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Series GSE17661 Query DataSets for GSE17661
Status Public on Sep 20, 2009
Title Modulation of gene expression by rapamycin in hepatic cell lines, WB-F344 and WB311
Organism Rattus norvegicus
Experiment type Expression profiling by array
Summary Two rat hepatic cell lines, WB-F344 and WB311, were characterized for the effect of rapamycin on gene expression. The WB311 cell line, which is tumorigenic and resistant to the growth inhibitory effects of rapamycin, was originally derived from the WB-F344 parental hepatic epithelial cell line. The goal of this experiment was to identify genes that responded to rapamycin in the sensitive cells but not the resistant cells, thereby providing insight into the mechanism of rapamycin resistance.
 
Overall design Total RNA for each of four experimental groups was prepared and analyzed in triplicate: WB-F344, vehicle control; WB-F344, rapamycin; WB311, vehicle control; WB311, rapamycin.
 
Contributor(s) Jimenez RH, Boylan JM, Sanders JA, Gruppuso PA
Citation(s) 19816606
Submission date Aug 14, 2009
Last update date Jul 31, 2017
Contact name Jennifer Ann Sanders
E-mail(s) Jennifer_Sanders@brown.edu
Organization name Rhode Island Hospital
Department Pediatric Endocrinology
Street address 593 Eddy Street
City Providence
State/province RI
ZIP/Postal code 02903
Country USA
 
Platforms (1)
GPL1355 [Rat230_2] Affymetrix Rat Genome 230 2.0 Array
Samples (12)
GSM440879 WB-F344, Control, Rep1
GSM440880 WB-F344, Control, Rep2
GSM440881 WB-F344, Control, Rep3
This SubSeries is part of SuperSeries:
GSE17677 Modulation of gene expression by rapamycin in hepatic cell lines
Relations
BioProject PRJNA123385

T-Test p<0.05 WB F344 For gene expression comparisons, genes with expression values less than 100 or fold change less than 1.2 were excluded from further statistical analyses. A two-sample t-test using p-value cut-off of 0.05 with multiple test correction (Benjamini and Hochberg false discovery rate) was applied for each gene to determine if the gene were differentially expressed in the pair wise comparisons. Triplicate control and rapamycin samples from each cell line were used in these comparisons. header descriptions
Probe ID
Fold Change
FDR Adj. P-value
Rap expreesion
Control expression
Genbank
Gene Title
Gene Symbol
Gene Ontology Biological Process
Gene Ontology Cellular Component
Gene Ontology Molecular Function
Pathway

Data table
Probe ID Fold Change FDR Adj. P-value Rap expreesion Control expression Genbank Gene Title Gene Symbol Gene Ontology Biological Process Gene Ontology Cellular Component Gene Ontology Molecular Function Pathway
1367568_a_at 6.09 5.44E-05 498.46 81.91 NM_012862 matrix Gla protein Mgp 1502 // cartilage condensation // inferred from electronic annotation /// 1503 // ossification // inferred from electronic annotation /// 7605 // perception of sound // inferred from electronic annotation /// 30500 // regulation of bone mineralization // inferred from electronic annotation 5576 // extracellular region // inferred from electronic annotation /// 5578 // extracellular matrix (sensu Metazoa) // inferred from electronic annotation /// 5615 // extracellular space // inferred from electronic annotation 5201 // extracellular matrix structural constituent // inferred from electronic annotation /// 5509 // calcium ion binding // inferred from electronic annotation /// 8147 // structural constituent of bone // inferred from electronic annotation ---
1368078_at 5.09 0.000104 637.60 125.36 NM_022604 endothelial cell-specific molecule 1 Esm1 1558 // regulation of cell growth // inferred from electronic annotation 5576 // extracellular region // inferred from electronic annotation /// 5615 // extracellular space // inferred from electronic annotation 5515 // protein binding // inferred from electronic annotation /// 5520 // insulin-like growth factor binding // inferred from electronic annotation /// 8083 // growth factor activity // inferred from electronic annotation ---
1387018_at 4.30 0.00275 278.42 64.73 NM_053770 Arg/Abl-interacting protein ArgBP2 Argbp2 7242 // intracellular signaling cascade // inferred from physical interaction 5634 // nucleus // inferred from electronic annotation /// 5856 // cytoskeleton // inferred from electronic annotation /// 15629 // actin cytoskeleton // inferred from electronic annotation /// 30018 // Z disc // inferred from electronic annotation 3676 // nucleic acid binding // inferred from electronic annotation /// 5200 // structural constituent of cytoskeleton // inferred from electronic annotation /// 5515 // protein binding // inferred from electronic annotation /// 8093 // cytoskeletal adaptor activity // inferred from electronic annotation /// 8270 // zinc ion binding // inferred from electronic annotation /// 8307 // structural constituent of muscle // inferred from electronic annotation ---
1383987_at 3.91 0.0217 73.70 18.83 AI112807 Transcribed locus --- --- --- --- ---
1379935_at 3.46 0.000999 497.87 143.83 BF419899 chemokine (C-C motif) ligand 7 Ccl7 --- --- --- ---
1367973_at 2.96 0.00139 660.57 223.31 NM_031530 chemokine (C-C motif) ligand 2 Ccl2 6468 // protein amino acid phosphorylation // inferred from electronic annotation /// 6874 // calcium ion homeostasis // inferred from electronic annotation /// 6916 // anti-apoptosis // inferred from electronic annotation /// 6935 // chemotaxis // inferred from electronic annotation /// 6954 // inflammatory response // inferred from electronic annotation /// 6954 // inflammatory response // inferred from expression pattern /// 6955 // immune response // inferred from electronic annotation /// 6959 // humoral immune response // inferred from electronic annotation /// 7155 // cell adhesion // inferred from electronic annotation /// 7165 // signal transduction // inferred from electronic annotation /// 7187 // G-protein signaling, coupled to cyclic nucleotide second messenger // inferred from electronic annotation /// 7259 // JAK-STAT cascade // inferred from electronic annotation /// 7267 // cell-cell signaling // inferred from electronic annotation /// 9618 // response to pathogenic bacteria // inferred from electronic annotation /// 9887 // organogenesis // inferred from electronic annotation /// 19079 // viral genome replication // inferred from electronic annotation 5576 // extracellular region // inferred from electronic annotation /// 5615 // extracellular space // inferred from electronic annotation /// 5737 // cytoplasm // inferred from direct assay /// 16020 // membrane // inferred from electronic annotation 1664 // G-protein-coupled receptor binding // inferred from electronic annotation /// 4672 // protein kinase activity // inferred from electronic annotation /// 5125 // cytokine activity // inferred from electronic annotation /// 5515 // protein binding // inferred from electronic annotation /// 8009 // chemokine activity // inferred from electronic annotation /// 8009 // chemokine activity // non-traceable author statement ---
1382291_at 2.84 0.0305 187.10 65.79 AI454332 Similar to SRY sex determining region Y-box 9 protein --- --- --- --- ---
1377113_at 2.84 0.000773 87.05 30.63 BF415786 FMS-like tyrosine kinase 1 Flt1 1525 // angiogenesis // inferred from electronic annotation /// 1569 // patterning of blood vessels // inferred from electronic annotation /// 6468 // protein amino acid phosphorylation // inferred from electronic annotation /// 7169 // transmembrane receptor protein tyrosine kinase signaling pathway // inferred from electronic annotation /// 7169 // transmembrane receptor protein tyrosine kinase signaling pathway // traceable author statement /// 7565 // pregnancy // inferred from electronic annotation /// 8284 // positive regulation of cell proliferation // inferred from electronic annotation /// 8284 // positive regulation of cell proliferation // inferred from expression pattern 5615 // extracellular space // inferred from electronic annotation /// 5887 // integral to plasma membrane // inferred from electronic annotation /// 16020 // membrane // inferred from electronic annotation /// 16021 // integral to membrane // inferred from electronic annotation 4672 // protein kinase activity // inferred from electronic annotation /// 4674 // protein serine/threonine kinase activity // inferred from electronic annotation /// 4713 // protein-tyrosine kinase activity // inferred from electronic annotation /// 4714 // transmembrane receptor protein tyrosine kinase activity // inferred from electronic annotation /// 4716 // receptor signaling protein tyrosine kinase activity // inferred from electronic annotation /// 4716 // receptor signaling protein tyrosine kinase activity // traceable author statement /// 4872 // receptor activity // inferred from electronic annotation /// 5021 // vascular endothelial growth factor receptor activity // inferred from electronic annotation /// 5524 // ATP binding // inferred from electronic annotation /// 16301 // kinase activity // inferred from electronic annotation /// 16740 // transferase activity // inferred from electronic annotation ---
1368308_at 2.78 0.0118 97.62 35.07 NM_012603 myelocytomatosis viral oncogene homolog (avian) Myc 74 // regulation of cell cycle // inferred from electronic annotation /// 1836 // release of cytochrome c from mitochondria // inferred from electronic annotation /// 6309 // DNA fragmentation during apoptosis // inferred from electronic annotation /// 6352 // transcription initiation // inferred from direct assay /// 6352 // transcription initiation // inferred from electronic annotation /// 6355 // regulation of transcription, DNA-dependent // inferred from direct assay /// 6355 // regulation of transcription, DNA-dependent // inferred from electronic annotation /// 6355 // regulation of transcription, DNA-dependent // traceable author statement /// 6357 // regulation of transcription from RNA polymerase II promoter // inferred from electronic annotation /// 6879 // iron ion homeostasis // inferred from electronic annotation /// 6919 // caspase activation // inferred from electronic annotation /// 7050 // cell cycle arrest // inferred from electronic annotation /// 8283 // cell proliferation // inferred from electronic annotation /// 8629 // induction of apoptosis by intracellular signals // inferred from electronic annotation /// 8633 // activation of pro-apoptotic gene products // inferred from electronic annotation /// 8634 // negative regulation of survival gene product activity // inferred from electronic annotation /// 9314 // response to radiation // inferred from electronic annotation /// 9405 // pathogenesis // inferred from electronic annotation /// 9405 // pathogenesis // traceable author statement /// 42127 // regulation of cell proliferation // inferred from electronic annotation /// 42981 // regulation of apoptosis // inferred from electronic annotation /// 50875 // cellular physiological process // inferred from electronic annotation 5634 // nucleus // inferred from electronic annotation /// 5634 // nucleus // traceable author statement /// 5819 // spindle // inferred from electronic annotation 3677 // DNA binding // inferred from direct assay /// 3677 // DNA binding // inferred from electronic annotation /// 3700 // transcription factor activity // inferred from electronic annotation /// 5515 // protein binding // inferred from electronic annotation ---
1378898_at 2.76 0.0168 53.38 19.33 BE109293 Transcribed locus --- --- --- --- ---
1384605_at 2.74 0.000384 64.20 23.43 BF419162 Transcribed locus --- --- --- --- ---
1383019_at 2.61 0.0216 109.76 42.07 BF558478 FMS-like tyrosine kinase 1 Flt1 1525 // angiogenesis // inferred from electronic annotation /// 1569 // patterning of blood vessels // inferred from electronic annotation /// 6468 // protein amino acid phosphorylation // inferred from electronic annotation /// 7169 // transmembrane receptor protein tyrosine kinase signaling pathway // inferred from electronic annotation /// 7169 // transmembrane receptor protein tyrosine kinase signaling pathway // traceable author statement /// 7565 // pregnancy // inferred from electronic annotation /// 8284 // positive regulation of cell proliferation // inferred from electronic annotation /// 8284 // positive regulation of cell proliferation // inferred from expression pattern 5615 // extracellular space // inferred from electronic annotation /// 5887 // integral to plasma membrane // inferred from electronic annotation /// 16020 // membrane // inferred from electronic annotation /// 16021 // integral to membrane // inferred from electronic annotation 4672 // protein kinase activity // inferred from electronic annotation /// 4674 // protein serine/threonine kinase activity // inferred from electronic annotation /// 4713 // protein-tyrosine kinase activity // inferred from electronic annotation /// 4714 // transmembrane receptor protein tyrosine kinase activity // inferred from electronic annotation /// 4716 // receptor signaling protein tyrosine kinase activity // inferred from electronic annotation /// 4716 // receptor signaling protein tyrosine kinase activity // traceable author statement /// 4872 // receptor activity // inferred from electronic annotation /// 5021 // vascular endothelial growth factor receptor activity // inferred from electronic annotation /// 5524 // ATP binding // inferred from electronic annotation /// 16301 // kinase activity // inferred from electronic annotation /// 16740 // transferase activity // inferred from electronic annotation ---
1382387_at 2.54 9.68E-05 140.13 55.11 BF288508 Transcribed locus --- --- --- --- ---
1379996_at 2.49 0.0402 87.21 35.00 AI411753 Synaptobrevin-like 1 Sybl1 --- --- --- ---
1382778_at 2.41 0.0456 2964.42 1228.64 AI231350 Dual specificity phosphatase 6 Dusp6 74 // regulation of cell cycle // inferred from electronic annotation /// 188 // inactivation of MAPK activity // inferred from electronic annotation /// 6470 // protein amino acid dephosphorylation // inferred from electronic annotation /// 30154 // cell differentiation // inferred from electronic annotation /// 30154 // cell differentiation // inferred from expression pattern 5625 // soluble fraction // inferred from electronic annotation /// 5737 // cytoplasm // inferred from direct assay /// 5737 // cytoplasm // inferred from electronic annotation 158 // protein phosphatase type 2A activity // inferred from electronic annotation /// 163 // protein phosphatase type 1 activity // inferred from electronic annotation /// 4721 // phosphoprotein phosphatase activity // inferred from electronic annotation /// 4722 // protein serine/threonine phosphatase activity // inferred from electronic annotation /// 4723 // calcium-dependent protein serine/threonine phosphatase activity // inferred from electronic annotation /// 4724 // magnesium-dependent protein serine/threonine phosphatase activity // inferred from electronic annotation /// 4725 // protein tyrosine phosphatase activity // inferred from electronic annotation /// 8138 // protein tyrosine/serine/threonine phosphatase activity // inferred from direct assay /// 8138 // protein tyrosine/serine/threonine phosphatase activity // inferred from electronic annotation /// 8420 // CTD phosphatase activity // inferred from electronic annotation /// 15071 // protein phosphatase type 2C activity // inferred from electronic annotation /// 16787 // hydrolase activity // inferred from electronic annotation /// 17017 // MAP kinase phosphatase activity // inferred from electronic annotation /// 17018 // myosin phosphatase activity // inferred from electronic annotation /// 30357 // protein phosphatase type 2B activity // inferred from electronic annotation ---
1382372_at 2.40 0.0424 149.57 62.36 AA858521 Aryl hydrocarbon receptor Ahr 6355 // regulation of transcription, DNA-dependent // inferred from electronic annotation /// 6366 // transcription from RNA polymerase II promoter // inferred from electronic annotation /// 6805 // xenobiotic metabolism // inferred from electronic annotation /// 6915 // apoptosis // inferred from electronic annotation /// 6950 // response to stress // inferred from electronic annotation /// 7049 // cell cycle // inferred from electronic annotation /// 7165 // signal transduction // inferred from electronic annotation /// 9410 // response to xenobiotic stimulus // inferred from electronic annotation 5634 // nucleus // inferred from electronic annotation /// 5667 // transcription factor complex // inferred from electronic annotation /// 5737 // cytoplasm // inferred from electronic annotation 3677 // DNA binding // inferred from electronic annotation /// 3700 // transcription factor activity // inferred from electronic annotation /// 3700 // transcription factor activity // traceable author statement /// 4871 // signal transducer activity // inferred from electronic annotation /// 4872 // receptor activity // inferred from electronic annotation /// 4879 // ligand-dependent nuclear receptor activity // inferred from electronic annotation /// 5515 // protein binding // inferred from electronic annotation ---
1393235_at 2.35 0.000883 103.65 44.09 AI059968 FMS-like tyrosine kinase 1 Flt1 1525 // angiogenesis // inferred from electronic annotation /// 1569 // patterning of blood vessels // inferred from electronic annotation /// 6468 // protein amino acid phosphorylation // inferred from electronic annotation /// 7169 // transmembrane receptor protein tyrosine kinase signaling pathway // inferred from electronic annotation /// 7169 // transmembrane receptor protein tyrosine kinase signaling pathway // traceable author statement /// 7565 // pregnancy // inferred from electronic annotation /// 8284 // positive regulation of cell proliferation // inferred from electronic annotation /// 8284 // positive regulation of cell proliferation // inferred from expression pattern 5615 // extracellular space // inferred from electronic annotation /// 5887 // integral to plasma membrane // inferred from electronic annotation /// 16020 // membrane // inferred from electronic annotation /// 16021 // integral to membrane // inferred from electronic annotation 4672 // protein kinase activity // inferred from electronic annotation /// 4674 // protein serine/threonine kinase activity // inferred from electronic annotation /// 4713 // protein-tyrosine kinase activity // inferred from electronic annotation /// 4714 // transmembrane receptor protein tyrosine kinase activity // inferred from electronic annotation /// 4716 // receptor signaling protein tyrosine kinase activity // inferred from electronic annotation /// 4716 // receptor signaling protein tyrosine kinase activity // traceable author statement /// 4872 // receptor activity // inferred from electronic annotation /// 5021 // vascular endothelial growth factor receptor activity // inferred from electronic annotation /// 5524 // ATP binding // inferred from electronic annotation /// 16301 // kinase activity // inferred from electronic annotation /// 16740 // transferase activity // inferred from electronic annotation ---
1373628_at 2.27 0.0486 98.37 43.29 AA818342 Transcribed locus --- --- --- --- ---
1375184_at 2.24 0.00252 90.23 40.29 BI281837 Transcribed locus, weakly similar to XP_317582.1 ENSANGP00000025094 [Anopheles gambiae] --- --- --- --- ---
1377163_at 2.22 0.0186 118.79 53.47 BM385741 Inhibin beta-B Inhbb 1541 // ovarian follicle development // inferred from electronic annotation /// 6952 // defense response // inferred from electronic annotation /// 9605 // response to external stimulus // inferred from electronic annotation /// 30154 // cell differentiation // inferred from electronic annotation /// 40007 // growth // inferred from electronic annotation /// 46881 // positive regulation of follicle-stimulating hormone secretion // inferred from electronic annotation /// 46882 // negative regulation of follicle-stimulating hormone secretion // inferred from electronic annotation /// 48178 // negative regulation of hepatocyte growth factor biosynthesis // inferred from electronic annotation 5576 // extracellular region // inferred from electronic annotation 5125 // cytokine activity // inferred from electronic annotation /// 5179 // hormone activity // inferred from electronic annotation /// 5515 // protein binding // inferred from electronic annotation /// 8083 // growth factor activity // inferred from electronic annotation /// 42803 // protein homodimerization activity // inferred from electronic annotation /// 46789 // host cell surface receptor binding // inferred from electronic annotation ---

Total number of rows: 587

Table truncated, full table size 268 Kbytes.




T-Test FDR 0.05 WB311 For gene expression comparisons, genes with expression values less than 100 or fold change less than 1.2 were excluded from further statistical analyses. A two-sample t-test using p-value cut-off of 0.05 with multiple test correction (Benjamini and Hochberg false discovery rate) was applied for each gene to determine if the gene were differentially expressed in the pair wise comparisons. Triplicate control and rapamycin samples from each cell line were used in these comparisons. header descriptions
Probe ID
Fold Change
FDR Adj. P-value
Rap expression
Control expression
Genbank
Gene Title
Gene Symbol
Gene Ontology Biological Process
Gene Ontology Cellular Component
Gene Ontology Molecular Function
Pathway

Data table
Probe ID Fold Change FDR Adj. P-value Rap expression Control expression Genbank Gene Title Gene Symbol Gene Ontology Biological Process Gene Ontology Cellular Component Gene Ontology Molecular Function Pathway
1368290_at 2.09 0.0348 146.55 70.20 NM_031327 cysteine rich protein 61 Cyr61 1558 // regulation of cell growth // inferred from electronic annotation /// 1569 // patterning of blood vessels // inferred from electronic annotation /// 6935 // chemotaxis // inferred from direct assay /// 6935 // chemotaxis // inferred from electronic annotation /// 7155 // cell adhesion // inferred from direct assay /// 7155 // cell adhesion // inferred from electronic annotation /// 8283 // cell proliferation // inferred from electronic annotation /// 9653 // morphogenesis // inferred from electronic annotation /// 30335 // positive regulation of cell migration // inferred from electronic annotation /// 30335 // positive regulation of cell migration // traceable author statement /// 45766 // positive regulation of angiogenesis // inferred from electronic annotation /// 45766 // positive regulation of angiogenesis // traceable author statement 5576 // extracellular region // inferred from electronic annotation /// 5578 // extracellular matrix (sensu Metazoa) // inferred from electronic annotation /// 5578 // extracellular matrix (sensu Metazoa) // traceable author statement /// 5615 // extracellular space // inferred from electronic annotation 5515 // protein binding // inferred from electronic annotation /// 5520 // insulin-like growth factor binding // inferred from electronic annotation /// 8201 // heparin binding // inferred from electronic annotation /// 8201 // heparin binding // traceable author statement /// 19838 // growth factor binding // inferred from electronic annotation ---
1369519_at 2.02 0.0196 268.95 133.08 NM_012548 endothelin 1 Edn1 1666 // response to hypoxia // inferred from electronic annotation /// 1666 // response to hypoxia // inferred from expression pattern /// 6885 // regulation of pH // inferred from electronic annotation /// 7165 // signal transduction // inferred from electronic annotation /// 7186 // G-protein coupled receptor protein signaling pathway // inferred from electronic annotation /// 7243 // protein kinase cascade // inferred from direct assay /// 7243 // protein kinase cascade // inferred from electronic annotation /// 7267 // cell-cell signaling // inferred from electronic annotation /// 7585 // respiratory gaseous exchange // inferred from electronic annotation /// 8217 // regulation of blood pressure // inferred from electronic annotation /// 8284 // positive regulation of cell proliferation // inferred from electronic annotation /// 8284 // positive regulation of cell proliferation // traceable author statement /// 9405 // pathogenesis // inferred from electronic annotation /// 9953 // dorsal/ventral pattern formation // inferred from electronic annotation /// 15758 // glucose transport // inferred from electronic annotation /// 19229 // regulation of vasoconstriction // inferred from electronic annotation 5576 // extracellular region // inferred from electronic annotation /// 5615 // extracellular space // inferred from electronic annotation /// 5625 // soluble fraction // inferred from electronic annotation 5179 // hormone activity // inferred from electronic annotation /// 5515 // protein binding // inferred from electronic annotation Prostaglandin_synthesis_regulation // GenMAPP
1372016_at 1.82 0.0196 208.15 114.32 BI287978 growth arrest and DNA-damage-inducible 45 beta (predicted) Gadd45b_predicted 74 // regulation of cell cycle // inferred from electronic annotation /// 185 // activation of MAPKKK activity // inferred from electronic annotation /// 186 // activation of MAPKK activity // inferred from electronic annotation /// 6469 // negative regulation of protein kinase activity // inferred from electronic annotation /// 6915 // apoptosis // inferred from electronic annotation /// 6950 // response to stress // inferred from electronic annotation /// 30154 // cell differentiation // inferred from electronic annotation 5634 // nucleus // inferred from electronic annotation 5515 // protein binding // inferred from electronic annotation ---
1368321_at 1.73 0.0104 182.89 105.45 NM_012551 early growth response 1 Egr1 6355 // regulation of transcription, DNA-dependent // inferred from electronic annotation /// 7611 // learning and/or memory // inferred from expression pattern /// 45944 // positive regulation of transcription from RNA polymerase II promoter // inferred from direct assay 5634 // nucleus // inferred from electronic annotation 3676 // nucleic acid binding // inferred from electronic annotation /// 3677 // DNA binding // inferred from electronic annotation /// 3700 // transcription factor activity // inferred from electronic annotation /// 8270 // zinc ion binding // inferred from electronic annotation /// 16563 // transcriptional activator activity // inferred from direct assay ---
1386611_at 1.73 0.0331 129.30 74.73 BG667175 Dre1 protein Dre1 --- --- --- ---
1383110_at 1.73 0.0454 109.92 63.70 BM385908 Dre1 protein Dre1 --- --- --- ---
1367631_at 1.71 0.0417 1143.49 669.46 NM_022266 connective tissue growth factor Ctgf 1502 // cartilage condensation // inferred from electronic annotation /// 1503 // ossification // inferred from electronic annotation /// 1525 // angiogenesis // inferred from electronic annotation /// 1525 // angiogenesis // traceable author statement /// 1558 // regulation of cell growth // inferred from electronic annotation /// 6259 // DNA metabolism // inferred from electronic annotation /// 6928 // cell motility // inferred from electronic annotation /// 7155 // cell adhesion // inferred from electronic annotation /// 7155 // cell adhesion // traceable author statement /// 7160 // cell-matrix adhesion // inferred from electronic annotation /// 7229 // integrin-mediated signaling pathway // inferred from electronic annotation /// 7242 // intracellular signaling cascade // inferred from direct assay /// 8543 // fibroblast growth factor receptor signaling pathway // inferred from electronic annotation /// 8544 // epidermis development // inferred from electronic annotation /// 9611 // response to wounding // inferred from electronic annotation /// 16477 // cell migration // inferred from electronic annotation /// 30154 // cell differentiation // inferred from electronic annotation 5576 // extracellular region // inferred from electronic annotation /// 5578 // extracellular matrix (sensu Metazoa) // inferred from electronic annotation /// 5615 // extracellular space // inferred from electronic annotation /// 5625 // soluble fraction // inferred from electronic annotation /// 5886 // plasma membrane // inferred from electronic annotation 5178 // integrin binding // inferred from electronic annotation /// 5515 // protein binding // inferred from electronic annotation /// 5520 // insulin-like growth factor binding // inferred from electronic annotation /// 8083 // growth factor activity // inferred from direct assay /// 8201 // heparin binding // inferred from electronic annotation /// 8201 // heparin binding // traceable author statement ---
1373164_at 1.68 0.0491 129.18 76.79 AI012590 Serine/threonine kinase 17b (apoptosis-inducing) Stk17b 6468 // protein amino acid phosphorylation // inferred from electronic annotation /// 6915 // apoptosis // inferred from electronic annotation /// 6917 // induction of apoptosis // inferred from electronic annotation /// 7243 // protein kinase cascade // inferred from electronic annotation /// 12501 // programmed cell death // inferred from direct assay 5634 // nucleus // inferred from direct assay /// 5634 // nucleus // inferred from electronic annotation 4672 // protein kinase activity // inferred from electronic annotation /// 4674 // protein serine/threonine kinase activity // inferred from electronic annotation /// 4674 // protein serine/threonine kinase activity // traceable author statement /// 4713 // protein-tyrosine kinase activity // inferred from electronic annotation /// 5515 // protein binding // inferred from physical interaction /// 5524 // ATP binding // inferred from electronic annotation /// 16740 // transferase activity // inferred from electronic annotation ---
1368308_at 1.65 0.027 345.81 210.09 NM_012603 myelocytomatosis viral oncogene homolog (avian) Myc 74 // regulation of cell cycle // inferred from electronic annotation /// 1836 // release of cytochrome c from mitochondria // inferred from electronic annotation /// 6309 // DNA fragmentation during apoptosis // inferred from electronic annotation /// 6352 // transcription initiation // inferred from direct assay /// 6352 // transcription initiation // inferred from electronic annotation /// 6355 // regulation of transcription, DNA-dependent // inferred from direct assay /// 6355 // regulation of transcription, DNA-dependent // inferred from electronic annotation /// 6355 // regulation of transcription, DNA-dependent // traceable author statement /// 6357 // regulation of transcription from RNA polymerase II promoter // inferred from electronic annotation /// 6879 // iron ion homeostasis // inferred from electronic annotation /// 6919 // caspase activation // inferred from electronic annotation /// 7050 // cell cycle arrest // inferred from electronic annotation /// 8283 // cell proliferation // inferred from electronic annotation /// 8629 // induction of apoptosis by intracellular signals // inferred from electronic annotation /// 8633 // activation of pro-apoptotic gene products // inferred from electronic annotation /// 8634 // negative regulation of survival gene product activity // inferred from electronic annotation /// 9314 // response to radiation // inferred from electronic annotation /// 9405 // pathogenesis // inferred from electronic annotation /// 9405 // pathogenesis // traceable author statement /// 42127 // regulation of cell proliferation // inferred from electronic annotation /// 42981 // regulation of apoptosis // inferred from electronic annotation /// 50875 // cellular physiological process // inferred from electronic annotation 5634 // nucleus // inferred from electronic annotation /// 5634 // nucleus // traceable author statement /// 5819 // spindle // inferred from electronic annotation 3677 // DNA binding // inferred from direct assay /// 3677 // DNA binding // inferred from electronic annotation /// 3700 // transcription factor activity // inferred from electronic annotation /// 5515 // protein binding // inferred from electronic annotation ---
1376066_at 1.63 0.0457 625.56 383.67 AI103572 Ras homolog gene family, member E Arhe --- --- --- ---
1392999_at 1.62 0.0196 367.73 226.65 AA819279 Transcribed sequences --- --- --- --- ---
1368146_at 1.62 0.0267 165.04 101.85 U02553 dual specificity phosphatase 1 Dusp1 6470 // protein amino acid dephosphorylation // inferred from electronic annotation /// 6979 // response to oxidative stress // inferred from electronic annotation /// 7049 // cell cycle // inferred from electronic annotation /// 7242 // intracellular signaling cascade // inferred from direct assay /// 7242 // intracellular signaling cascade // inferred from electronic annotation --- 4721 // phosphoprotein phosphatase activity // inferred from electronic annotation /// 4725 // protein tyrosine phosphatase activity // inferred from electronic annotation /// 4726 // non-membrane spanning protein tyrosine phosphatase activity // inferred from electronic annotation /// 8138 // protein tyrosine/serine/threonine phosphatase activity // inferred from electronic annotation /// 16787 // hydrolase activity // inferred from electronic annotation /// 17017 // MAP kinase phosphatase activity // inferred from electronic annotation /// 17017 // MAP kinase phosphatase activity // traceable author statement ---
1390024_at 1.61 0.0422 83.81 52.10 AI237685 Similar to osteoclast inhibitory lectin --- --- --- --- ---
1387122_at 1.61 0.0331 1479.87 920.73 NM_012760 pleiomorphic adenoma gene-like 1 Plagl1 74 // regulation of cell cycle // inferred from electronic annotation /// 6355 // regulation of transcription, DNA-dependent // inferred from electronic annotation /// 6915 // apoptosis // inferred from electronic annotation /// 6917 // induction of apoptosis // inferred from electronic annotation /// 7050 // cell cycle arrest // inferred from electronic annotation 5634 // nucleus // inferred from electronic annotation 3676 // nucleic acid binding // inferred from electronic annotation /// 3677 // DNA binding // inferred from electronic annotation /// 8270 // zinc ion binding // inferred from electronic annotation ---
1378753_at 1.59 0.0329 120.74 75.80 AI638971 thiopurine methyltransferase Tpmt 6461 // protein complex assembly // inferred from electronic annotation 5886 // plasma membrane // inferred from electronic annotation /// 5923 // tight junction // inferred from electronic annotation /// 5923 // tight junction // non-traceable author statement /// 16020 // membrane // inferred from electronic annotation /// 16021 // integral to membrane // inferred from electronic annotation 5198 // structural molecule activity // inferred from electronic annotation /// 5515 // protein binding // inferred from electronic annotation ---
1376282_at 1.52 0.0331 102.08 67.07 BM392087 Transcribed locus --- --- --- --- ---
1393729_at 1.52 0.0348 181.90 119.80 BE112114 neuropilin (NRP) and tolloid (TLL)-like 2 (predicted) Neto2_predicted 6897 // endocytosis // inferred from electronic annotation 5905 // coated pit // inferred from electronic annotation /// 16021 // integral to membrane // inferred from electronic annotation 4872 // receptor activity // inferred from electronic annotation ---
1371091_at 1.51 0.0196 179.46 118.60 BE118080 unknown protein RGD:708546 --- --- --- ---
1368896_at 1.51 0.0381 80.44 53.30 NM_030858 MAD homolog 7 (Drosophila) Madh7 6355 // regulation of transcription, DNA-dependent // inferred from electronic annotation /// 7179 // transforming growth factor beta receptor signaling pathway // inferred from electronic annotation /// 7182 // common-partner SMAD protein phosphorylation // inferred from electronic annotation /// 7242 // intracellular signaling cascade // inferred from direct assay /// 7242 // intracellular signaling cascade // inferred from electronic annotation /// 16481 // negative regulation of transcription // inferred from electronic annotation /// 16481 // negative regulation of transcription // inferred from expression pattern /// 17015 // regulation of transforming growth factor beta receptor signaling pathway // inferred from direct assay /// 17015 // regulation of transforming growth factor beta receptor signaling pathway // inferred from electronic annotation 5622 // intracellular // inferred from electronic annotation --- TGF_Beta_Signaling_Pathway // GenMAPP
1385171_s_at 1.51 0.0331 427.68 283.35 BE115612 UI-R-BJ1-avw-h-10-0-UI.s1 UI-R-BJ1 Rattus norvegicus cDNA clone UI-R-BJ1-avw-h-10-0-UI 3', mRNA sequence. --- --- --- --- ---

Total number of rows: 318

Table truncated, full table size 159 Kbytes.




T-Test FDR 0.05 AV2 vs BV1, For gene expression comparisons, genes with expression values less than 100 or fold change less than 1.2 were excluded from further statistical analyses. A two-sample t-test using p-value cut-off of 0.05 with multiple test correction (Benjamini and Hochberg false discovery rate) was applied for each gene to determine if the gene were differentially expressed in the pair wise comparisons. Triplicate control and rapamycin samples from each cell line were used in these comparisons. header descriptions
Probe ID
Fold Change
FDR Adj. P-value
WB F344 Control expression
WB311 Control expression
Genbank
Gene Title
Gene Symbol
Gene Ontology Biological Process
Gene Ontology Cellular Component
Gene Ontology Molecular Function
Pathway

Data table
Probe ID Fold Change FDR Adj. P-value WB F344 Control expression WB311 Control expression Genbank Gene Title Gene Symbol Gene Ontology Biological Process Gene Ontology Cellular Component Gene Ontology Molecular Function Pathway
1368223_at 269.43 0.000425 2372.27 8.80 NM_024400 a disintegrin-like and metalloprotease (reprolysin type) with thrombospondin type 1 motif, 1 Adamts1 6508 // proteolysis and peptidolysis // inferred from electronic annotation /// 7229 // integrin-mediated signaling pathway // inferred from electronic annotation /// 8285 // negative regulation of cell proliferation // inferred from electronic annotation 5578 // extracellular matrix (sensu Metazoa) // inferred from electronic annotation /// 5886 // plasma membrane // inferred from electronic annotation /// 31012 // extracellular matrix // inferred from electronic annotation 4222 // metalloendopeptidase activity // inferred from electronic annotation /// 5178 // integrin binding // inferred from electronic annotation /// 8201 // heparin binding // inferred from electronic annotation /// 8237 // metallopeptidase activity // inferred from electronic annotation /// 8270 // zinc ion binding // inferred from electronic annotation /// 16787 // hydrolase activity // inferred from electronic annotation ---
1391345_at 182.49 0.000742 960.26 5.26 BI293047 Transcribed locus --- --- --- --- ---
1398350_at 165.16 0.000315 1695.51 10.27 BG380454 brain abundant, membrane attached signal protein 1 Basp1 6355 // regulation of transcription, DNA-dependent // inferred from electronic annotation 5634 // nucleus // inferred from electronic annotation /// 16020 // membrane // inferred from electronic annotation 3677 // DNA binding // inferred from electronic annotation /// 5516 // calmodulin binding // inferred from electronic annotation ---
1369085_s_at 157.99 0.000154 1662.81 10.52 NM_130738 small nuclear ribonucleoprotein N /// SNRPN upstream reading frame Snrpn /// Snurf --- 5634 // nucleus // inferred from electronic annotation /// 5634 // nucleus // inferred from expression pattern /// 5681 // spliceosome complex // inferred from electronic annotation /// 5732 // small nucleolar ribonucleoprotein complex // inferred from electronic annotation /// 19013 // viral nucleocapsid // inferred from electronic annotation /// 30529 // ribonucleoprotein complex // inferred from electronic annotation /// 30532 // small nuclear ribonucleoprotein complex // inferred from electronic annotation /// 30532 // small nuclear ribonucleoprotein complex // inferred from sequence or structural similarity 3723 // RNA binding // inferred from electronic annotation mRNA_processing_Reactome // GenMAPP
1369670_at 146.23 0.000677 1169.68 8.00 NM_031518 antigen identified by monoclonal antibody MRC OX-2 Mox2 --- 5615 // extracellular space // inferred from electronic annotation /// 5887 // integral to plasma membrane // inferred from electronic annotation /// 16021 // integral to membrane // inferred from electronic annotation --- ---
1386921_at 134.91 0.000154 979.72 7.26 NM_013128 carboxypeptidase E Cpe 6464 // protein modification // inferred from electronic annotation /// 6508 // proteolysis and peptidolysis // inferred from electronic annotation /// 7218 // neuropeptide signaling pathway // inferred from electronic annotation /// 8152 // metabolism // inferred from electronic annotation /// 16486 // peptide hormone processing // inferred from electronic annotation /// 16486 // peptide hormone processing // traceable author statement /// 30070 // insulin processing // inferred from electronic annotation 5615 // extracellular space // inferred from electronic annotation /// 5886 // plasma membrane // inferred from electronic annotation 4180 // carboxypeptidase activity // inferred from electronic annotation /// 4181 // metallocarboxypeptidase activity // inferred from electronic annotation /// 4182 // carboxypeptidase A activity // inferred from electronic annotation /// 4183 // carboxypeptidase E activity // inferred from electronic annotation /// 4183 // carboxypeptidase E activity // traceable author statement /// 8237 // metallopeptidase activity // inferred from electronic annotation /// 8270 // zinc ion binding // inferred from electronic annotation /// 16787 // hydrolase activity // inferred from electronic annotation ---
1368078_at 105.11 0.000838 637.60 6.07 NM_022604 endothelial cell-specific molecule 1 Esm1 1558 // regulation of cell growth // inferred from electronic annotation 5576 // extracellular region // inferred from electronic annotation /// 5615 // extracellular space // inferred from electronic annotation 5515 // protein binding // inferred from electronic annotation /// 5520 // insulin-like growth factor binding // inferred from electronic annotation /// 8083 // growth factor activity // inferred from electronic annotation ---
1393237_at 96.11 0.00129 483.96 5.04 AI577833 Transcribed locus, strongly similar to XP_573287.1 PREDICTED: similar to Ab2-093 [Rattus norvegicus] --- --- --- --- ---
1384240_at 95.08 0.000601 908.23 9.55 BI290306 angiotensin II receptor, type 1 (AT1A) Agtr1a 1658 // ureteric bud branching // inferred from electronic annotation /// 6885 // regulation of pH // inferred from direct assay /// 6885 // regulation of pH // inferred from electronic annotation /// 7186 // G-protein coupled receptor protein signaling pathway // inferred from electronic annotation /// 7200 // G-protein signaling, coupled to IP3 second messenger (phospholipase C activating) // inferred from direct assay /// 7200 // G-protein signaling, coupled to IP3 second messenger (phospholipase C activating) // inferred from electronic annotation /// 7588 // excretion // inferred from electronic annotation /// 8217 // regulation of blood pressure // inferred from electronic annotation 5768 // endosome // inferred from electronic annotation /// 5886 // plasma membrane // inferred from electronic annotation /// 16021 // integral to membrane // inferred from electronic annotation /// 16021 // integral to membrane // traceable author statement 1584 // rhodopsin-like receptor activity // inferred from electronic annotation /// 1596 // angiotensin type I receptor activity // inferred from direct assay /// 1596 // angiotensin type I receptor activity // inferred from electronic annotation /// 4872 // receptor activity // inferred from electronic annotation /// 4930 // G-protein coupled receptor activity // inferred from electronic annotation /// 4945 // angiotensin type II receptor activity // inferred from electronic annotation GPCRDB_Class_A_Rhodopsin-like // GenMAPP /// Peptide_GPCRs // GenMAPP
1392590_at 81.80 0.00129 581.90 7.11 BG377201 Rho GTPase activating protein 24 (predicted) Arhgap24_predicted --- --- 5096 // GTPase activator activity // inferred from electronic annotation ---
1389905_at 71.65 0.00138 746.76 10.42 AI175728 Peptidase D Pepd 6508 // proteolysis and peptidolysis // inferred from electronic annotation /// 30574 // collagen catabolism // inferred from electronic annotation --- 4251 // X-Pro dipeptidase activity // inferred from electronic annotation /// 8233 // peptidase activity // inferred from electronic annotation /// 8235 // metalloexopeptidase activity // inferred from electronic annotation /// 8237 // metallopeptidase activity // inferred from electronic annotation /// 16787 // hydrolase activity // inferred from electronic annotation /// 16805 // dipeptidase activity // inferred from electronic annotation /// 30145 // manganese ion binding // inferred from electronic annotation ---
1387951_at 68.81 0.0023 543.47 7.90 AB032395 decay accelarating factor 1 Daf1 6958 // complement activation, classical pathway // inferred from electronic annotation 5615 // extracellular space // inferred from electronic annotation /// 5625 // soluble fraction // inferred from electronic annotation /// 5887 // integral to plasma membrane // inferred from electronic annotation /// 16020 // membrane // inferred from electronic annotation /// 16021 // integral to membrane // inferred from electronic annotation 4857 // enzyme inhibitor activity // inferred from direct assay Complement_Activation_Classical // GenMAPP
1368869_at 68.78 0.00321 1450.62 21.09 BG663107 A kinase (PRKA) anchor protein (gravin) 12 Akap12 6605 // protein targeting // inferred from electronic annotation /// 7165 // signal transduction // inferred from direct assay /// 7165 // signal transduction // inferred from electronic annotation /// 7186 // G-protein coupled receptor protein signaling pathway // inferred from electronic annotation 5737 // cytoplasm // inferred from electronic annotation 5515 // protein binding // inferred from electronic annotation /// 8565 // protein transporter activity // inferred from electronic annotation /// 16301 // kinase activity // inferred from electronic annotation /// 30159 // receptor signaling complex scaffold activity // inferred from electronic annotation /// 51018 // protein kinase A binding // inferred from electronic annotation G_Protein_Signaling // GenMAPP
1386884_at 67.57 0.00106 883.36 13.07 NM_031721 protease, serine, 11 (Igf binding) Prss11 1558 // regulation of cell growth // inferred from electronic annotation /// 6508 // proteolysis and peptidolysis // inferred from electronic annotation /// 30512 // negative regulation of transforming growth factor beta receptor signaling pathway // inferred from electronic annotation /// 30514 // negative regulation of BMP signaling pathway // inferred from electronic annotation 5576 // extracellular region // inferred from electronic annotation /// 5615 // extracellular space // inferred from electronic annotation 4252 // serine-type endopeptidase activity // inferred from electronic annotation /// 4263 // chymotrypsin activity // inferred from electronic annotation /// 4295 // trypsin activity // inferred from electronic annotation /// 5515 // protein binding // inferred from electronic annotation /// 5520 // insulin-like growth factor binding // inferred from electronic annotation /// 8233 // peptidase activity // inferred from electronic annotation /// 16787 // hydrolase activity // inferred from electronic annotation /// 19838 // growth factor binding // inferred from electronic annotation ---
1370891_at 62.29 0.00212 419.04 6.73 X13016 CD48 antigen Cd48 45576 // mast cell activation // inferred from mutant phenotype 5615 // extracellular space // inferred from electronic annotation /// 5886 // plasma membrane // inferred from direct assay /// 5886 // plasma membrane // inferred from electronic annotation /// 46658 // anchored to plasma membrane // inferred from direct assay /// 46658 // anchored to plasma membrane // inferred from electronic annotation --- ---
1369664_at 60.23 0.000332 498.40 8.27 NM_053019 arginine vasopressin receptor 1A Avpr1a 6091 // generation of precursor metabolites and energy // inferred from electronic annotation /// 7186 // G-protein coupled receptor protein signaling pathway // inferred from electronic annotation /// 7202 // phospholipase C activation // inferred from electronic annotation /// 7204 // positive regulation of cytosolic calcium ion concentration // inferred from electronic annotation /// 8015 // circulation // inferred from electronic annotation 5768 // endosome // inferred from electronic annotation /// 5887 // integral to plasma membrane // inferred from electronic annotation /// 16021 // integral to membrane // inferred from electronic annotation 1584 // rhodopsin-like receptor activity // inferred from electronic annotation /// 4872 // receptor activity // inferred from electronic annotation /// 4930 // G-protein coupled receptor activity // inferred from electronic annotation /// 4990 // oxytocin receptor activity // inferred from electronic annotation /// 5000 // vasopressin receptor activity // inferred from electronic annotation /// 5080 // protein kinase C binding // inferred from electronic annotation GPCRDB_Class_A_Rhodopsin-like // GenMAPP /// Peptide_GPCRs // GenMAPP
1368080_at 52.48 0.000601 564.49 10.76 NM_054008 response gene to complement 32 Rgc32 79 // regulation of cyclin dependent protein kinase activity // inferred from electronic annotation /// 7049 // cell cycle // inferred from electronic annotation 5634 // nucleus // inferred from electronic annotation /// 5737 // cytoplasm // inferred from electronic annotation 5515 // protein binding // inferred from electronic annotation /// 30295 // protein kinase activator activity // inferred from electronic annotation ---
1373432_at 50.58 0.000777 444.34 8.79 BE111604 myristoylated alanine rich protein kinase C substrate Marcks 6928 // cell motility // inferred from electronic annotation 5886 // plasma membrane // inferred from electronic annotation /// 15629 // actin cytoskeleton // inferred from electronic annotation /// 16020 // membrane // inferred from electronic annotation 3779 // actin binding // inferred from electronic annotation /// 5516 // calmodulin binding // inferred from electronic annotation /// 16301 // kinase activity // inferred from electronic annotation /// 51015 // actin filament binding // inferred from electronic annotation ---
1370948_a_at 47.16 0.00582 262.80 5.57 M59859 myristoylated alanine rich protein kinase C substrate Marcks 6928 // cell motility // inferred from electronic annotation 5886 // plasma membrane // inferred from electronic annotation /// 15629 // actin cytoskeleton // inferred from electronic annotation /// 16020 // membrane // inferred from electronic annotation 3779 // actin binding // inferred from electronic annotation /// 5516 // calmodulin binding // inferred from electronic annotation /// 16301 // kinase activity // inferred from electronic annotation /// 51015 // actin filament binding // inferred from electronic annotation ---
1393119_at 43.84 0.0016 1175.12 26.81 BM388725 Transcribed locus --- --- --- --- ---

Total number of rows: 3551

Table truncated, full table size 1528 Kbytes.




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