Assessing natural variations in gene expression in humans by comparing with monozygotic twins using microarrays

Physiological Genomics

Volumn 21, Issue , 2005, Pages 117-123

  Sharma, Anu ^a   Sharma, Vineet K ^a   Horn Saban, Shirley ^b   Lancet, Doron ^b   Ramachandran, Srinivasan ^a   Brahmachari, Samir K ^a  

^a CSIR INSTITUTE OF GENOMICS AND INTEGRATIVE BIOLOGY   (India)

^b WEIZMANN INSTITUTE OF SCIENCE   (Israel)

Author keywords

Differential gene expression; GeneChip; House keeping genes; Microarrays; Twins

Indexed keywords

ADULT; ARTICLE; CONTROLLED STUDY; DNA MICROARRAY; ENVIRONMENTAL FACTOR; FEMALE; GENDER; GENE EXPRESSION PROFILING; GENE EXPRESSION REGULATION; GENETIC EPIGENESIS; GENETIC VARIABILITY; HOUSEKEEPING GENE; HUMAN; HUMAN CELL; INTERMETHOD COMPARISON; LEUKOCYTE; MALE; MONOZYGOTIC TWINS; NUCLEOTIDE SEQUENCE; PRIORITY JOURNAL; QUANTITATIVE ANALYSIS;

ADULT; ALLELES; DNA, COMPLEMENTARY; FEMALE; GENE EXPRESSION PROFILING; HAPLOTYPES; HUMANS; LEUKOCYTES; MALE; MODELS, STATISTICAL; OLIGONUCLEOTIDE ARRAY SEQUENCE ANALYSIS; OLIGONUCLEOTIDES; SEX FACTORS; TRANSCRIPTION, GENETIC; TWINS, MONOZYGOTIC; VARIATION (GENETICS);

EID: 21244465079     PISSN: 15312267     EISSN: None     Source Type: Journal    
DOI: 10.1152/physiolgenomics.00228.2003     Document Type: Article

References (27)

1. Adams MD, Kerlavage AR, Fleischmann RD, Fuldner RA, Bull CJ, Lee NH, Kirkness EF, Weinstock KG, Gocayne JD, White O, et al. Initial assessment of human gene diversity and expression patterns based upon 83 million nucleotides of cDNA sequence. Nature 377: 3-174, 1995.
2. Altshuler D, Pollara VJ, Cowles CR, Van Etten WJ, Baldwin J, Linton L, and Lander ES. An SNP map of the human genome generated by reduced representation shotgun sequencing. Nature 407: 513-516, 2000.
3. Amann ST, Gates LK, Aston CE, Pandya A, and Whitcomb DC. Expression and penetrance of the hereditary pancreatitis phenotype in monozygotic twins. Gut 48: 542-547, 2001.
4. Andrade MA, Ouzounis C, Sander C, Tamames J, and Valencia A. Functional classes in the three domains of life. J Mol Evol 49: 551-557, 1999.
5. Bortoluzzi S, D'Alessi F, Romualdi C, and Danieli GA. Differential expression of genes coding for ribosomal proteins in different human tissues. Bioinformatics 17: 1152-1157, 2000.
6. Brem RB, Yvert G, Clinton R, and Kruglyak L. Genetic dissection of transcriptional regulation in budding yeast. Science 296: 752-755, 2002.
7. Bustin MA. Absolute quantification of mRNA using real-time reverse transcription polymerase chain reaction assays. J Mol Endocrinol 25: 169-193, 2000.
8. Cheung VG, Conlin LK, Weber TM, Arcaro M, Jen KY, Morley M, and Spielman RS. Natural variation in human gene expression assessed in lymphoblastoid cells. Nat Genet 33: 422-425, 2003.
9. Chin KV and Kong AN. Application of DNA microarrays in pharmacogenomics and toxicogenomics. Pharm Res 19: 1773-1778, 2002.
10. Eisenberg E and Levanon EY. Human housekeeping genes are compact. Trends Genet 19: 362-365, 2003.
11. Enard W, Khaitovich P, Klose J, Zollner S, Heissig F, Giavalisco P, Nieselt-Struwe K, Muchmore E, Varki A, Ravid R, Doxiadis GM, Bontrop RE, and Paabo S. Intra- and inter-specific variation in primate gene expression patterns. Science 296: 340-343, 2002.
12. Hamilton BA. Variations in abundance: genome-wide responses to genetic variation and vice versa. Genome Biol 3: 1029.1-1029.3, 2002.
13. Haverty PM, Weng Z, Best NL, Auerbach KR, Hsiao LL, Jensen RV, and Gullans SR. HugeIndex: a database with visualization tools for high-density oligonucleotide array data for normal human tissues. Nucleic Acids Res 30: 214-217, 2002.
14. Hsiao LL, Dangond F, Yoshida T, Hong R, Jensen RV, Misra J, Dillon W, Lee KF, Clark KE, Haverty P, Weng Z, Mutter GL, Frosch MP, Macdonald ME, Milford EL, Crum CP, Bueno R, Pratt RE, Mahadevappa M, Warrington JA, Stephanopoulos G, Stephanopoulos G, and Gullans SR. A compendium of gene expression in normal human tissues. Physiol Genomics 7: 97-104, 2001.
15. Huang SH, Triche T, and Jong AY. Infectomics: genomics and proteomics of microbial infections. Funct Integr Genomics 1: 331-344, 2002.
16. Jin W, Riley RM, Wolfinger RD, White KP, Passador-Gurgel G, and Gibson G. The contributions of sex, genotype and age to transcriptional variance in Drosophila melanogaster. Nat Genet 29: 389-395, 2001.
17. King MC and Wilson AC. Evolution at two levels in humans and chimpanzees. Science 188: 107-116, 1975.
18. Lercher MJ, Urrutia AO, and Hurst LD. Clustering of housekeeping genes provides a unified model of gene order in the human genome. Nat Genet 31: 180-183, 2002.
19. Liu G, Loraine AE, Shigeta R, Cline M, Cheng J, Valmeekam V, Sun S, Kulp D, and Siani-Rose MA. NetAffx: Affymetrix probesets and annotations. Nucleic Acids Res 31: 82-86, 2003.
20. MacGregor AJ, Snieder H, Schork NJ, and Spector TD. Twins. Novel uses to study complex traits and genetic diseases. Trends Genet 16: 131-134, 2000.
21. Miller SA, Dykes DD, and Polesky HF. A simple salting out procedure for extracting DNA from human nucleated cells. Nucleic Acids Res 16: 1215, 1988.
22. Oleksiak MF, Churchill GA, and Crawford DL. Variation in gene expression within and among natural populations. Nat Genet 32: 261-266, 2002.
23. Rebhan M, Chalifa-Caspi V, Prilusky J, and Lancet D. GeneCards: a novel functional genomics compendium with automated data mining and query reformulation support. Bioinformatics 14: 656-664, 1998.
24. Rivera MC, Jain R, Moore JE, and Lake JA. Genomic evidence for two functionally distinct gene classes. Proc Natl Acad Sci USA 95: 6239-6244, 1998.
25. n repeats in human housekeeping genes. J Biomol Struct Dyn 21: 303-310, 2003.
26. Su AI, Cooke MP, Ching KA, Hakak Y, Walker JR, Wiltshire T, Orth AP, Vega RG, Sapinoso LM, Moqrich A, Patapoutian A, Hampton GM, Schultz PG, and Hogenesch JB. Large-scale analysis of the human and mouse transcriptomes. Proc Natl Acad Sci USA 99: 4465-4470, 2002.
27. Whitney AR, Diehn M, Popper SJ, Alizadeh AA, Boldrick JC, Relman DA, and Brown PO. Individuality and variation in gene expression patterns in human blood. Proc Natl Acad Sci USA 100: 1896-1901, 2003.