Assessing natural variations in gene expression in humans by comparing with monozygotic twins using microarrays
1 Functional Genomics Unit 2 G. N. Ramachandran Knowledge Center for Genome Informatics, Institute of Genomics and Integrative Biology, Delhi, India 3 Microarray Facility, Department of Biological Services 4 Department of Molecular Genetics and Crown Human Genome Center, The Weizmann Institute of Sc...
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| Veröffentlicht in: | Physiological genomics 2005-03, Vol.21 (1), p.117-123 |
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| creator | Sharma, Anu Sharma, Vineet K Horn-Saban, Shirley Lancet, Doron Ramachandran, Srinivasan Brahmachari, Samir K |
| description | 1 Functional Genomics Unit
2 G. N. Ramachandran Knowledge Center for Genome Informatics, Institute of Genomics and Integrative Biology, Delhi, India
3 Microarray Facility, Department of Biological Services
4 Department of Molecular Genetics and Crown Human Genome Center, The Weizmann Institute of Science, Rehovot, Israel
Quantitative variation in gene expression in humans is the outcome of various factors, including differences in genetic background, gender, age, and environment. However, the extent of the influence of these factors on gene expression is not clear. We attempted to address this issue by carrying out gene expression profiling in blood leukocytes with 13 individuals (including 5 pairs of monozygotic twins) on 10,000 genes using HG-U95Av2 oligonucleotide microarrays. The proportion of differentially expressed genes between monozygotic twins was low (up to 1.76%). Most of the variations belonged to the least variable category. These genes, exhibiting "random variations," did not show clear preference to any functional class, although "signaling and communication" and "immune and related functions" generally topped the list. The extent of variation in gene expression increased in comparisons between unrelated individuals (up to 14.13%). Most of the genes (89%) exhibiting random variations in twins also varied in expression in unrelated individuals. As with twins, signaling and communication topped the list, and substantial variations were observed in all three categories: least variable, moderately variable, and most variable. An important outcome of this study was that the housekeeping genes were nearly insensitive to random variations but appeared to be more susceptible to genetic differences. However, the highly expressed housekeeping genes exhibited low variation and appeared to be insensitive to all known factors. Gene expression profiling in monozygotic twins can provide useful data for the assessment of natural variation in gene expression in humans.
GeneChip; microarrays; twins; differential gene expression; housekeeping genes |
| doi_str_mv | 10.1152/physiolgenomics.00228.2003 |
| format | Article |
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2 G. N. Ramachandran Knowledge Center for Genome Informatics, Institute of Genomics and Integrative Biology, Delhi, India
3 Microarray Facility, Department of Biological Services
4 Department of Molecular Genetics and Crown Human Genome Center, The Weizmann Institute of Science, Rehovot, Israel
Quantitative variation in gene expression in humans is the outcome of various factors, including differences in genetic background, gender, age, and environment. However, the extent of the influence of these factors on gene expression is not clear. We attempted to address this issue by carrying out gene expression profiling in blood leukocytes with 13 individuals (including 5 pairs of monozygotic twins) on 10,000 genes using HG-U95Av2 oligonucleotide microarrays. The proportion of differentially expressed genes between monozygotic twins was low (up to 1.76%). Most of the variations belonged to the least variable category. These genes, exhibiting "random variations," did not show clear preference to any functional class, although "signaling and communication" and "immune and related functions" generally topped the list. The extent of variation in gene expression increased in comparisons between unrelated individuals (up to 14.13%). Most of the genes (89%) exhibiting random variations in twins also varied in expression in unrelated individuals. As with twins, signaling and communication topped the list, and substantial variations were observed in all three categories: least variable, moderately variable, and most variable. An important outcome of this study was that the housekeeping genes were nearly insensitive to random variations but appeared to be more susceptible to genetic differences. However, the highly expressed housekeeping genes exhibited low variation and appeared to be insensitive to all known factors. Gene expression profiling in monozygotic twins can provide useful data for the assessment of natural variation in gene expression in humans.
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2 G. N. Ramachandran Knowledge Center for Genome Informatics, Institute of Genomics and Integrative Biology, Delhi, India
3 Microarray Facility, Department of Biological Services
4 Department of Molecular Genetics and Crown Human Genome Center, The Weizmann Institute of Science, Rehovot, Israel
Quantitative variation in gene expression in humans is the outcome of various factors, including differences in genetic background, gender, age, and environment. However, the extent of the influence of these factors on gene expression is not clear. We attempted to address this issue by carrying out gene expression profiling in blood leukocytes with 13 individuals (including 5 pairs of monozygotic twins) on 10,000 genes using HG-U95Av2 oligonucleotide microarrays. The proportion of differentially expressed genes between monozygotic twins was low (up to 1.76%). Most of the variations belonged to the least variable category. These genes, exhibiting "random variations," did not show clear preference to any functional class, although "signaling and communication" and "immune and related functions" generally topped the list. The extent of variation in gene expression increased in comparisons between unrelated individuals (up to 14.13%). Most of the genes (89%) exhibiting random variations in twins also varied in expression in unrelated individuals. As with twins, signaling and communication topped the list, and substantial variations were observed in all three categories: least variable, moderately variable, and most variable. An important outcome of this study was that the housekeeping genes were nearly insensitive to random variations but appeared to be more susceptible to genetic differences. However, the highly expressed housekeeping genes exhibited low variation and appeared to be insensitive to all known factors. Gene expression profiling in monozygotic twins can provide useful data for the assessment of natural variation in gene expression in humans.
GeneChip; microarrays; twins; differential gene expression; housekeeping genes</description><subject>Adult</subject><subject>Alleles</subject><subject>DNA, Complementary - metabolism</subject><subject>Female</subject><subject>Gene Expression Profiling - methods</subject><subject>Genetic Variation</subject><subject>Haplotypes</subject><subject>Humans</subject><subject>Leukocytes - metabolism</subject><subject>Male</subject><subject>Models, Statistical</subject><subject>Oligonucleotide Array Sequence Analysis - methods</subject><subject>Oligonucleotides - chemistry</subject><subject>Sex Factors</subject><subject>Transcription, Genetic</subject><subject>Twins, Monozygotic</subject><issn>1094-8341</issn><issn>1531-2267</issn><fulltext>true</fulltext><rsrctype>article</rsrctype><creationdate>2005</creationdate><recordtype>article</recordtype><sourceid>EIF</sourceid><recordid>eNqFkV1L5DAUhsPisn7s_gUpXnjXMZ9NxhsR8QuEvXGvQ9ImbaRtatI61l9vxhkRBmTJRcLJ877nHF4AThBcIMTw2dDM0fm2Nr3vXBkXEGIsFhhC8gMcIEZQjnHB99IbLmkuCEX74DDGJwgR5YL9AvuIFZRSTA-Av4zRxOj6OuvVOAXVZi8qODU638fM9VnqYjLzOoQ15ft1qZk6lT71nJW-GxKdxCs3Nlnne_821350ZTauXGKmD-c0ZfAqBDXH3-CnVW00f7b3Efh3c_14dZc__L29v7p8yEtKxZhbXQmisNbCLqsCUyQUQUpjTgtbWqEJs1QoDnWRaoJXzFrNsaK8qsqqWGJyBE43vkPwz5OJo-xcLE3bqt74KcqCM8IQZf8FERd4yQuSwPMNmHaJMRgrh-A6FWaJoFznIndykR-5yHUuSXy87TLpzlRf0m0QCbjYAI2rm5UL5tPN17O8mdr20byOux0wkukgLofKJgfyvcPuaJ9K8g6Dbr2-</recordid><startdate>20050321</startdate><enddate>20050321</enddate><creator>Sharma, Anu</creator><creator>Sharma, Vineet K</creator><creator>Horn-Saban, Shirley</creator><creator>Lancet, Doron</creator><creator>Ramachandran, Srinivasan</creator><creator>Brahmachari, Samir K</creator><general>Am Physiological Soc</general><scope>CGR</scope><scope>CUY</scope><scope>CVF</scope><scope>ECM</scope><scope>EIF</scope><scope>NPM</scope><scope>AAYXX</scope><scope>CITATION</scope><scope>8FD</scope><scope>FR3</scope><scope>P64</scope><scope>RC3</scope><scope>7X8</scope></search><sort><creationdate>20050321</creationdate><title>Assessing natural variations in gene expression in humans by comparing with monozygotic twins using microarrays</title><author>Sharma, Anu ; Sharma, Vineet K ; Horn-Saban, Shirley ; Lancet, Doron ; Ramachandran, Srinivasan ; Brahmachari, Samir K</author></sort><facets><frbrtype>5</frbrtype><frbrgroupid>cdi_FETCH-LOGICAL-c448t-fbd83a2bb8f9d62418a31ab2746fcf8b35f48a70b6b2787d5ffb72a47ddcd6923</frbrgroupid><rsrctype>articles</rsrctype><prefilter>articles</prefilter><language>eng</language><creationdate>2005</creationdate><topic>Adult</topic><topic>Alleles</topic><topic>DNA, Complementary - metabolism</topic><topic>Female</topic><topic>Gene Expression Profiling - methods</topic><topic>Genetic Variation</topic><topic>Haplotypes</topic><topic>Humans</topic><topic>Leukocytes - metabolism</topic><topic>Male</topic><topic>Models, Statistical</topic><topic>Oligonucleotide Array Sequence Analysis - methods</topic><topic>Oligonucleotides - chemistry</topic><topic>Sex Factors</topic><topic>Transcription, Genetic</topic><topic>Twins, Monozygotic</topic><toplevel>peer_reviewed</toplevel><toplevel>online_resources</toplevel><creatorcontrib>Sharma, Anu</creatorcontrib><creatorcontrib>Sharma, Vineet K</creatorcontrib><creatorcontrib>Horn-Saban, Shirley</creatorcontrib><creatorcontrib>Lancet, Doron</creatorcontrib><creatorcontrib>Ramachandran, Srinivasan</creatorcontrib><creatorcontrib>Brahmachari, Samir K</creatorcontrib><collection>Medline</collection><collection>MEDLINE</collection><collection>MEDLINE (Ovid)</collection><collection>MEDLINE</collection><collection>MEDLINE</collection><collection>PubMed</collection><collection>CrossRef</collection><collection>Technology Research Database</collection><collection>Engineering Research Database</collection><collection>Biotechnology and BioEngineering Abstracts</collection><collection>Genetics Abstracts</collection><collection>MEDLINE - Academic</collection><jtitle>Physiological genomics</jtitle></facets><delivery><delcategory>Remote Search Resource</delcategory><fulltext>fulltext</fulltext></delivery><addata><au>Sharma, Anu</au><au>Sharma, Vineet K</au><au>Horn-Saban, Shirley</au><au>Lancet, Doron</au><au>Ramachandran, Srinivasan</au><au>Brahmachari, Samir K</au><format>journal</format><genre>article</genre><ristype>JOUR</ristype><atitle>Assessing natural variations in gene expression in humans by comparing with monozygotic twins using microarrays</atitle><jtitle>Physiological genomics</jtitle><addtitle>Physiol Genomics</addtitle><date>2005-03-21</date><risdate>2005</risdate><volume>21</volume><issue>1</issue><spage>117</spage><epage>123</epage><pages>117-123</pages><issn>1094-8341</issn><eissn>1531-2267</eissn><abstract>1 Functional Genomics Unit
2 G. N. Ramachandran Knowledge Center for Genome Informatics, Institute of Genomics and Integrative Biology, Delhi, India
3 Microarray Facility, Department of Biological Services
4 Department of Molecular Genetics and Crown Human Genome Center, The Weizmann Institute of Science, Rehovot, Israel
Quantitative variation in gene expression in humans is the outcome of various factors, including differences in genetic background, gender, age, and environment. However, the extent of the influence of these factors on gene expression is not clear. We attempted to address this issue by carrying out gene expression profiling in blood leukocytes with 13 individuals (including 5 pairs of monozygotic twins) on 10,000 genes using HG-U95Av2 oligonucleotide microarrays. The proportion of differentially expressed genes between monozygotic twins was low (up to 1.76%). Most of the variations belonged to the least variable category. These genes, exhibiting "random variations," did not show clear preference to any functional class, although "signaling and communication" and "immune and related functions" generally topped the list. The extent of variation in gene expression increased in comparisons between unrelated individuals (up to 14.13%). Most of the genes (89%) exhibiting random variations in twins also varied in expression in unrelated individuals. As with twins, signaling and communication topped the list, and substantial variations were observed in all three categories: least variable, moderately variable, and most variable. An important outcome of this study was that the housekeeping genes were nearly insensitive to random variations but appeared to be more susceptible to genetic differences. However, the highly expressed housekeeping genes exhibited low variation and appeared to be insensitive to all known factors. Gene expression profiling in monozygotic twins can provide useful data for the assessment of natural variation in gene expression in humans.
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| source | MEDLINE; American Physiological Society; Elektronische Zeitschriftenbibliothek - Frei zugängliche E-Journals |
| subjects | Adult Alleles DNA, Complementary - metabolism Female Gene Expression Profiling - methods Genetic Variation Haplotypes Humans Leukocytes - metabolism Male Models, Statistical Oligonucleotide Array Sequence Analysis - methods Oligonucleotides - chemistry Sex Factors Transcription, Genetic Twins, Monozygotic |
| title | Assessing natural variations in gene expression in humans by comparing with monozygotic twins using microarrays |
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