30.3 \n23 \nAll aging-related orthologs \n894 \n14.5 \n10 \nanti-longevity \n448 \n13.2 \n9 \npro-longevity...
[ "Table 1)", "Table S6", "Table 1", "(Table 1)", "(Supplementary Materials, Tables S6, S7", "(Supplementary Materials, Tables S8, S9", "Table S1", "Table S1", "Table S2", "Table S2", "Table S2", "Table S3", "Table S4", "Table S4", "Table S18", "Table S19", "Table S5" ]
[ "Systematic analysis of the gerontome reveals links between aging and age-related diseases", "Systematic analysis of the gerontome reveals links between aging and age-related diseases" ]
[]
245,302,496
2023-04-05T05:20:17Z
CCBY
https://www.aging-us.com/article/203791/pdf
GOLD
827848750e52042b9707f71a789b39eb217c827c
null
null
null
null
10.18632/aging.203791
null
34919532
8751603
Small molecules for cell reprogramming: a systems biology analysis Published: December 17, 2021 Anna Knyazer The Shraga Segal Department of Microbiology, Immunology and Genetics Center for Multidisciplinary Research on Aging Ben-Gurion University of the Negev Beer-ShevaIsrael Gabriela Bunu Systems Biology of Aging...
[ "If somatic stem cells would be able to maintain their regenerative capacity over time, this might, to a great extent, resolve rejuvenation issues. Unfortunately, the pool of somatic stem cells is limited, and they undergo cell aging with a consequent loss of functionality. During the last decade, low molecular wei...
[ "Anna Knyazer \nThe Shraga Segal Department of Microbiology, Immunology and Genetics\nCenter for Multidisciplinary Research on Aging\nBen-Gurion University of the Negev\nBeer-ShevaIsrael\n", "Gabriela Bunu \nSystems Biology of Aging Group\nInstitute of Biochemistry of the Romanian Academy\nBucharestRomania\n", ...
[ "The Shraga Segal Department of Microbiology, Immunology and Genetics\nCenter for Multidisciplinary Research on Aging\nBen-Gurion University of the Negev\nBeer-ShevaIsrael", "Systems Biology of Aging Group\nInstitute of Biochemistry of the Romanian Academy\nBucharestRomania", "Systems Biology of Aging Group\nIn...
[ "Anna", "Gabriela", "Dmitri", "Teodora", "Yael", "Marina", "Khachik", "K", "Robi", "Vadim", "E", "Anna", "Gabriela", "Dmitri", "Teodora", "Yael", "Marina", "Khachik", "K", "Robi", "Vadim", "E" ]
[ "Knyazer", "Bunu", "Toren", "Bucaciuc Mracica", "Segev", "Wolfson", "Muradian", "Tacutu", "Fraifeld", "Knyazer", "Bunu", "Toren", "Bucaciuc Mracica", "Segev", "Wolfson", "Muradian", "Tacutu", "Fraifeld" ]
[ "A A Moskalev, ", "M V Shaposhnikov, ", "E N Plyusnina, ", "A Zhavoronkov, ", "A Budovsky, ", "H Yanai, ", "V E Fraifeld, ", "R A Avelar, ", "J G Ortega, ", "R Tacutu, ", "E J Tyler, ", "D Bennett, ", "P Binetti, ", "A Budovsky, ", "K Chatsirisupachai, ", "Johnson E Murray, ", "A Shi...
[ "A", "A", "M", "V", "E", "N", "A", "A", "H", "V", "E", "R", "A", "J", "G", "R", "E", "J", "D", "P", "A", "K", "Johnson", "E", "A", "S", "D", "D", "K", "K", "V", "E", "K", "S", "K", "K", "M", "M", "T", "K", "S", "Y", "S", "N", "H...
[ "Moskalev", "Shaposhnikov", "Plyusnina", "Zhavoronkov", "Budovsky", "Yanai", "Fraifeld", "Avelar", "Ortega", "Tacutu", "Tyler", "Bennett", "Binetti", "Budovsky", "Chatsirisupachai", "Murray", "Shields", "Tejada-Martinez", "Thornton", "Muradian", "Fraifeld", "Takahashi", "...
[ "The role of DNA damage and repair in aging through the prism of Koch-like criteria. A A Moskalev, M V Shaposhnikov, E N Plyusnina, A Zhavoronkov, A Budovsky, H Yanai, V E Fraifeld, 10.1016/j.arr.2012.02.00122353384Ageing Res Rev. 12Moskalev AA, Shaposhnikov MV, Plyusnina EN, Zhavoronkov A, Budovsky A, Yanai H, Fra...
[ "[1]", "[2]", "[3]", "Takahashi and Yamanaka in 2006", "[4]", "[5]", "[6]", "[7]", "[8]", "[3]", "[9]", "[10]", "[11]", "[12]", "[13,", "14]", "[9]", "[15,", "16]", "[17]", "[10]", "[18]", "[19]", "[10,", "19]", "[20]", "[9,", "21]", "[22]", "[23]", "16", ...
[ "The role of DNA damage and repair in aging through the prism of Koch-like criteria", "A multidimensional systems biology analysis of cellular senescence in aging and disease", "Induction of pluripotent stem cells from mouse embryonic and adult fibroblast cultures by defined factors", "Induction of pluripoten...
[ "Ageing Res Rev", "Genome Biol", "iPSCs-Induced Cellular Reprogramming. Encyclopedia of Biomedical Gerontology", "Cell", "Cell", "Cell Stem Cell", "Science", "Cell Res", "Science", "Cell Res", "Cell Res", "Expert Opin Ther Pat", "Curr Opin Genet Dev", "Cell Res", "Bosn J Basic Med Sci", ...
[ "\nFigure 1 .\n1Distribution of SMs by functional categories. The basic biological activities of all SMs that induce or enhance pluripotency (n = 92) were extracted from the STITCH online tool, PubChem database and scientific literature. Functional categories of SMs were based on Gene Ontology Resource.", "\nFigu...
[ "Distribution of SMs by functional categories. The basic biological activities of all SMs that induce or enhance pluripotency (n = 92) were extracted from the STITCH online tool, PubChem database and scientific literature. Functional categories of SMs were based on Gene Ontology Resource.", "Top enriched KEGG pat...
[ "Figure 1", "Figure 2", "Figure 3A", "Figure 3B", "Figure 3C", "Figure 4", "Supplementary Figures 1-9", "Figure 3B", "Figure 5A", "Figure 5A", "Figure 5B", "Figure 1", "Figure 2", "Figure 3A", "Figure 3B", "Figure 3C", "Figure 4", "Supplementary Figures 1-9", "Figure 3B", "Fi...
[]
[ "The pool of adult stem cells is limited, and they undergo cell aging with a consequent loss of functionality [1][2][3]. This limits the application of adult stem cells for cell replacement therapy. Induced pluripotency (iP), a state where somatic differentiated cells become functionally similar to embryonic stem c...
[]
[ "INTRODUCTION", "RESULTS", "General characterization of SMs and SM cocktails for cell reprogramming", "KEGG pathways enrichment analysis of SM targets", "Network analysis of SM targets", "Comparison of targets and pathways of SM cocktails with Yamanaka's factors", "SMs as human metabolites", "AGING", ...
[ "SM \nMain bioactivity \n\nCocktail \n\n1 \n2 \n3 \n4 \n5 \n6 \n7 \n8 \n9 \n10 \n\nCHIR99021 \nGSK3 inhibitor \n\nRepSox \nTGFΞ² inhibitor \n[can replace Sox2] \n\nVPA \nHDAC inhibitor \n\nForskolin \ncAMP activator \n[can replace Oct4] \n\nParnate \nInhibitor of LSD1 acting on histone H3 \n\nDZNep \nInhibitor of HM...
[ "Table 1", "Table 4", "Table 5)", "Supplementary Table 6", "Table 1", "Supplementary Table 1", "Table 1", "Table 1", "Table 7", "Supplementary Table 6", "Table 2", "Table 3", "Table 10", "Table 10", "Supplementary Table 1", "Table 3 and Supplementary Tables 1, 5", "Table 3", "Tab...
[ "Small molecules for cell reprogramming: a systems biology analysis", "Small molecules for cell reprogramming: a systems biology analysis", "Small molecules for cell reprogramming: a systems biology analysis", "Small molecules for cell reprogramming: a systems biology analysis" ]
[]
16,831,288
2022-03-16T09:34:26Z
CCBY
http://www.oncotarget.com/index.php?journal=oncotarget&op=download&page=article&path[]=25257&path[]=8501
GOLD
0710ad8191756ad4bab52d214e8ce8e72fb563fa
null
null
null
null
10.18632/oncotarget.8501
2334927608
27049721
5008274
Tissue repair genes: the TiRe database and its implication for skin wound healing Hagai Yanai The Shraga Segal Department of Microbiology, Immunology and Genetics, Center for Multidisciplinary Research on Aging, Ben-Gurion University of the Negev Beer ShevaIsrael Arie Budovsky The Shraga Segal Department of Micro...
[ "Wound healing is an inherent feature of any multicellular organism and recent years have brought about a huge amount of data regarding regular and abnormal tissue repair. Despite the accumulated knowledge, modulation of wound healing is still a major biomedical challenge, especially in advanced ages. In order to c...
[ "Hagai Yanai \nThe Shraga Segal Department of Microbiology, Immunology and Genetics, Center for Multidisciplinary Research on Aging, Ben-Gurion University of the Negev\nBeer ShevaIsrael\n", "Arie Budovsky \nThe Shraga Segal Department of Microbiology, Immunology and Genetics, Center for Multidisciplinary Research...
[ "The Shraga Segal Department of Microbiology, Immunology and Genetics, Center for Multidisciplinary Research on Aging, Ben-Gurion University of the Negev\nBeer ShevaIsrael", "The Shraga Segal Department of Microbiology, Immunology and Genetics, Center for Multidisciplinary Research on Aging, Ben-Gurion University...
[ "Hagai", "Arie", "Robi", "Thomer", "Amir", "Rolf", "Vadim", "E" ]
[ "Yanai", "Budovsky", "Tacutu", "Barzilay", "Abramovich", "Ziesche", "Fraifeld" ]
[ "D M Gardiner, ", "M W Ferguson, ", "S O&apos;kane, ", "I A Demyanenko, ", "E N Popova, ", "V V Zakharova, ", "O P Ilyinskaya, ", "T V Vasilieva, ", "V P Romashchenko, ", "A V Fedorov, ", "V N Manskikh, ", "M V Skulachev, ", "R A Zinovkin, ", "O Y Pletjushkina, ", "V P Skulachev, ", "B...
[ "D", "M", "M", "W", "S", "I", "A", "E", "N", "V", "V", "O", "P", "T", "V", "V", "P", "A", "V", "V", "N", "M", "V", "R", "A", "O", "Y", "V", "P", "B", "V", "R", "S", "D", "C", "P", "D", "J", "A", "P", "R", "A", "J", "R", "A", "...
[ "Gardiner", "Ferguson", "O&apos;kane", "Demyanenko", "Popova", "Zakharova", "Ilyinskaya", "Vasilieva", "Romashchenko", "Fedorov", "Manskikh", "Skulachev", "Zinovkin", "Pletjushkina", "Skulachev", "Chernyak", "Grose", "Werner", "Rockey", "Bell", "Hill", "Martin", "Nunan", ...
[ "Ontogenetic decline of regenerative ability and the stimulation of human regeneration. D M Gardiner, Rejuvenation Res. 8Gardiner DM. Ontogenetic decline of regenerative ability and the stimulation of human regeneration. Rejuvenation Res. 2005; 8:141-153.", "Scar-free healing: From embryonic mechanisms to adult t...
[ "[WH]", "[1]", "[2]", "[2,", "3]", "[2]", "[4,", "5]", "[6]", "[4]", "[7,", "8]", "[9]", "[11,", "12]", "[11]", "[13]", "[14]", "[15,", "16]", "[17]", "[33]", "16.4", "[18]", "[19]", "[20]", "[21]", "[22]", "[23]", "[10]", "[24]", "[25]", "[26]", "[1...
[ "Ontogenetic decline of regenerative ability and the stimulation of human regeneration", "Scar-free healing: From embryonic mechanisms to adult therapeutic intervention", "Mitochondria-targeted antioxidant SkQ1 improves impaired dermal wound healing in old mice", "Wound healing studies in transgenic and knock...
[ "Rejuvenation Res", "Philos Trans R Soc Lond B Biol Sci", "Aging (Albany NY)", "Methods Mol Med", "N Engl J Med", "Br J Dermatol", "N Engl J Med", "Science", "Nature", "Biogerontology", "J Am Coll Surg", "J Cell Sci", "Nucleic Acids Res", "Cell Physiol Biochem", "Curr Biol", "Immunity"...
[ "\nFigure 1 :\n1Evolutionary conservation of skin wound healing-associated genes. Each dot represents the percentage of orthologs between humans and a given species (in descending order by % of orthology). A total of 205 species from all kingdoms of life are presented (for a full list of species and conservation da...
[ "Evolutionary conservation of skin wound healing-associated genes. Each dot represents the percentage of orthologs between humans and a given species (in descending order by % of orthology). A total of 205 species from all kingdoms of life are presented (for a full list of species and conservation data see Suppl.",...
[ "Figure 1", "Figure 2A", "Figure 2B", "Figure 2C", "Figure 3", "Figure 2B", "(Figure 3" ]
[]
[ "Tissue repair (often referred to as wound healing [WH]) is an inherent feature of any multicellular organism. Its major goal is to restore the integrity (and ideally function) of a damaged tissue. Some species from diverse taxa (such as salamander, axolotle, hydra, and several others [1]) and early mammalian embry...
[]
[ "INTRODUCTION", "RESULTS AND DISCUSSION", "Overview of experimental models used to establish wound healing-associated genes (WHAGs)", "Characterization of WHAGs", "WHAGs are differentially conserved across vertebrates and invertebrates", "WHAGs are enriched in extracellular and immuno-inflammatory pathway...
[ "Intervention \nNumber of entries per species \n\nMus musculus Rattus norvegicus \nSus domesticus \nHomo sapiens Total \n\nKnockout \n260 \n0 \n0 \n0 \n260 \n\nOverexpression \n47 \n8 \n3 \n1 \n59 \n\nMutation \n13 \n0 \n0 \n0 \n13 \n\nsiRNA \n5 \n0 \n0 \n0 \n5 \n\nProtein administration \n15 \n27 \n8 \n12 \n62 \n\...
[ "(Table 1", "Table 2", "(Table 3)", "Table 1", "Table 1", "Table 1", "Table 1", "Table 3", "(Table 4", "Table 4", "Table 2", "Table 5", "Table 5", "(Table 1)", "Table 1" ]
[ "Tissue repair genes: the TiRe database and its implication for skin wound healing", "Tissue repair genes: the TiRe database and its implication for skin wound healing" ]
[]
12,898,316
2022-03-04T08:54:38Z
CCBYNC
https://academic.oup.com/nar/article-pdf/41/D1/D1027/3653409/gks1155.pdf
GOLD
e0a0b2806d53b071c546a01709b5531be8c11f13
null
null
null
journals/nar/TacutuCBWLTCFM13
10.1093/nar/gks1155
2123703699
23193293
3531213
Human Ageing Genomic Resources: Integrated databases and tools for the biology and genetics of ageing Robi Tacutu Integrative Genomics of Ageing Group Institute of Integrative Biology University of Liverpool L69 7ZBLiverpoolUK Thomas Craig Integrative Genomics of Ageing Group Institute of Integrative Biology Univ...
[ "The Human Ageing Genomic Resources (HAGR, http://genomics.senescence.info) is a freely available online collection of research databases and tools for the biology and genetics of ageing. HAGR features now several databases with high-quality manually curated data: (i) GenAge, a database of genes associated with age...
[ "Robi Tacutu \nIntegrative Genomics of Ageing Group\nInstitute of Integrative Biology\nUniversity of Liverpool\nL69 7ZBLiverpoolUK\n", "Thomas Craig \nIntegrative Genomics of Ageing Group\nInstitute of Integrative Biology\nUniversity of Liverpool\nL69 7ZBLiverpoolUK\n", "Arie Budovsky \nThe Shraga Segal Departm...
[ "Integrative Genomics of Ageing Group\nInstitute of Integrative Biology\nUniversity of Liverpool\nL69 7ZBLiverpoolUK", "Integrative Genomics of Ageing Group\nInstitute of Integrative Biology\nUniversity of Liverpool\nL69 7ZBLiverpoolUK", "The Shraga Segal Department of Microbiology, Immunology and Genetics\nCen...
[ "Robi", "Thomas", "Arie", "Daniel", "Gilad", "Dmitri", "Joana", "Vadim", "E", "JoΓ£", "Pedro" ]
[ "Tacutu", "Craig", "Budovsky", "Wuttke", "Lehmann", "Taranukha", "Costa", "Fraifeld", "De MagalhΓ£ Es" ]
[ "Wellcome Trust, ", "J P References 1. De Magalha˜es, ", "J Costa, ", "O Toussaint, ", "J P De Magalha˜es, ", "A Budovsky, ", "G Lehmann, ", "J Costa, ", "Y Li, ", "V Fraifeld, ", "G M Church, ", "A Budovsky, ", "R Tacutu, ", "H Yanai, ", "A Abramovich, ", "M Wolfson, ", "V Fraifeld,...
[ "Wellcome", "J", "P", "J", "O", "J", "P", "A", "G", "J", "Y", "V", "G", "M", "A", "R", "H", "A", "M", "V", "M", "A", "R", "V", "S", "G", "J", "R", "T", "M", "D", "L", "A", "M", "B", "K", "M", "E", "D", "M", "L", "A", "N", "D", "...
[ "Trust", "References 1. De Magalha˜es", "Costa", "Toussaint", "De Magalha˜es", "Budovsky", "Lehmann", "Costa", "Li", "Fraifeld", "Church", "Budovsky", "Tacutu", "Yanai", "Abramovich", "Wolfson", "Fraifeld", "Wolfson", "Budovsky", "Tacutu", "Fraifeld", "Curran", "Ruvkun", ...
[ ". Wellcome Trust, ME050495MES to J.P.M.Wellcome Trust [ME050495MES to J.P.M.];", ". Ellison Medical Foundation (to J.P.M. Ellison Medical Foundation (to J.P.M.);", "European Commission FP7 Health Research. HEALTH-F4-2008-202047 to V.E.F., in part. Funding for open access charge: Wellcome Trust [ME050495MESEuro...
[ "(3,", "4)", "(5)", "(6)", "(7)", "(8)", "(9)", "(10)", "(11)", "(12)", "(2)", "(3)", "(12,", "14)", "(15)", "(16)", "(15)", "(17)", "(12)", "(18)", "(18)", "(19)", "(20)", "(21)", "(22)", "(23)", "(24)", "(25)", "(18)", "(26,", "27)", "(29)", "(32)", ...
[ "HAGR: the Human Ageing Genomic Resources", "The Human Ageing Genomic Resources: online databases and tools for biogerontologists", "Common gene signature of cancer and longevity", "The signaling hubs at the crossroad of longevity and age-related disease networks", "Lifespan regulation by evolutionarily con...
[ "Ellison Medical Foundation (to J.P.M", "European Commission FP7 Health Research", "Nucleic Acids Res", "Aging Cell", "Mech. Ageing Dev", "Int. J. Biochem. Cell Biol", "PLoS Genet", "PLoS One", "Genome Res", "PLoS Genet", "PLoS Genet", "Aging Cell", "An Introduction to Gerontology", "Pharm...
[ "\n(\nhttp://biologyofaging.org) portal, the Animal Diversity Web (http://animaldiversity.ummz.umich.edu) and the Comparative Cellular and Molecular Biology of Longevity Database [(33); http://genomics.brocku.ca/ ccmbl/].", "\nTable 1 .\n1Gene data sets in GenAgeGene set \nDescription \n\nHuman \nA comprehensive ...
[ "http://biologyofaging.org) portal, the Animal Diversity Web (http://animaldiversity.ummz.umich.edu) and the Comparative Cellular and Molecular Biology of Longevity Database [(33); http://genomics.brocku.ca/ ccmbl/].", "Gene data sets in GenAge", "Summary of the genes and longevity observations for model organi...
[ "Figure 1" ]
[]
[ "The Human Ageing Genomic Resources (HAGR, http:// genomics.senescence.info) is a web portal encompassing several online databases and tools, aiming to organize the increasing amount of data and information relevant to the biology of ageing, and make them accessible to the research community. Since its first public...
[]
[ "INTRODUCTION", "DATABASE CONTENT", "New content and features in GenAge", "GenDR-genomics of DR", "Other informational resources", "NEW AND IMPROVED INTERFACE", "AVAILABILITY", "CONCLUDING REMARKS", "(", "Table 1 .", "Table 2 .", "Table 3 ." ]
[ "Gene set \nDescription \n\nHuman \nA comprehensive set of genes potentially associated \nwith human ageing. The list contains genes that \nhave been directly linked to ageing in humans, \nas well as the best candidate genes, supported by \ndifferent types of evidence in model organisms, \ncells and/or functional a...
[ "(Table 1", "(Table 2)", "Table 2)", "(Table 3", "Table 3", "(Table 4" ]
[ "Human Ageing Genomic Resources: Integrated databases and tools for the biology and genetics of ageing", "Human Ageing Genomic Resources: Integrated databases and tools for the biology and genetics of ageing" ]
[]
214,809,988
2022-01-27T06:41:21Z
CCBY
https://genomebiology.biomedcentral.com/track/pdf/10.1186/s13059-020-01990-9
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[ "https://genomebiology.biomedcentral.com/track/pdf/10.1186/s13059-020-01990-9" ]
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null
null
10.1186/s13059-020-01990-9
3014402470
32264951
7333371
A multidimensional systems biology analysis of cellular senescence in aging and disease Roberto A Avelar † Javier GΓ³mez Ortega Robi Tacutu Eleanor J Tyler Dominic Bennett Paolo Binetti Arie Budovsky Kasit Chatsirisupachai Emily Johnson Alex Murray Samuel Shields Daniela Tejada-Martinez Daniel Thornton ...
[ "Background: Cellular senescence, a permanent state of replicative arrest in otherwise proliferating cells, is a hallmark of aging and has been linked to aging-related diseases. Many genes play a role in cellular senescence, yet a comprehensive understanding of its pathways is still lacking.Results: We develop Cell...
[ "Roberto A Avelar ", "† ", "Javier GΓ³mez Ortega ", "Robi Tacutu ", "Eleanor J Tyler ", "Dominic Bennett ", "Paolo Binetti ", "Arie Budovsky ", "Kasit Chatsirisupachai ", "Emily Johnson ", "Alex Murray ", "Samuel Shields ", "Daniela Tejada-Martinez ", "Daniel Thornton ", "Vadim E Fraifeld...
[]
[ "Roberto", "A", "†", "Javier", "GΓ³mez", "Robi", "Eleanor", "J", "Dominic", "Paolo", "Arie", "Kasit", "Emily", "Alex", "Samuel", "Daniela", "Daniel", "Vadim", "E", "Cleo", "L", "JoΓ£o" ]
[ "Avelar", "Ortega", "Tacutu", "Tyler", "Bennett", "Binetti", "Budovsky", "Chatsirisupachai", "Johnson", "Murray", "Shields", "Tejada-Martinez", "Thornton", "Fraifeld", "Bishop", "Pedro De MagalhΓ£es" ]
[ "L Hayflick, ", "P S Moorhead, ", "T Kuilman, ", "C Michaloglou, ", "W J Mooi, ", "D S Peeper, ", "U Herbig, ", "W A Jobling, ", "B P Chen, ", "D J Chen, ", "J M Sedivy, ", "F Di Fagagna, ", "P M Reaper, ", "L Clay-Farrace, ", "H Fiegler, ", "P Carr, ", "Von Zglinicki, ", "T , ", ...
[ "L", "P", "S", "T", "C", "W", "J", "D", "S", "U", "W", "A", "B", "P", "D", "J", "J", "M", "F", "P", "M", "L", "H", "P", "Von", "T", "J", "P", "J", "F", "M", "A", "A", "M", "M", "C", "Di", "V", "D", "M", "A", "G", "J", "S", "M", ...
[ "Hayflick", "Moorhead", "Kuilman", "Michaloglou", "Mooi", "Peeper", "Herbig", "Jobling", "Chen", "Chen", "Sedivy", "Di Fagagna", "Reaper", "Clay-Farrace", "Fiegler", "Carr", "Zglinicki", "De Magalhaes", "Passos", "Storer", "Mas", "Robert-Moreno", "Pecoraro", "Ortells", ...
[ "The serial cultivation of human diploid cell strains. L Hayflick, P S Moorhead, Exp Cell Res. 25Hayflick L, Moorhead PS. The serial cultivation of human diploid cell strains. Exp Cell Res. 1961;25:585-621.", "The essence of senescence. T Kuilman, C Michaloglou, W J Mooi, D S Peeper, Genes Dev. 2422Kuilman T, Mic...
[ "[1]", "[2]", "[3,", "4]", "[5]", "[6,", "7]", "[8]", "[9,", "10]", "[11]", "[12,", "13]", "[14]", "[15]", "[16]", "[17]", "[18]", "[19,", "20]", "[21]", "[22]", "[23]", "[24]", "[25]", "[26]", "[3,", "27]", "[28]", "[29]", "[30]", "[31]", "[32]", "[...
[ "The serial cultivation of human diploid cell strains", "The essence of senescence", "Telomere shortening triggers senescence of human cells through a pathway involving ATM, p53, and p21(CIP1), but not p16(INK4a)", "A DNA damage checkpoint response in telomere-initiated senescence", "Stress, cell senescence...
[ "Exp Cell Res", "Genes Dev", "Mol Cell", "Nature", "Mech Ageing Dev", "Cell", "Cell", "Dev Cell", "Nature", "Ageing Res Rev", "Annu Rev Physiol", "Nature", "Nat Cell Biol", "Nature", "Nature", "Nat Commun", "Cell", "Curr Biol", "Curr Biol", "BMC Genomics", "Curr Opin Cell Bio...
[ "\nFig. 2\n2Differential expression of a CellAge inducers and inhibitors of CS and b differentially expressed signatures of CS in human tissues with age.", "\nFig. 3 a\n3Overlap between CellAge inducers and inhibitors, and oncogenes and tumor-suppressing genes. b Adjusted p value and odds ratio of the overlap ana...
[ "Differential expression of a CellAge inducers and inhibitors of CS and b differentially expressed signatures of CS in human tissues with age.", "Overlap between CellAge inducers and inhibitors, and oncogenes and tumor-suppressing genes. b Adjusted p value and odds ratio of the overlap analysis. The number of ove...
[ "Figure 1a", "(Fig. 1b)", "Fig. 1", "Fig. 1c", "Fig. S1A)", "Fig. S1B)", "Fig. S1C", "Fig. S1D", "Fig. S2", "Fig. S3A", "Fig. S3B", "Fig. S4A", "Fig. S4B", "(Fig. 2a)", "Fig. 2b)", "Fig. S5A", "Fig. 2c", "Fig. S5A", "(Fig. 2)", "Fig. S5C", "Fig. 2d", "Fig. S5C", "Fig. S...
[ "[ORGN]) NOT Review [PTYP]" ]
[ "In the 1960s, Leonard Hayflick and Paul Moorhead demonstrated that human fibroblasts reached a stable proliferative growth arrest between their fortieth and sixtieth divisions [1]. Such cells would enter an altered state of \"replicative senescence,\" subsisting in a nonproliferating, metabolically active phase wi...
[]
[ "Background", "Results", "The CellAge database", "CellAge gene functions", "Evolutionary conservation of CellAge genes in model organisms", "CellAge vs human orthologues of longevity-associated model organism genes", "CellAge genes differentially expressed with age", "Network analyses", "The protein...
[]
[ "Table S3", "Table S1", "Table S3", "Table S4", "Table S5", "Table S6", "Table S7", "Table S8", "Table S9", "Table S10", "Table S11", "Table S12", "Table S13", "Table S14", "Table S16", "Table S17", "Table S12", "Table S16", "Table S18", "Table S19", "Table S20", "Table S2...
[ "A multidimensional systems biology analysis of cellular senescence in aging and disease", "A multidimensional systems biology analysis of cellular senescence in aging and disease" ]
[]
18,149,145
2022-03-15T13:18:35Z
CCBY
https://doi.org/10.18632/aging.100413
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10.18632/aging.100413
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The complex nature of aging and aging-associated phenomena including CS requires a holistic view with a Molecular links between cellular senescence, longevity and age- related diseases -a systems biology perspective December 2011 Robi Tacutu The Shraga Segal Department of Microbiology and Immunology Center for Multi...
[ "The role of cellular senescence (CS) in age-related diseases (ARDs) is a quickly emerging topic in aging research.Our comprehensive data mining revealed over 250 genes tightly associated with CS. Using systems biology tools, we found that CS is closely interconnected with aging, longevity and ARDs, either by shari...
[ "Robi Tacutu \nThe Shraga Segal Department of Microbiology and Immunology\nCenter for Multidisciplinary Research on Aging\nBen-Gurion University of the Negev\nBeer ShevaIsrael\n", "Arie Budovsky \nThe Shraga Segal Department of Microbiology and Immunology\nCenter for Multidisciplinary Research on Aging\nBen-Gurio...
[ "The Shraga Segal Department of Microbiology and Immunology\nCenter for Multidisciplinary Research on Aging\nBen-Gurion University of the Negev\nBeer ShevaIsrael", "The Shraga Segal Department of Microbiology and Immunology\nCenter for Multidisciplinary Research on Aging\nBen-Gurion University of the Negev\nBeer ...
[ "Robi", "Arie", "Hagai", "Vadim", "E" ]
[ "Tacutu", "Budovsky", "Yanai", "Fraifeld" ]
[ "L Hayflick, ", "P S Moorhead, ", "H Gershon, ", "Gershon D , ", "J C Jeyapalan, ", "J M Sedivy, ", "H Rubin, ", "S M Phipps, ", "J B Berletch, ", "L G Andrews, ", "T O Tollefsbol, ", "J Campisi, ", "J Campisi, ", "M V Blagosklonny, ", "F Rodier, ", "J P CoppΓ©, ", "C K Patil, ", "W...
[ "L", "P", "S", "H", "Gershon", "D", "J", "C", "J", "M", "H", "S", "M", "J", "B", "L", "G", "T", "O", "J", "J", "M", "V", "F", "J", "P", "C", "K", "W", "A", "D", "P", "S", "R", "A", "E", "A", "R", "J", "D", "J", "T", "T", "N", "K...
[ "Hayflick", "Moorhead", "Gershon", "Jeyapalan", "Sedivy", "Rubin", "Phipps", "Berletch", "Andrews", "Tollefsbol", "Campisi", "Campisi", "Blagosklonny", "Rodier", "CoppΓ©", "Patil", "Hoeijmakers", "MuΓ±oz", "Raza", "Freund", "Campeau", "Davalos", "Campisi", "Baker", "Wij...
[ "The serial cultivation of human diploid cell strains. L Hayflick, P S Moorhead, Exp Cell Res. 25Hayflick L, Moorhead PS. The serial cultivation of human diploid cell strains. Exp Cell Res. 1961; 25: 585-621.", "Paradigms in aging research: a critical review and assessment. H Gershon, Gershon D , Mech Ageing Dev....
[ "[1]", "[2]", "[3]", "[4]", "[5]", "[3,", "[6]", "[7]", "[8]", "[9]", "[10]", "[11]", "[12,", "13]", "[7,", "8,", "11]", "[3,", "11,", "14,", "15]", "[16]", "[17]", "[18]", "[19]", "[11,", "12,", "20,", "21]", "[22]", "[23]", "[24]", "[25,", "26]", ...
[ "The serial cultivation of human diploid cell strains", "Paradigms in aging research: a critical review and assessment", "Cellular senescence and organismal aging", "Cell aging in vivo and in vitro", "Aging cell culture: methods and observations", "Senescent cells, tumor suppression, and organismal aging:...
[ "Exp Cell Res", "Mech Ageing Dev", "Mech Ageing Dev", "Mech. Ageing Dev", "Methods Mol Biol", "Cell", "Curr Opin Genet Dev", "Cell Cycle", "Nat Cell Biol", "Nature", "Ageing Res Rev", "Aging (Albany NY)", "Aging (Albany NY)", "Antioxid Redox Signal", "Aging (Albany NY)", "How and Why W...
[ "\nFigure 1 .\n1Fraction of CS, longevity and ARD proteins forming a continuous PPI network. Values obtained from", "\nFigure 2 .\n2MicroRNA-regulated cellular senescence PPI network. Genes are depicted as red circles and miRNAs as green squares.", "\nFigure 3 .\n3Fraction of genes which are essential to growth...
[ "Fraction of CS, longevity and ARD proteins forming a continuous PPI network. Values obtained from", "MicroRNA-regulated cellular senescence PPI network. Genes are depicted as red circles and miRNAs as green squares.", "Fraction of genes which are essential to growth and development in each of the gene sets und...
[ "Fig. 1 (insert)", "(Fig. 1", "(Fig. 2)", "(Fig. 2)", "(Fig. 3)", "(Fig. 3", "(Fig. 3)", "Fig. 4", "Fig. 1B", "Fig. 5", "(Fig. 6)", "(Fig. 6" ]
[]
[ "Since Hayflick's discovery of the phenomenon of cellular (replicative) senescence [1], the contribution or even relevance of this phenomenon to organismal aging has been a subject for continuous debates [2][3][4][5]. Although the question still remains open, an increasing amount of evidence, especially from recent...
[]
[ "INTRODUCTION", "RESULTS AND DISCUSSION", "CS genes share common features with LAGs and ARD genes", "Connectivity and interconnectivity: miRNAregulated PPI networks", "Essentiality", "Evolutionary conservation", "Molecular links between CS genes, LAGs and ARD genes", "Common genes", "Protein-protein...
[]
[ "Table 1", "Table 2)", "Table 2", "Table 1", "(Table 1", "(Table 1)", "(Table 2)", "Table 2", "Table 1)", "(Table 3", ". Table 3)", "Table 3.", "Table 3", "Table 3" ]
[ "The complex nature of aging and aging-associated phenomena including CS requires a holistic view with a Molecular links between cellular senescence, longevity and age- related diseases -a systems biology perspective", "The complex nature of aging and aging-associated phenomena including CS requires a holistic vi...
[ "www.impactaging.com AGING" ]
4,246,892
2022-03-25T21:31:33Z
CCBY
https://www.frontiersin.org/articles/10.3389/fnagi.2018.00055/pdf
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10.3389/fnagi.2018.00055
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Altered Brain Functional Hubs and Connectivity in Type 2 Diabetes Mellitus Patients: A Resting-State fMRI Study March 2018 Nicola Canessa Robi Tacutu Jiuquan Zhang Jian Wang wangjian_811@yahoo.com Liu D Duan S Zhou C Wei P Chen L Yin X Zhang J Wang J Daihong Liu † Shanshan Duan † Chaoyang Zhou Depart...
[ "Type 2 diabetes mellitus (T2DM) affects a vast population and is closely associated with cognitive impairment. However, the mechanisms of cognitive impairment in T2DM patients have not been unraveled. Research on the basic units (nodes or hubs and edges) of the brain functional network on the basis of neuroimaging...
[ "Nicola Canessa ", "Robi Tacutu ", "Jiuquan Zhang ", "Jian Wang wangjian_811@yahoo.com ", "Liu D ", "Duan S ", "Zhou C ", "Wei P ", "Chen L ", "Yin X ", "Zhang J ", "Wang J ", "Daihong Liu ", "† ", "Shanshan Duan ", "† ", "Chaoyang Zhou \nDepartment of Radiology, Southwest Hospital\n...
[ "Department of Radiology, Southwest Hospital\nThird Military Medical University (Army Medical University)\nChongqingChina", "Department of Radiology, Southwest Hospital\nThird Military Medical University (Army Medical University)\nChongqingChina", "Department of Radiology, Southwest Hospital\nThird Military Med...
[ "Nicola", "Robi", "Jiuquan", "Jian", "Liu", "D", "Duan", "S", "Zhou", "C", "Wei", "P", "Chen", "L", "Yin", "X", "Zhang", "J", "Wang", "J", "Daihong", "†", "Shanshan", "†", "Chaoyang", "Ping", "Lihua", "Xuntao", "Jiuquan", "Jian" ]
[ "Canessa", "Tacutu", "Zhang", "Wang", "Liu", "Duan", "Zhou", "Wei", "Chen", "Yin", "Zhang", "Wang" ]
[ "K G Alberti, ", "P Z Zimmet, ", "A L Barabasi, ", "N Gulbahce, ", "J Loscalzo, ", "A L Barabasi, ", "Z N Oltvai, ", "P Bentley, ", "M Husain, ", "R J Dolan, ", "J C Beucke, ", "J Sepulcre, ", "T Talukdar, ", "C Linnman, ", "K Zschenderlein, ", "T Endrass, ", "B Biswal, ", "F Z Yet...
[ "K", "G", "P", "Z", "A", "L", "N", "J", "A", "L", "Z", "N", "P", "M", "R", "J", "J", "C", "J", "T", "C", "K", "T", "B", "F", "Z", "V", "M", "J", "S", "C", "R", "P", "D", "R", "L", "J", "T", "F", "M", "H", "T", "A", "A", "R", "...
[ "Alberti", "Zimmet", "Barabasi", "Gulbahce", "Loscalzo", "Barabasi", "Oltvai", "Bentley", "Husain", "Dolan", "Beucke", "Sepulcre", "Talukdar", "Linnman", "Zschenderlein", "Endrass", "Biswal", "Yetkin", "Haughton", "Hyde", "Bowie", "Harvey", "Buckner", "Sepulcre", "Tal...
[ "Definition, diagnosis and classification of diabetes mellitus and its complications. Part 1: diagnosis and classification of diabetes mellitus provisional report of a WHO consultation. K G Alberti, P Z Zimmet, 10.1002/(SICI)1096-9136(199807)15:7<539::AID-DIA668>3.0.CO;2-SDiabet. Med. 15Alberti, K. G., and Zimmet, ...
[ "(Palta et al., 2014)", "(Xia et al., 2013;", "Chen et al., 2014;", "Cui et al., 2014", "Cui et al., , 2015", "Moheet et al., 2015)", "(Barabasi and Oltvai, 2004;", "Petersen and Sporns, 2015)", "(Wolfson et al., 2009;", "Tacutu et al., 2011)", "(Sandor et al., 2017)", "(de Haan et al., 2017)"...
[ "Definition, diagnosis and classification of diabetes mellitus and its complications. Part 1: diagnosis and classification of diabetes mellitus provisional report of a WHO consultation", "Network medicine: a network-based approach to human disease", "Network biology: understanding the cell's functional organiza...
[ "Diabet. Med", "Nat. Rev. Genet", "Nat. Rev. Genet", "Neuron", "JAMA Psychiatry", "Magn. Reson. Med", "Nat. Protoc", "J. Neurosci", "Mech. Ageing Dev", "Diabetes Care", "Thalamic resting-state functional connectivity: disruption in patients with type 2 diabetes. Metab. Brain Dis", "Eur. J. Rad...
[ "\nFIGURE 1 |\n1DC value distribution of intra-group and inter-group comparisons. (A,B) The spatial distribution of the DC value in the HC group and T2DM group. (C) The significantly altered DC map in the T2DM group. (D) Comparison of DC value between the two groups. AlphaSim corrected (p < 0.001, cluster size > 20...
[ "DC value distribution of intra-group and inter-group comparisons. (A,B) The spatial distribution of the DC value in the HC group and T2DM group. (C) The significantly altered DC map in the T2DM group. (D) Comparison of DC value between the two groups. AlphaSim corrected (p < 0.001, cluster size > 20 voxels). The c...
[ "[", "(Figures 1A,B)", "Figures 1C,D)", "Figures 2A,B)", "(Figures 2C,D)", "(Figures 3A,C)", "(Figures 3B,C)", "Figure 3C)", "Figure 4A", "Figure 4B" ]
[]
[ "Abbreviations: ACG, anterior cingulate gyrus; AVLT, Auditory Verbal Learning Test; BMI, body mass index; DC, degree centrality; DST, Digit Span Test; EPI, echo planar imaging; FC, functional connectivity; FLAIR, fluid-attenuated inversion recovery; fMRI, functional magnetic resonance imaging; FT3, free triiodothyr...
[]
[ "INTRODUCTION", "MATERIALS AND METHODS", "Subjects", "Clinical Data", "Neuropsychological Tests", "MRI Data Acquisition", "MRI Data Analysis", "Statistical Analysis", "RESULTS", "Demographic and Clinical Data Comparison", "Neuropsychological Test Comparison", "Brain Volume Comparison", "DC A...
[ "HbA 1c ]), lipoid parameters \n(total cholesterol, triglyceride, high-density lipoprotein [HDL] \ncholesterol, low-density lipoprotein [LDL] cholesterol), renal \nfunction parameters (blood urea nitrogen, serum creatine, \nuric acid, and cystatin C), thyroid function parameters \n(free triiodothyronine [FT3], free...
[ "Table 1", "Table 2", "Table 1)", "Table 3" ]
[ "Altered Brain Functional Hubs and Connectivity in Type 2 Diabetes Mellitus Patients: A Resting-State fMRI Study", "Altered Brain Functional Hubs and Connectivity in Type 2 Diabetes Mellitus Patients: A Resting-State fMRI Study" ]
[ "Frontiers in Aging Neuroscience | www.frontiersin.org" ]