Data storage: Bringing us a step closer to data sharing?

British Journal of Nutrition

Volumn 95, Issue 6, 2006, Pages 1237-1239

  Rocca Serra, Philippe ^a   Elliott, Ruan M ^b  

^a WELLCOME TRUST SANGER INSTITUTE   (United Kingdom)

^b INSTITUTE OF FOOD RESEARCH   (United Kingdom)

Author keywords

[No Author keywords available]

Indexed keywords

ACCESS TO INFORMATION; BIOINFORMATICS; DATA ANALYSIS; ELECTRONIC DATA INTERCHANGE; FUNCTIONAL GENOMICS; HUMAN; INFORMATION DISSEMINATION; INFORMATION PROCESSING; INFORMATION STORAGE; INTERNET; LETTER; MASS SPECTROMETRY; MEDICAL LITERATURE; MEDICAL RESEARCH; MEDLINE; METABOLOMICS; MICROARRAY ANALYSIS; NUCLEAR MAGNETIC RESONANCE SPECTROSCOPY; NUTRIGENOMICS; NUTRITIONAL HEALTH; PEER REVIEW; PROTEIN DATABASE; PROTEOMICS;

COOPERATIVE BEHAVIOR; HUMANS; INFORMATION STORAGE AND RETRIEVAL; INTERPROFESSIONAL RELATIONS; NUTRITION PHYSIOLOGY;

EID: 33745594577     PISSN: 00071145     EISSN: 14752662     Source Type: Journal    
DOI: 10.1079/BJN20061747     Document Type: Letter

References (43)

1. Almind K & Kahn CR (2004) Genetic determinants of energy expenditure and insulin resistance in diet-induced obesity in mice. Diabetes 53, 3274-3285.
2. Atzmon G, Yang XM, Muzumdar R, Ma XH, Gabriely I & Barzilai N (2002) Differential gene expression between visceral and subcutaneous fat depots. Horm Metab Res 34, 622-628.
3. Ball CA, Sherlock G, Parkinson H, et al. (2002) The underlying principles of scientific publication. Bioinformatics 18, 1409.
4. Barrett T, Suzek TO, Troup DB, Wilhite SE, Ngau WC, Ledoux P, Rudnev D, Lash AE, Fujibuchi W & Edgar R (2005) NCBI GEO: Mining millions of expression profiles - database and tools. Nucleic Acids Res 33, D562-D566.
5. Barta P, Monti J, Maass PG, Gorzelniak K, Muller DN, Dechend R, Luft FC, Hubner N & Sharma AM (2002) A gene expression analysis in rat kidney following high and low salt intake. J Hypertens 20, 1115-1120.
6. Becker W, Kluge R, Kantner T, Linnartz K, Korn M, Tschank G, Plum L, Giesen K & Joost HG (2004) Differential hepatic gene expression in a polygenic mouse model with insulin resistance and hyperglycemia: evidence for a combined transcriptional dysregulation of gluconeogenesis and fatty acid synthesis. J Mol Endocrinol 32, 195-208.
7. Brazma A, Hingamp P, Quackenbush J, et al. (2001) Minimum information about a microarray experiment (MIAME) - toward standards for microarray data. Nat Genet 29, 365-371.
8. Cao SX, Dhahbi JM, Mote PL & Spindler SR (2001) Genomic profiling of short- and long-term caloric restriction effects in the liver of aging mice. Proc Natl Acad Sci USA 98, 10630-10635.
9. Castro-Chavez F, Yechoor VK, Saha PK, Martinez-Botas J, Wooten EC, Sharma S, O'Connell P, Taegtmeyer H & Chan L (2003) Coordinated upregulation of oxidative pathways and downregulation of lipid biosynthesis underlie obesity resistance in perilipin knockout mice: A microarray gene expression profile. Diabetes 52, 2666-2674.
10. Crott JW, Choi SW, Ordovas JM, Ditelberg JS & Mason JB (2004) Effects of dietary folate and aging on gene expression in the colonic mucosa of rats: Implications for carcinogenesis. Carcinogenesis 25, 69-76.
11. Deng X, Elam MB, Wilcox HG, Cagen LM, Park EA, Raghow R, Patel D, Kumar P, Sheybani A & Russell JC (2004) Dietary olive oil and menhaden oil mitigate induction of lipogenesis in hyperinsulinemic corpulent JCR:LM-cp rats: microarray analysis of lipid-related gene expression. Endocrinology 145, 5847-5861.
12. Dhahbi JM, Kim HJ, Mote PL, Beaver RJ & Spindler SR (2004) Temporal linkage between the phenotypic and genomic responses to caloric restriction. Proc Natl Acad Sci USA 101, 5524-5529.
13. Eletto D, Leone A, Bifulco M & Tecce MF (2005) Effect of unsaturated fat intake from Mediterranean diet on rat liver mRNA expression profile: selective modulation of genes involved in lipid metabolism. Nutr Metab Cardiovasc Dis 15, 13-23.
14. Fujiwara K, Ochiai M, Ubagai T, Ohki M, Ohta T, Nagao M, Sugimura T & Nakagama H (2003) Differential gene expression profiles in colon epithelium of two rat strains with distinct susceptibility to colon carcinogenesis after exposure to PhIP in combination with dietary high fat. Cancer Sci 94, 672-678.
15. Gabrielsson BG, Johansson JM, Lonn M, Jernas M, Olbers T, Peltonen M, Larsson I, Lonn L, Sjostrom L, Carlsson B & Carlsson LM (2003) High expression of complement components in omental adipose tissue in obese men. Obes Res 11, 699-708.
16. Gregoire FM, Zhang Q, Smith SJ, Tong C, Ross D, Lopez H & West DB (2002) Diet-induced obesity and hepatic gene expression alterations in C57BL/6J and ICAM-1-deficient mice. Am J Physiol 282, E703-E713.
17. Guan H, Arany E, van Beek JP, Chamson-Reig A, Thyssen S, Hill DJ & Yang K (2005) Adipose tissue gene expression profiling reveals distinct molecular pathways that define visceral adiposity in offspring of matemal protein-restricted rats. Am J Physiol 288, E663-E673.
18. Lan H, Rabaglia ME, Stoehr JP, Nadler ST, Schueler KL, Zou F, Yandell BS & Attie AD (2003) Gene expression profiles of nondiabetic and diabetic obese mice suggest a role of hepatic lipogenic capacity in diabetes susceptibility. Diabetes 52, 688-700.
19. Lindon JC, Nicholson JK, Holmes E, Keun HC, et al. (2005) Summary recommendations for standardization and reporting of metabolic analyses. Nat Biotechnol 23, 833-838.
20. Lopez IP, Marti A, Milagro FI, Zulet Md Mde L, Moreno-Aliaga MJ, Martinez JA & De Miguel C (2003) DNA microarray analysis of genes differentially expressed in diet-induced (cafeteria) obese rats. Obes Res 11, 188-194.
21. Martens L, Hermjakob H, Jones P, Adamski M, Taylor C, States D, Gevaert K, Vandekerckhove J & Apweiler R (2005) PRIDE: The proteomics identifications database. Proteomics 5, 3537-3545.
22. Moraes RC, Blondet A, Birkenkamp-Demtroeder K, Tirard J, Orntoft TF, Gertler A, Durand P, Naville D & Begeot M (2003) Study of the alteration of gene expression in adipose tissue of diet-induced obese mice by microarray and reverse transcription-polymerase chain reaction analyses. Endocrinology 144, 4773-4782.
23. Mutch DM, Simmering R, Donnicola D, Fotopoulos G, Holzwarth JA, Williamson G & Corthesy-Theulaz I (2004) Impact of commensal microbiota on murine gastrointestinal tract gene ontologies. Physiol Genomics 19, 22-31.
24. Napoli C, de Nigris F, Welch JS, Calara FB, Stuart RO, Glass CK & Palinski W (2002) Maternal hypercholesterolemia during pregnancy promotes early atherogenesis in LDL receptor-deficient mice and alters aortic gene expression determined by microarray. Circulation 105, 1360-1367.
25. Oana F, Homma T, Takeda H, Matsuzawa A, Akahane S, Isaji M & Akahane M (2005) DNA microarray analysis of white adipose tissue from obese (fa/ fa) Zucker rats treated with a beta3-adrenoceptor agonist, KTO-7924. Pharmacol Res 52, 395-400.
26. Parkinson H, Sarkans U, Shojatalab M, et al. (2005) ArrayExpress - a public repository for microarray gene expression data at the EBI. Nucleic Acids Res 33, D553-D555.
27. Recinos A III, Carr BK, Bartos DB, Boldogh I, Carmical JR, Belalcazar LM & Brasier AR (2004) Liver gene expression associated with diet and lesion development in atherosclerosis-prone mice: Induction of components of alternative complement pathway. Physiol Genomics 19, 131-142.
28. Roche HM, Noone E, Sewter C, Mc Bennett S, Savage D, Gibney MJ, O'Rahilly S & Vidal-Puig AJ (2002) Isomer-dependent metabolic effects of conjugated linoleic acid: Insights from molecular markers sterol regulatory element-binding protein-1c and LXRalpha. Diabetes 51, 2037-2044.
29. Rota C, Rimbach G, Minihane AM, Stoecklin E & Barella L (2005) Dietary vitamin E modulates differential gene expression in the rat hippocampus: potential implications for its neuroprotective properties. Nutr Neurosci 8, 21-29.
30. Roy S, Lado BH, Khanna S & Sen CK (2002) Vitamin E sensitive genes in the developing rat fetal brain: A high-density oligonucleotide microarray analysis. FEBS Lett 530, 17-23.
31. Saito K, Arai S & Kato H (2005) A nutrigenomics database - integrated repository for publications and associated microarray data in nutrigenomics research. Br J Nutr 94, 493-495.
32. Sartipy P & Loskutoff DJ (2003) Expression profiling identifies genes that continue to respond to insulin in adipocytes made insulin-resistant by treatment with tumor necrosis factor-alpha. J Biol Chem 278, 52298-52306.
33. Sreekumar R, Halvatsiotis P, Schimke JC & Nair KS (2002) Gene expression profile in skeletal muscle of type 2 diabetes and the effect of insulin treatment. Diabetes 51, 1913-1920.
34. Tanaka T, Yamamoto J, Iwasaki S, et al. (2003) Activation of peroxisome proliferator-activated receptor delta induces fatty acid beta-oxidation in skeletal muscle and attenuates metabolic syndrome. Proc Natl Acad Sci USA 100, 15924-15929.
35. Taylor CF, Paton NW, Garwood KL, et al. (2003) A systematic approach to modeling, capturing, and disseminating proteomics experimental data. Nat Biotechnol 21, 247-254.
36. Tseng YH, Butte AJ, Kokkotou E, et al. (2005) Prediction of preadipocyte differentiation by gene expression reveals role of insulin receptor substrates and necdin. Nat Cell Biol 7, 601-611.
37. Tsuda T, Ueno Y, Kojo H, Yoshikawa T & Osawa T (2005) Gene expression profile of isolated rat adipocytes treated with anthocyanins. Biochim Biophys Acta 1733, 137-147.
38. van Breda SG, van Agen E, van Sanden S, Burzykowski T, Kienhuis AS, Kleinjans JC & van Delft JH (2005) Vegetables affect the expression of genes involved in anticarcinogenic processes in the colonic mucosa of C57BL/6 female mice. J Nutr 135, 1979-1999.
39. van Schothorst EM, Franssen-van Hal N, Schaap MM, Pennings J, Hoebee B & Keijer J (2005) Adipose gene expression patterns of weight gain suggest counteracting steroid hormone synthesis. Obes Res 13, 1031-1041.
40. Vohl MC, Sladek R, Robitaille J, Gurd S, Marceau P, Richard D, Hudson TJ & Tchernof A (2004) A survey of genes differentially expressed in subcutaneous and visceral adipose tissue in men. Obes Res 12, 1217-1222.
41. von Eyben FE, Kroustrup JP, Larsen JF & Celis J (2004) Comparison of gene expression in intra-abdominal and subcutaneous fat: A study of men with morbid obesity and nonobese men using microarray and proteomics. Ann N Y Acad Sci 1030, 508-536.
42. Xiao R, Badger TM & Simmen FA (2005) Dietary exposure to soy or whey proteins alters colonic global gene expression profiles during rat colon tumorigenesis. Mol Cancer 4, 1.
43. Yagil C, Hubner N, Monti J, Schulz H, Sapojnikov M, Luft FC, Ganten D & Yagil Y (2005) Identification of hypertension-related genes through an integrated genomic-transcriptomic approach. Circ Res 96, 617-625.