Papers and Relevant Publications

The Human Ageing Genomic Resources and its associated resources have been featured in several publications, either by HAGR's authors or by other researchers.

The official, academic paper describing the Human Ageing Genomic Resources is:

de Magalhaes, J. P., et al. (2005) "HAGR: the Human Ageing Genomic Resources." Nucleic Acids Res, 33(Database Issue):D537-D543.

We obtained a visualization and interpretation of the genomic and proteomic network of ageing using GenAge:

de Magalhaes, J. P., and Toussaint, O. (2004) "GenAge: a genomic and proteomic network map of human ageing." FEBS Lett 571(1-3):243-247.

An analysis of human disease-causing alleles in the mitochondrial genome of nonhuman primates was also published:

de Magalhaes, J. P. (2005) "Human disease-associated mitochondrial mutations fixed in nonhuman primates." J Mol Evol 61(4):491-497.

We analyzed human-chimpanzee gene pairs to gather clues about the mechanisms responsible for the evolution of longevity in the human lineage:

de Magalhaes, J. P., and Church, G. M. (2007) "Analyses of human-chimpanzee orthologous gene pairs to explore evolutionary hypotheses of aging." Mech Ageing Dev 128(5-6):355-364.

Finally, we took advantage of the AnAge dataset to evaluate the relationship between metabolic rates, growth rates, developmental timing, and longevity:

de Magalhaes, J. P., et al. (2007) "An analysis of the relationship between metabolism, developmental schedules, and longevity using phylogenetic independent contrasts." J Gerontol A Biol Sci Med Sci 62(2):149-160.

Other works using and/or citing HAGR:

Chung, H. Y., et al. (2004) "Molecular inflammation hypothesis of aging." Kor J Gerontol 14(1):12-19.

de Magalhaes, J. P. (2005) "Open-minded scepticism: inferring the causal mechanisms of human ageing from genetic perturbations." Ageing Res Rev 4(1):1-22.

Morris, B. J. (2005) "A forkhead in the road to longevity: the molecular basis of lifespan becomes clearer." J Hypertens 23(7):1285-1309.

Raghothama, C., et al. (2005) "Bioinformatics and proteomics approaches for aging research." Biogerontology 6(4):227-232.

Karasik, D., et al. (2005) "Disentangling the genetic determinants of human aging: biological age as an alternative to the use of survival measures." J Gerontol A Biol Sci Med Sci 60(5):574-587.

Galvin, J. E., and Ginsberg, S. D. (2005) "Expression profiling in the aging brain: a perspective." Ageing Res Rev 4(4):529-547.

Fried, L. P., et al. (2005) "From bedside to bench: research agenda for frailty." Sci Aging Knowledge Environ 2005(31):pe24.

Blalock, E. M., et al. (2005) "Harnessing the power of gene microarrays for the study of brain aging and Alzheimer's disease: statistical reliability and functional correlation." Ageing Res Rev 4(4):481-512.

Ruggiero, C., and Ferrucci, L. (2006) "The endeavor of high maintenance homeostasis: resting metabolic rate and the legacy of longevity." J Gerontol A Biol Sci Med Sci 61(5):466-471.

Rottenberg, H. (2006) "Longevity and the evolution of the mitochondrial DNA-coded proteins in mammals." Mech Ageing Dev 127(9):748-760.

Lehmann, G. et al. (2006) "Mitochondrial genome anatomy and species-specific lifespan." Rejuvenation Res 9(2):223-226.

Khaidakov, M., et al. (2006) "Direct repeats in mitochondrial DNA and mammalian lifespan." Mech Ageing Dev 127(10):808-812.

Kriete, A., et al. (2006) "Systems approaches to the networks of aging." Ageing Res Rev 5(4):434-448.

Swynghedauw, B., et al. (2006) "Biology of cardiac and vascular senescence." [Article in French] Bull Acad Natl Med 190(4-5):783-792.

Murakami, S. (2006) "Stress resistance in long-lived mouse models." Exp Gerontol 41(10):1014-1019.

Harper, J. M., et al. (2007) "Skin-derived fibroblasts from long-lived species are resistant to some, but not all, lethal stresses and to the mitochondrial inhibitor rotenone." Aging Cell 6(1):1-13.

Seluanov, A., et al. (2007) "Telomerase activity coevolves with body mass not lifespan." Aging Cell 6(1):45–52.

Rottenberg, H. (2007) "Coevolution of exceptional longevity, exceptionally high metabolic rates, and mitochondrial DNA-coded proteins in mammals." Exp Gerontol 42(4):364-373.

Rottenberg, H. (2007) "Exceptional longevity in songbirds is associated with high rates of evolution of cytochrome b, suggesting selection for reduced generation of free radicals." J Exp Biol 210(12):2170-2180.

Martin, G. M., et al. (2007) "Genetic determinants of human health span and life span: progress and new opportunities." PLoS Genet 3(7):e125.

Kahn, A. J. (2007) "Epigenetic and mitochondrial mechanisms in aging and longevity: a report of a meeting of the Longevity Consortium, Napa, California, October 25-27, 2006." J Gerontol A Biol Sci Med Sci 62(6):577-582.

Lambert, A. J., et al. (2007) "Low rates of hydrogen peroxide production by isolated heart mitochondria associate with long maximum lifespan in vertebrate homeotherms." Aging Cell 6(5):607-618.

Lunetta, K. L., et al. (2007) "Genetic correlates of longevity and selected age-related phenotypes: a genome-wide association study in the Framingham Study." BMC Med Genet 6(Suppl 1):S13.

Huhne, R., et al. (2007) "A comparative view at comprehensive information resources on three-dimensional structures of biological macro-molecules." Brief Funct Genomic Proteomic 6(3):220-239.

Xue, H., et al. (2007) "A modular network model of aging." Mol Syst Biol 3(147).

Pletcher, S. D., et al. (2007) "Chemical complexity and the genetics of aging." Annu Rev Ecol Evol Syst 38299-326.

Moosmann, B., and Behl, C. (2008) "Mitochondrially encoded cysteine predicts animal lifespan." Aging Cell 7(1):32-46.

Nabholz, B., et al. (2008) "Determination of mitochondrial genetic diversity in mammals." Genetics 178(1):351-361.

Nabholz, B., et al. (2008) "Strong variations of mitochondrial mutation rate across mammals--the longevity hypothesis." Mol Biol Evol 25(1):120-130.

Georgopoulo, P. G. (2008) "A multiscale approach for assessing the interactions of environmental and biological systems in a holistic health risk assessment framework." Water Air Soil Pollut Focus 8(1):3-21.

Sebastiani, P., et al. (2008) "A hierarchical and modular approach to the discovery of robust associations in genome-wide association studies from pooled DNA samples." BMC Med Genet 9:6.

Chen, D. P., et al. (2008) "Novel integration of hospital electronic medical records and gene expression measurements to identify genetic markers of maturation." Pac Symp Biocomput 243-254.

Buffenstein, R. (2008) "Negligible senescence in the longest living rodent, the naked mole-rat: insights from a successfully aging species." J Comp Physiol [B] 178(4):439-445.

Welch, J. J., et al. (2008) "Correlates of substitution rate variation in mammalian protein-coding sequences." BMC Evol Biol 8:53.

Kleine, L. L., et al. (2008) "Role of bacterial peptidase F inferred by statistical analysis and further experimental validation." HFSP J 2(1):29-41.

Jorge, M. L. S. P. (2008) "Effects of forest fragmentation on two sister genera of Amazonian rodents (Myoprocta acouchy and Dasyprocta leporina)." Biol Conserv 141(3):617-623.

If you cite HAGR or any of its tools in an academic publication, it would be great if you could inform us.

The Human Ageing Genomic Resources have been highlighted in:

Nature Reviews Genetics, 5(5):1362 (WEB WATCH) View online	Science, 307(5707):187 (NetWatch) View online
SAGE KE, 2004(30):nf69 View online
BioTechniques, 39(1):21 (WebWatch) View online

Lastly, HAGR is included in: