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Series GSE7851 Query DataSets for GSE7851
Status Public on May 08, 2008
Title Evaluation of Genetic Variation Contributing to Differences in Gene Expression between Populations
Organism Homo sapiens
Experiment type Expression profiling by array
Summary Gene expression is a complex quantitative trait partially regulated by genetic variation in DNA sequence. Population differences in gene expression could contribute to some of the observed differences in susceptibility to common diseases and responses to drug treatments. We characterize gene expression in the full set of HapMap lymphoblastoid cell lines derived from individuals of European and African ancestry for 9,156 transcript clusters (gene-level) evaluated using the Affymetrix GeneChip® Human Exon 1.0 ST Array. Gene expression was found to differ significantly between these samples for 383 transcript clusters. Biological processes including ribosome biogenesis and antimicrobial humoral response were found to be enriched in these differential genes, suggesting their possible roles in contributing to the population differences at a higher level than mRNA expression and the population differences in response to environmental information. Genome-wide association studies for local or distant genetic variants that correlate with the differentially expressed genes enabled identification of significant associations with one or more single nucleotide polymorphisms (SNPs), consistent with the hypothesis that genetic factors and not simply population identity or other characteristics (age of cell lines, length of culture etc.) contribute to differences in gene expression in these samples. Our results provided a comprehensive view of the genes differentially expressed between populations and the enriched biological processes involved in these genes. We also provided an evaluation of the contribution of genetic variation and non-genetic factors to the population differences in gene expression.
Keywords: exon array
 
Overall design Gene expression on 176 HapMap cell lines.
 
Contributor(s) Zhang W, Duan S, Kistner EO, Bleibel WK, Huang RS, Clark TA, Chen TX, Schweitzer AC, Blume JE, Cox NJ, Dolan ME
Citation(s) 18313023, 19925429, 19164090, 18439551, 19795565
Submission date May 18, 2007
Last update date Aug 20, 2019
Contact name Eileen Dolan
E-mail(s) edolan@medicine.bsd.uchicago.edu
Phone 773-702-4441
Fax 773-702-0963
Organization name University of Chicago
Department Medicine
Lab Dolan Lab
Street address 5841 S. Maryland
City Chicago
State/province IL
ZIP/Postal code 60657
Country USA
 
Platforms (1)
GPL5175 [HuEx-1_0-st] Affymetrix Human Exon 1.0 ST Array [transcript (gene) version]
Samples (176)
GSM188687 GM06985
GSM188688 GM07048
GSM188689 GM18521
Relations
BioProject PRJNA99987

383 population differentially expressed transcript clusters header descriptions
ID_REF transcript cluster
GSM188687 GM06985
GSM188775 GM06991
GSM188786 GM06993
GSM188797 GM06994
GSM188808 GM07000
GSM188819 GM07019
GSM188830 GM07022
GSM188841 GM07029
GSM188852 GM07034
GSM188688 GM07048
GSM188699 GM07055
GSM188710 GM07056
GSM188721 GM07345
GSM188732 GM07348
GSM188743 GM07357
GSM188754 GM10830
GSM188765 GM10831
GSM188773 GM10835
GSM188774 GM10838
GSM188776 GM10839
GSM188777 GM10846
GSM188778 GM10847
GSM188779 GM10851
GSM188780 GM10854
GSM188781 GM10856
GSM188782 GM10857
GSM188783 GM10859
GSM188784 GM10860
GSM188785 GM10861
GSM188787 GM10863
GSM188788 GM11829
GSM188789 GM11830
GSM188790 GM11831
GSM188791 GM11832
GSM188792 GM11839
GSM188793 GM11840
GSM188794 GM11881
GSM188795 GM11882
GSM188796 GM11992
GSM188798 GM11993
GSM188799 GM11994
GSM188800 GM11995
GSM188801 GM12003
GSM188802 GM12004
GSM188803 GM12005
GSM188804 GM12006
GSM188805 GM12043
GSM188806 GM12044
GSM188807 GM12056
GSM188809 GM12057
GSM188810 GM12144
GSM188811 GM12145
GSM188812 GM12146
GSM188813 GM12154
GSM188814 GM12155
GSM188815 GM12156
GSM188816 GM12234
GSM188817 GM12239
GSM188818 GM12248
GSM188820 GM12249
GSM188821 GM12264
GSM188822 GM12707
GSM188823 GM12717
GSM188824 GM12740
GSM188825 GM12750
GSM188826 GM12751
GSM188827 GM12752
GSM188828 GM12753
GSM188829 GM12760
GSM188831 GM12761
GSM188832 GM12762
GSM188833 GM12763
GSM188834 GM12801
GSM188835 GM12802
GSM188836 GM12812
GSM188837 GM12813
GSM188838 GM12814
GSM188839 GM12815
GSM188840 GM12864
GSM188842 GM12865
GSM188843 GM12872
GSM188844 GM12873
GSM188845 GM12874
GSM188846 GM12875
GSM188847 GM12878
GSM188848 GM12891
GSM188849 GM12892
GSM188850 GM18500
GSM188851 GM18501
GSM188853 GM18502
GSM188854 GM18503
GSM188855 GM18504
GSM188856 GM18505
GSM188857 GM18506
GSM188858 GM18507
GSM188859 GM18508
GSM188860 GM18515
GSM188861 GM18516
GSM188862 GM18517
GSM188689 GM18521
GSM188690 GM18522
GSM188691 GM18523
GSM188692 GM18852
GSM188693 GM18853
GSM188694 GM18854
GSM188695 GM18855
GSM188696 GM18856
GSM188697 GM18857
GSM188698 GM18858
GSM188700 GM18859
GSM188701 GM18860
GSM188702 GM18861
GSM188703 GM18862
GSM188704 GM18863
GSM188705 GM18870
GSM188706 GM18872
GSM188707 GM18912
GSM188708 GM18913
GSM188709 GM18914
GSM188711 GM19092
GSM188712 GM19093
GSM188713 GM19094
GSM188714 GM19098
GSM188715 GM19099
GSM188716 GM19100
GSM188717 GM19101
GSM188718 GM19102
GSM188719 GM19103
GSM188720 GM19116
GSM188722 GM19119
GSM188723 GM19120
GSM188724 GM19127
GSM188725 GM19128
GSM188726 GM19129
GSM188727 GM19130
GSM188728 GM19131
GSM188729 GM19132
GSM188730 GM19137
GSM188731 GM19138
GSM188733 GM19139
GSM188734 GM19140
GSM188735 GM19141
GSM188736 GM19142
GSM188737 GM19143
GSM188738 GM19144
GSM188739 GM19145
GSM188740 GM19152
GSM188741 GM19153
GSM188742 GM19154
GSM188744 GM19159
GSM188745 GM19160
GSM188746 GM19161
GSM188747 GM19171
GSM188748 GM19172
GSM188749 GM19173
GSM188750 GM19192
GSM188751 GM19193
GSM188752 GM19194
GSM188753 GM19200
GSM188755 GM19201
GSM188756 GM19202
GSM188757 GM19203
GSM188758 GM19204
GSM188759 GM19205
GSM188760 GM19206
GSM188761 GM19207
GSM188762 GM19208
GSM188763 GM19209
GSM188764 GM19210
GSM188766 GM19211
GSM188767 GM19221
GSM188768 GM19222
GSM188769 GM19223
GSM188770 GM19238
GSM188771 GM19239
GSM188772 GM19240

Data table
ID_REF GSM188687 GSM188775 GSM188786 GSM188797 GSM188808 GSM188819 GSM188830 GSM188841 GSM188852 GSM188688 GSM188699 GSM188710 GSM188721 GSM188732 GSM188743 GSM188754 GSM188765 GSM188773 GSM188774 GSM188776 GSM188777 GSM188778 GSM188779 GSM188780 GSM188781 GSM188782 GSM188783 GSM188784 GSM188785 GSM188787 GSM188788 GSM188789 GSM188790 GSM188791 GSM188792 GSM188793 GSM188794 GSM188795 GSM188796 GSM188798 GSM188799 GSM188800 GSM188801 GSM188802 GSM188803 GSM188804 GSM188805 GSM188806 GSM188807 GSM188809 GSM188810 GSM188811 GSM188812 GSM188813 GSM188814 GSM188815 GSM188816 GSM188817 GSM188818 GSM188820 GSM188821 GSM188822 GSM188823 GSM188824 GSM188825 GSM188826 GSM188827 GSM188828 GSM188829 GSM188831 GSM188832 GSM188833 GSM188834 GSM188835 GSM188836 GSM188837 GSM188838 GSM188839 GSM188840 GSM188842 GSM188843 GSM188844 GSM188845 GSM188846 GSM188847 GSM188848 GSM188849 GSM188850 GSM188851 GSM188853 GSM188854 GSM188855 GSM188856 GSM188857 GSM188858 GSM188859 GSM188860 GSM188861 GSM188862 GSM188689 GSM188690 GSM188691 GSM188692 GSM188693 GSM188694 GSM188695 GSM188696 GSM188697 GSM188698 GSM188700 GSM188701 GSM188702 GSM188703 GSM188704 GSM188705 GSM188706 GSM188707 GSM188708 GSM188709 GSM188711 GSM188712 GSM188713 GSM188714 GSM188715 GSM188716 GSM188717 GSM188718 GSM188719 GSM188720 GSM188722 GSM188723 GSM188724 GSM188725 GSM188726 GSM188727 GSM188728 GSM188729 GSM188730 GSM188731 GSM188733 GSM188734 GSM188735 GSM188736 GSM188737 GSM188738 GSM188739 GSM188740 GSM188741 GSM188742 GSM188744 GSM188745 GSM188746 GSM188747 GSM188748 GSM188749 GSM188750 GSM188751 GSM188752 GSM188753 GSM188755 GSM188756 GSM188757 GSM188758 GSM188759 GSM188760 GSM188761 GSM188762 GSM188763 GSM188764 GSM188766 GSM188767 GSM188768 GSM188769 GSM188770 GSM188771 GSM188772
3026969 7.631383894 6.980895117 7.256016054 7.07080755 6.323528317 7.002752318 7.10522093 7.264076609 6.984825895 7.198849835 7.317946205 6.980895117 6.826264742 7.233653313 7.134867677 7.123796205 7.056721089 7.183266016 7.001001993 7.169925001 7.208655935 6.929503252 7.127337883 7.254225533 7.415927017 7.235887744 7.226059329 7.466316809 7.502287163 7.129994879 6.658724078 7.287840772 6.962136231 7.463133825 7.340008117 7.192613824 7.341810732 7.295023681 7.065082672 7.095062037 7.3242458 7.171258412 6.903476795 7.319745777 7.172147438 7.349474588 7.012384509 7.292329614 7.216685127 7.386051108 6.936455699 6.964751608 7.208210027 7.267660759 7.336854137 7.154823813 7.072129112 7.258702322 7.358045318 7.099036131 7.354435917 6.913445126 7.304008023 7.306255095 7.151717217 7.438149141 7.328297153 7.358045318 7.092854834 7.055401442 7.284699531 7.165037149 7.343613592 7.182376138 7.214900396 6.554255104 7.024656825 6.762504881 6.967803761 6.93384794 6.717438768 7.116273882 6.879250583 7.242146336 7.418646205 7.220701746 7.225166233 6.82025378 6.932978845 6.847765946 7.22471971 6.549278381 6.941673342 6.86543563 6.717862757 6.431327116 7.255568399 7.059800904 6.764210319 7.016327578 7.00494065 6.894384544 7.145063084 7.127337883 6.333138942 7.409584307 7.067284184 6.85810497 6.548034752 6.962572079 7.184155961 7.444504741 6.4549945 6.818108007 7.188606706 7.02641121 7.059360876 6.933413383 6.900878104 6.990506418 7.08667705 7.164148672 6.649051333 6.580856925 6.840879892 7.494994937 6.686548254 6.735690404 7.243487881 6.749299573 7.127780672 6.996627507 6.497649509 6.984389065 6.661670385 7.209101859 7.390121277 6.956907573 6.844322254 7.098594494 7.234100166 7.1770383 6.980895117 6.759947377 7.13841286 7.294125595 7.113620163 7.137526459 7.069045722 6.725498376 6.55466999 6.897847212 6.617176945 6.822400079 6.616339979 7.100361151 7.173481104 6.976529408 6.606721677 6.97783892 6.762504881 6.92776593 7.073010244 6.728469731 7.217577593 7.333250514 7.192613824 6.824117497 7.135310764 6.900012035 6.96998445 6.586272541 6.817678916 7.403244491 7.054961597 6.905642923
3026988 8.582507384 8.476792668 8.551378599 8.364304361 9.372258169 8.44242887 8.423831548 8.570531276 8.810356375 8.161461559 8.581070021 8.598801836 9.152152987 8.316297536 8.607911016 8.114301865 8.389528896 8.765539652 8.542285035 8.417158435 8.246577547 8.371441115 8.503068797 8.526975374 8.505936628 8.56191118 8.450539023 8.195946029 8.250840833 8.694328516 8.667900488 8.247998565 8.634293513 8.277383566 8.355742635 8.694809207 8.318197211 8.142114866 7.416380178 8.867294555 8.247051211 8.313448272 8.806981261 8.503068797 8.564784293 8.843158283 7.390573593 8.497333925 8.303478196 8.686157758 8.634293513 8.483956671 8.595925766 8.709232913 8.595446445 8.409057406 8.32674738 8.658775391 8.68039129 8.279280498 8.352413778 8.333874552 8.461992369 8.548506671 8.546113592 8.255578637 8.615583814 8.879851097 8.498289664 8.706828562 8.74916821 8.386196078 8.139756574 8.684716053 8.854259173 8.117600009 7.919163051 8.530323736 8.786254861 8.590653614 8.132211599 8.431936642 9.145836182 8.713080205 8.418111644 8.875504165 8.934951646 9.393242854 9.229476124 8.982375812 8.66309751 8.956237718 9.321048438 8.938821056 9.003200564 9.293268282 8.893377823 9.099214113 8.826271545 8.770356136 9.152638929 9.004169393 8.701058772 8.827236308 8.835437741 8.798785775 8.312973423 8.965916671 8.999325454 8.986249445 8.991576244 8.420971457 9.289370426 8.910775814 8.878885072 9.172566582 9.226556168 8.691925158 9.040515495 8.940755892 8.725586709 8.742429108 9.082712904 9.496320115 9.24748608 8.827718698 8.205402188 9.076405131 8.920444488 8.826271545 8.560474718 9.208553372 9.192502088 8.884681561 8.653013397 8.846053871 8.710194698 8.513585458 8.661656744 8.875504165 8.908358993 8.995935009 8.775654974 8.859569377 9.001262967 8.957205516 8.696251318 8.723662353 9.014827898 8.598322473 9.035667673 9.177914366 8.961560876 8.547070802 8.735691228 9.280114128 9.040030689 9.178886751 8.651573047 8.609829052 8.852328363 8.368586198 8.433844045 8.704424371 9.23823696 8.768429469 9.068157776 9.0002942 8.934951646 8.807945549 8.014638749 9.416676404 8.867294555 8.855224613 8.87791907 9.287421602
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Total number of rows: 383

Table truncated, full table size 785 Kbytes.




Download family Format
SOFT formatted family file(s) SOFTHelp
MINiML formatted family file(s) MINiMLHelp
Series Matrix File(s) TXTHelp

Supplementary file Size Download File type/resource
GSE7851_LCL-cell-line-and-characteristics.txt 6.8 Kb (ftp)(http) TXT
GSE7851_RAW.tar 6.5 Gb (http)(custom) TAR (of CEL)
GSE7851_mask-probeset-ge2.txt 922.2 Kb (ftp)(http) TXT
Processed data included within Sample table
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