Unlocking the potential of survival data for model organisms through a new database and online analysis platform: SurvCurv

Aging Cell

Volumn 12, Issue 5, 2013, Pages 910-916

  Ziehm, Matthias ^a   Thornton, Janet M ^a  

^a WELLCOME TRUST SANGER INSTITUTE   (United Kingdom)

Author keywords

Aging; Analysis; Bioinformatics; Database; Demography; Survival data

Indexed keywords

ARTICLE; CAENORHABDITIS ELEGANS; CONTROLLED STUDY; DATA BASE; DROSOPHILA MELANOGASTER; INTERNET; NONHUMAN; ONLINE ANALYSIS; PRIORITY JOURNAL; SURVIVAL;

AGING; ANALYSIS; BIOINFORMATICS; DATABASE; DEMOGRAPHY; SURVIVAL DATA;

AGING; ANIMALS; CAENORHABDITIS ELEGANS; COMPUTATIONAL BIOLOGY; DATABASES, FACTUAL; DROSOPHILA MELANOGASTER; FEMALE; LONGEVITY; MALE; MODELS, ANIMAL; SURVIVAL ANALYSIS;

EID: 84883747785     PISSN: 14749718     EISSN: 14749726     Source Type: Journal    
DOI: 10.1111/acel.12121     Document Type: Article

References (33)

1. Bokov AF, Gelfond J (2010) Survomatic: Analysis of Longevity Data. R package version 1.4.0.0.
2. Brand AH, Perrimon N (1993) Targeted gene expression as a means of altering cell fates and generating dominant phenotypes. Development 118, 401-415.
3. Bronikowski AM, Alberts SC, Altmann J, Packer C, Carey KD, Tatar M (2002) The aging baboon: comparative demography in a non-human primate. Proc. Natl Acad. Sci. USA 99, 9591-9595.
4. Chapman T, Hutchings J, Partridge L (1993) No reduction in the cost of mating for Drosophila melanogaster females mating with spermless males. Proc. Biol. Sci. 253, 211-217.
5. Cox D (1972) Regression models and life-tables. J. R. Stat. Soc. Series B (Methodol) 34, 187-220.
6. Fisher RA (1934) Statistical Methods for Research Workers. Edinburgh: Oliver and Boyd. 1st edition published in 1925.
7. Giannakou ME, Goss M, Jünger MA, Hafen E, Leevers SJ, Partridge L (2004) Long-lived Drosophila with overexpressed dFOXO in adult fat body. Science 305, 361.
8. Giannakou ME, Goss M, Jacobson J, Vinti G, Leevers SJ, Partridge L (2007) Dynamics of the action of dFOXO on adult mortality in Drosophila. Aging Cell 6, 429-438.
9. Giannakou ME, Goss M, Partridge L (2008) Role of dFOXO in lifespan extension by dietary restriction in Drosophila melanogaster: not required, but its activity modulates the response. Aging Cell 7, 187-198.
10. Grambsch P, Therneau T (1994) Proportional hazards tests and diagnostics based on weighted residuals. Biometrika 81, 515-526.
11. Grönke S, Clarke DF, Broughton S, Andrews TD, Partridge L (2010) Molecular evolution and functional characterization of Drosophila insulin-like peptides. PLoS Genet., 6, e1000857.
12. Harrington DP, Fleming TR (1982) A class of rank test procedures for censored survival data. Biometrika 69, 553-566.
13. Hwangbo DS, Gershman B, Gersham B, Tu MP, Palmer M, Tatar M (2004) Drosophila dFOXO controls lifespan and regulates insulin signalling in brain and fat body. Nature 429, 562-566.
14. Ikeya T, Broughton S, Alic N, Grandison R, Partridge L (2009) The endosymbiont Wolbachia increases insulin/IGF-like signalling in Drosophila. Proc. Biol. Sci. 276, 3799-3807.
15. Iqbal A, Piper M, Faragher RGA, Naughton DP, Partridge L, Ostler EL (2009) Chemical changes in aging Drosophila melanogaster. Age (Dordr) 31, 343-351.
16. Jacobson J, Lambert AJ, Portero-Otín M, Pamplona R, Magwere T, Miwa S, Driege Y, Brand MD, Partridge L (2010) Biomarkers of aging in Drosophila. Aging Cell 9, 466-477.
17. Kalbfleisch JD, Prentice RL (2002) Statistical Analysis of Failure Time Data, 2nd edn. Hoboken, NJ: Wiley-Interscience.
18. Keenan C, Elmore S, Francke-Carroll S, Kemp R, Kerlin R, Peddada S, Pletcher J, Rinke M, Schmidt SP, Taylor I, Wolf DC (2009) Best practices for use of historical control data of proliferative rodent lesions. Toxicol. Pathol. 37, 679-693.
19. Kleinbaum DG, Klein M (2005) Survival Analysis: A Self-Learning Text, 2nd edn. New York, London: Springer.
20. Masse I, Molin L, Mouchiroud L, Vanhems P, Palladino F, Billaud M, Solari F (2008) A novel role for the SMG-1 kinase in lifespan and oxidative stress resistance in Caenorhabditis elegans. PLoS One 3, e3354.
21. de Matos P, Alcántara R, Dekker A, Ennis M, Hastings J, Haug K, Spiteri I, Turner S, Steinbeck C (2010) Chemical Entities of Biological Interest: an update. Nucleic Acids Res., 38(Database issue), D249-D254.
22. Partridge L, Alic N, Bjedov I, Piper MDW (2011) Ageing in Drosophila: the role of the insulin/Igf and TOR signalling network. Exp. Gerontol., 46, 376-381.
23. Pletcher SD (1999) Model fitting and hypothesis testing for age-specific mortality data. J. Evol. Biol. 12, 430-439.
24. R Development Core Team (2010) R: A Language and Environment for Statistical Computing. Vienna, Austria: R Foundation for Statistical Computing. ISBN 3-900051-07-0.
25. Selman C, Lingard S, Gems D, Partridge L, Withers DJ (2008) Comment on "Brain IRS2 signaling coordinates life span and nutrient homeostasis" Science, 320, 1012; author reply 1012.
26. Swindell WR (2009) Accelerated failure time models provide a useful statistical framework for aging research. Exp. Gerontol. 44, 190-200.
27. Taguchi A, Wartschow LM, White MF (2007) Brain IRS2 signaling coordinates life span and nutrient homeostasis. Science 317, 369-372.
28. Tatar M (2005) Comment on "Long-lived Drosophila with overexpressed dFOXO in adult fat body" Science, 307, 675; author reply 675.
29. Therneau T (2009) survival: Survival Analysis, Including Penalised Likelihood. Original R port by Thomas Lumley, R package version 2.35-8.
30. Tweedie S, Ashburner M, Falls K, Leyland P, McQuilton P, Marygold S, Millburn G, Osumi-Sutherland D, Schroeder A, Seal R, Zhang H, FlyBase Consortium (2009) FlyBase: enhancing Drosophila Gene Ontology annotations. Nucleic Acids Res., 37(Database issue), D555-D559.
31. Wang C, Li Q, Redden DT, Weindruch R, Allison DB (2004) Statistical methods for testing effects on "maximum lifespan" Mech. Ageing Dev., 125, 629-632. Erratum in: Mech Ageing Dev. 2006 Jul;127(7):652.
32. Yang JS, Nam HJ, Seo M, Han SK, Choi Y, Nam HG, Lee SJ, Kim S (2011) OASIS: online application for the survival analysis of lifespan assays performed in aging research. PLoS One, 6, e23525.
33. Ziehm M, Piper MD, Thornton JM (this issue) Analysing variation in Drosophila aging across independent experimental studies: a meta-analysis of survival data. Aging Cell, doi:10.1111/acel.12123.