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Series GSE7222 Query DataSets for GSE7222
Status Public on Mar 31, 2007
Title Global gene expression analysis of quercetin bioactivity in cultured rat cardiomyocytes
Organism Rattus norvegicus
Experiment type Expression profiling by array
Summary Despite extensive studies, the fundamental mechanisms responsible for the development and progression of heart failure have not yet been fully elucidated. Recent experimental and clinical studies have suggested that reactive oxygen species (ROS) play a major pathological role. Quercetin, a major flavonoid present in the human diet, has been studied widely and its biological properties are consistent with its protective role in the cardiovascular system. However, it remains unknown whether the cardioprotective effects of quercetin may also occur through the modulation of genes involved in cell survival. This study was therefore designed to examine the gene expression profiling of cultured rat primary cardiomyocytes supplemented with quercetin using DNA-microarrays and relating these data to functional effects.
Keywords: nutritional intervention, dose response
 
Overall design Primary heart cell cultures were obtained by isolation of cardiomyocytes from the ventricles of 2–4 day old Wistar rats and grown until complete confluence. In some dishes, 30 μM quercetin was added to the culture medium for 6, 12 or 24 h. Total RNA was extracted using Total RNA Isolation Mini Kit (Agilent Technologies, Palo Alto, CA), following the manufacturer’s protocol. The yield and purity of the RNA were measured using NanoDrop ND-1000 Spectrophotometer (NanoDrop Technologies, Inc., Rockland, Del, USA). The 28s and 18s ribosomal bands were checked using Agilent 2100 bioanalyzer with an RNA 6000 Nano LabChip Kit. For each sample, mRNA was amplified starting from 1.5 μg of totRNA by Amino Allyl MessageAmp I aRNA Kit (Ambion Inc.) to obtain amino allyl antisense RNA (aaRNA). Labeling of aaRNA was performed using NHS ester Cy3 or Cy5 dies (Amersham Biosciences, Piscataway, NJ - USA). One hybridization to Agilent 22K-gene arrays (Rat oligo array G4130A) was performed to compare quercetin supplemented cells versus unsupplemented ones. Each analysis was replicated swapping the labeling with the two cyanine dyes.




 
Contributor(s) Angeloni C, Leoncini E, Hrelia S
Citation(s) 18178720
Submission date Mar 08, 2007
Last update date Dec 06, 2012
Contact name Cristina Angeloni
E-mail(s) cristina.angeloni@unibo.it
Phone +39 051 2091211
Organization name University of Bologna
Department Biochemistry
Lab Nutrition Research Center
Street address Via Irnerio 48
City Bologna
State/province BO
ZIP/Postal code 40126
Country Italy
 
Platforms (1)
GPL890 Agilent-011868 Rat Oligo Microarray G4130A (Feature Number version)
Samples (6)
GSM173578 Quercetin treated cardiomyocytes for 6 hours (Q6-A).
GSM173579 Quercetin treated cardiomyocytes for 6 hours (Q6-B).
GSM173583 Quercetin treated cardiomyocytes for 12 hours (Q12-A).
Relations
BioProject PRJNA98393

Table 1: Quercetin treated cardiomyocytes for 6 hours (normalized data in which replicated expression profiles were combined to form ratio experiments where each gene is associated to a expression fold-change and a p-value that assesses the statistical significance of its modulation in the treated sample compared to the control reference) header descriptions
Sequence ID
Primary Sequence Name
Sequence Code
Sequence Name(s)
Sequence Description
Accession #
Log(Ratio)
Fold Change
P-value
Abs(Fold Change)
Log(Error)
Intensity1
Intensity2

Data table
Sequence ID Primary Sequence Name Sequence Code Sequence Name(s) Sequence Description Accession # Log(Ratio) Fold Change P-value Abs(Fold Change) Log(Error) Intensity1 Intensity2
1129980 AI044448 AI044448 AI044448 Rattus norvegicus transcribed sequences AI044448 0.04667 1.11344 0.28102 1.11344 0.04329 2766.1543 3100.35205
1129981 216732_Rn AW435059 216732_Rn similar to mouse hypothetical protein, clone MGC:18890 IMAGE:4239390, mRNA, complete cds. 216732_Rn 0.03536 1.08483 0.078 1.08483 0.02006 2640.95654 2865.82251
1129982 CB548214 CB548214 CB548214 Rattus norvegicus LOC363043 (LOC363043), mRNA CB548214 -0.0158 -1.03706 0.83234 1.03706 0.07464 580.1778 548.3877
1129983 208332_Rn AI176723 208332_Rn similar to Mouse, FK506 binding protein 1a (12 kDa), clone MGC:6253 IMAGE:3498682, mRNA, complete cds. 208332_Rn 0.06813 1.16984 0.00427 1.16984 0.02384 5425.65137 6366.78418
1129984 AA955985 AA955985 AA955985 Rattus norvegicus transcribed sequences AA955985 0.01183 1.02761 0.97414 1.02761 0.36481 80.51677 89.38294
1129985 218353_Rn NM_139081 218353_Rn Rattus norvegicus Ornithine decarboxylase antizyme (Oaz), mRNA. 218353_Rn 0.00161 1.00371 0.94901 1.00371 0.02515 42283.26953 42287.38281
1129986 BM384458 BM384458 BM384458 Rattus norvegicus transcribed sequence with strong similarity to protein ref:NP_001978.1 (H.sapiens) ets variant gene 6; TEL1 oncogene [Homo sapiens] BM384458 -0.02919 -1.06952 0.91192 1.06952 0.26388 101.81848 97.30073
1129987 207011_Rn NM_053988 207011_Rn Rattus norvegicus calbindin 2 (Calb2), mRNA. 207011_Rn -0.07439 -1.18685 0.21977 1.18685 0.06062 601.1239 503.28223
1129988 AI111924 AI111924 AI111924 Rattus norvegicus transcribed sequences AI111924 -0.04338 -1.10504 0.74063 1.10504 0.13105 286.98431 252.608
1129989 BQ201015 BQ201015 BQ201015 Rattus norvegicus transcribed sequence with strong similarity to protein ref:NP_005157.1 (H.sapiens) amyloid beta (A4) precursor-like protein 1 [Homo sapiens] BQ201015 -0.05284 -1.12937 0.06295 1.12937 0.02841 5566.95312 4901.60156
1129990 AW533710 AW533710 AW533710 Rattus norvegicus transcribed sequences AW533710 0.00931 1.02166 0.95254 1.02166 0.15638 1109.85474 1132.76697
1129991 CA511303 CA511303 CA511303 Rattus norvegicus similar to hypothetical protein (LOC307138), mRNA CA511303 0.04892 1.11922 0.41679 1.11922 0.06024 526.58289 586.25854
1129992 CB546125 CB546125 CB546125 Rattus norvegicus similar to Als2 (LOC363235), mRNA CB546125 -0.05188 -1.12688 0.64578 1.12688 0.11286 274.37238 241.5106
1129993 232354_Rn BF396356 232354_Rn similar to Mouse Strain C57BL6/J chromosome 19 BAC, RP22-325J22, Complete Sequence, complete sequence. 232354_Rn -0.16119 -1.44942 0.6598 1.44942 0.3662 105.73847 67.16732
1129994 CA338912 CA338912 CA338912 NISC_lx08f07.y1 NCI_CGAP_Pr51 Rattus norvegicus cDNA clone IMAGE:5621533 5', mRNA sequence. CA338912 0.12774 1.34196 0.04037 1.34196 0.06231 446.91025 600.2865
1129995 CB606103 CB606103 CB606103 AMGNNUC:NRHY7-00048-A5-A nrhy7 (10850) Rattus norvegicus cDNA clone nrhy7-00048-a5 5', mRNA sequence. CB606103 0.00108 1.00248 0.97893 1.00248 0.04077 984.36853 986.05176
1129996 216438_Rn BQ204214 216438_Rn similar to Mouse glutaryl-CoA dehydrogenase mRNA, complete cds. 216438_Rn -0.00735 -1.01708 0.71443 1.01708 0.0201 4355.17529 4287.49365
1129997 CB547916 CB547916 CB547916 Rattus norvegicus similar to cullin 4B; Cullin-4B (LOC302502), mRNA CB547916 -0.12078 -1.32064 0.06532 1.32064 0.06553 612.47607 459.92194
1129998 Sca1 NM_012726 Sca1 spinocerebellar ataxia 1 homolog (human) NM_012726 -0.007 -1.01626 0.98497 1.01626 0.37183 94.60399 75.93189
1129999 Gnao NM_017327 Gnao guanine nucleotide binding protein, alpha o NM_017327 0.36032 2.29255 2.65E-06 2.29255 0.07673 2225.17505 5322.59082

Total number of rows: 20280

Table truncated, full table size 3657 Kbytes.




Table 2: Quercetin treated cardiomyocytes for 12 hours (normalized data in which replicated expression profiles were combined to form ratio experiments where each gene is associated to a expression fold-change and a p-value that assesses the statistical significance of its modulation in the treated sample compared to the control reference) header descriptions
Sequence ID
Primary Sequence Name
Sequence Code
Sequence Name(s)
Sequence Description
Accession #
Log(Ratio)
Fold Change
P-value
Abs(Fold Change)
Log(Error)
Intensity1
Intensity2

Data table
Sequence ID Primary Sequence Name Sequence Code Sequence Name(s) Sequence Description Accession # Log(Ratio) Fold Change P-value Abs(Fold Change) Log(Error) Intensity1 Intensity2
1129980 AI044448 AI044448 AI044448 Rattus norvegicus transcribed sequences AI044448 -0.02661 -1.0632 0.40968 1.0632 0.03228 3293.60986 3099.27197
1129981 216732_Rn AW435059 216732_Rn similar to mouse hypothetical protein, clone MGC:18890 IMAGE:4239390, mRNA, complete cds. 216732_Rn 0.01015 1.02365 0.68828 1.02365 0.0253 3250.87744 3325.68457
1129982 CB548214 CB548214 CB548214 Rattus norvegicus LOC363043 (LOC363043), mRNA CB548214 0.01425 1.03335 0.74814 1.03335 0.04437 953.07764 992.12201
1129983 208332_Rn AI176723 208332_Rn similar to Mouse, FK506 binding protein 1a (12 kDa), clone MGC:6253 IMAGE:3498682, mRNA, complete cds. 208332_Rn -0.05987 -1.14782 0.00211 1.14782 0.01947 6728.68311 5863.40527
1129984 AA955985 AA955985 AA955985 Rattus norvegicus transcribed sequences AA955985 0.03049 1.07272 0.96626 1.07272 0.72084 57.33079 92.12689
1129985 218353_Rn NM_139081 218353_Rn Rattus norvegicus Ornithine decarboxylase antizyme (Oaz), mRNA. 218353_Rn 0.05743 1.14139 0.05244 1.14139 0.02961 54647.99219 62343.28125
1129986 BM384458 BM384458 BM384458 Rattus norvegicus transcribed sequence with strong similarity to protein ref:NP_001978.1 (H.sapiens) ets variant gene 6; TEL1 oncogene [Homo sapiens] BM384458 0.00659 1.01528 0.9875 1.01528 0.42024 84.00959 96.07262
1129987 207011_Rn NM_053988 207011_Rn Rattus norvegicus calbindin 2 (Calb2), mRNA. 207011_Rn -0.00954 -1.0222 0.84272 1.0222 0.04807 856.13538 844.36975
1129988 AI111924 AI111924 AI111924 Rattus norvegicus transcribed sequences AI111924 -0.00546 -1.01266 0.96433 1.01266 0.12218 374.14514 386.3696
1129989 BQ201015 BQ201015 BQ201015 Rattus norvegicus transcribed sequence with strong similarity to protein ref:NP_005157.1 (H.sapiens) amyloid beta (A4) precursor-like protein 1 [Homo sapiens] BQ201015 -0.02322 -1.05491 0.47837 1.05491 0.03275 7030.41943 6660.79346
1129990 AW533710 AW533710 AW533710 Rattus norvegicus transcribed sequences AW533710 -0.08401 -1.21341 0.58839 1.21341 0.15523 1474.07764 1255.5376
1129991 CA511303 CA511303 CA511303 Rattus norvegicus similar to hypothetical protein (LOC307138), mRNA CA511303 -0.02999 -1.07148 0.59837 1.07148 0.05693 595.90027 559.84778
1129992 CB546125 CB546125 CB546125 Rattus norvegicus similar to Als2 (LOC363235), mRNA CB546125 0.0116 1.02707 0.88916 1.02707 0.08324 354.5871 367.1814
1129993 232354_Rn BF396356 232354_Rn similar to Mouse Strain C57BL6/J chromosome 19 BAC, RP22-325J22, Complete Sequence, complete sequence. 232354_Rn -0.08655 -1.22052 0.7473 1.22052 0.2686 129.39905 110.2927
1129994 CA338912 CA338912 CA338912 NISC_lx08f07.y1 NCI_CGAP_Pr51 Rattus norvegicus cDNA clone IMAGE:5621533 5', mRNA sequence. CA338912 -0.00556 -1.01288 0.94715 1.01288 0.08385 407.17407 408.2139
1129995 CB606103 CB606103 CB606103 AMGNNUC:NRHY7-00048-A5-A nrhy7 (10850) Rattus norvegicus cDNA clone nrhy7-00048-a5 5', mRNA sequence. CB606103 0.01757 1.04128 0.67366 1.04128 0.04171 1390.03455 1456.078
1129996 216438_Rn BQ204214 216438_Rn similar to Mouse glutaryl-CoA dehydrogenase mRNA, complete cds. 216438_Rn 0.09558 1.24617 6.12E-06 1.24617 0.02113 5770.99512 7183.61328
1129997 CB547916 CB547916 CB547916 Rattus norvegicus similar to cullin 4B; Cullin-4B (LOC302502), mRNA CB547916 -0.02294 -1.05425 0.68975 1.05425 0.05748 743.89478 713.3501
1129998 Sca1 NM_012726 Sca1 spinocerebellar ataxia 1 homolog (human) NM_012726 -0.07191 -1.18007 0.77431 1.18007 0.25077 186.08755 159.67957
1129999 Gnao NM_017327 Gnao guanine nucleotide binding protein, alpha o NM_017327 0.07963 1.20123 0.26975 1.20123 0.07215 2538.23389 3120.27686

Total number of rows: 20280

Table truncated, full table size 3653 Kbytes.




Table 3: Quercetin treated cardiomyocytes for 24 hours (normalized data in which replicated expression profiles were combined to form ratio experiments where each gene is associated to a expression fold-change and a p-value that assesses the statistical significance of its modulation in the treated sample compared to the control reference) header descriptions
Sequence ID
Primary Sequence Name
Sequence Code
Sequence Name(s)
Sequence Description
Accession #
Log(Ratio)
Fold Change
P-value
Abs(Fold Change)
Log(Error)
Intensity1
Intensity2

Data table
Sequence ID Primary Sequence Name Sequence Code Sequence Name(s) Sequence Description Accession # Log(Ratio) Fold Change P-value Abs(Fold Change) Log(Error) Intensity1 Intensity2
1129980 AI044448 AI044448 AI044448 Rattus norvegicus transcribed sequences AI044448 -0.0394 -1.09497 0.30656 1.09497 0.03854 2933.51953 2670.11914
1129981 216732_Rn AW435059 216732_Rn similar to mouse hypothetical protein, clone MGC:18890 IMAGE:4239390, mRNA, complete cds. 216732_Rn 0.03952 1.09528 0.0663 1.09528 0.02152 2869.38403 3143.46436
1129982 CB548214 CB548214 CB548214 Rattus norvegicus LOC363043 (LOC363043), mRNA CB548214 0.00406 1.0094 0.90678 1.0094 0.03468 995.81836 1001.7135
1129983 208332_Rn AI176723 208332_Rn similar to Mouse, FK506 binding protein 1a (12 kDa), clone MGC:6253 IMAGE:3498682, mRNA, complete cds. 208332_Rn -0.05426 -1.13309 0.00668 1.13309 0.02001 6001.55566 5295.12207
1129984 AA955985 AA955985 AA955985 Rattus norvegicus transcribed sequences AA955985 0.12156 1.32301 0.74961 1.32301 0.38089 64.61908 71.58445
1129985 218353_Rn NM_139081 218353_Rn Rattus norvegicus Ornithine decarboxylase antizyme (Oaz), mRNA. 218353_Rn 0.02699 1.06413 0.44017 1.06413 0.03497 47718.23047 50729.57031
1129986 BM384458 BM384458 BM384458 Rattus norvegicus transcribed sequence with strong similarity to protein ref:NP_001978.1 (H.sapiens) ets variant gene 6; TEL1 oncogene [Homo sapiens] BM384458 0.1029 1.26735 0.71129 1.26735 0.27801 81.47382 98.2209
1129987 207011_Rn NM_053988 207011_Rn Rattus norvegicus calbindin 2 (Calb2), mRNA. 207011_Rn -0.0311 -1.07424 0.43831 1.07424 0.04013 886.59497 819.33337
1129988 AI111924 AI111924 AI111924 Rattus norvegicus transcribed sequences AI111924 0.04635 1.11264 0.57919 1.11264 0.08358 379.37598 402.34106
1129989 BQ201015 BQ201015 BQ201015 Rattus norvegicus transcribed sequence with strong similarity to protein ref:NP_005157.1 (H.sapiens) amyloid beta (A4) precursor-like protein 1 [Homo sapiens] BQ201015 0.01692 1.03972 0.60186 1.03972 0.03242 6259.42773 6533.54639
1129990 AW533710 AW533710 AW533710 Rattus norvegicus transcribed sequences AW533710 0.01439 1.03368 0.93696 1.03368 0.1819 1309.06531 1270.2428
1129991 CA511303 CA511303 CA511303 Rattus norvegicus similar to hypothetical protein (LOC307138), mRNA CA511303 0.08563 1.21794 0.04237 1.21794 0.04218 552.17542 668.02527
1129992 CB546125 CB546125 CB546125 Rattus norvegicus similar to Als2 (LOC363235), mRNA CB546125 0.00722 1.01676 0.9365 1.01676 0.09058 348.12274 336.5271
1129993 232354_Rn BF396356 232354_Rn similar to Mouse Strain C57BL6/J chromosome 19 BAC, RP22-325J22, Complete Sequence, complete sequence. 232354_Rn 0.05048 1.12327 0.82898 1.12327 0.2337 116.88055 115.13876
1129994 CA338912 CA338912 CA338912 NISC_lx08f07.y1 NCI_CGAP_Pr51 Rattus norvegicus cDNA clone IMAGE:5621533 5', mRNA sequence. CA338912 0.02445 1.05791 0.74135 1.05791 0.07408 354.76761 365.60095
1129995 CB606103 CB606103 CB606103 AMGNNUC:NRHY7-00048-A5-A nrhy7 (10850) Rattus norvegicus cDNA clone nrhy7-00048-a5 5', mRNA sequence. CB606103 0.0184 1.04328 0.48178 1.04328 0.02616 1273.00342 1326.83252
1129996 216438_Rn BQ204214 216438_Rn similar to Mouse glutaryl-CoA dehydrogenase mRNA, complete cds. 216438_Rn 0.02072 1.04888 0.31817 1.04888 0.02076 4756.27588 4987.43359
1129997 CB547916 CB547916 CB547916 Rattus norvegicus similar to cullin 4B; Cullin-4B (LOC302502), mRNA CB547916 -0.03722 -1.08949 0.34497 1.08949 0.03941 635.30408 585.7583
1129998 Sca1 NM_012726 Sca1 spinocerebellar ataxia 1 homolog (human) NM_012726 -0.03281 -1.07848 0.80239 1.07848 0.13112 189.70526 169.20996
1129999 Gnao NM_017327 Gnao guanine nucleotide binding protein, alpha o NM_017327 -0.13089 -1.35173 0.04448 1.35173 0.06513 2486.53149 1796.32996

Total number of rows: 20280

Table truncated, full table size 3655 Kbytes.




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Supplementary file Size Download File type/resource
GSE7222_12h resolver_all_genes.xls 6.2 Mb (ftp)(http) XLS
GSE7222_24h resolver_all_genes.xls 6.2 Mb (ftp)(http) XLS
GSE7222_6h resolver_all_genes.xls 6.2 Mb (ftp)(http) XLS
GSE7222_RAW.tar 475.3 Mb (http)(custom) TAR (of TIFF, TXT)
GSE7222_cluster_analysis.gif 36.5 Kb (ftp)(http) GIF
GSE7222_readme_gse7222_cluster.txt 101 b (ftp)(http) TXT

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