SPEED: (S)ignaling (P)athway (E)nrichment using (E)xperimental (D)atasets

 Home   Run SPEED   Download Annotations   Database Statistics   Suggest Pathways   Help 

The SPEED database stores z-score normalized microarray data from perturbation experiments for specific signaling pathways. All microarray data is downloaded from the Gene Expression Omnibus (GEO) at NCBI. The GEO series for the perturbation experiments are noted per pathway.


Number of Genes: 21485
Number of Measurements: 5896213
TLR Experiments: 39
GSE3720, GSE1541, GSE15219, GSE510316, GSE2706, GSE7850, GSE53982, GSE16650, GSE518047, GSE3491, GSE5504, GSE4748, GSE15038, GSE8608, GSE9988, GSE5883
TGFB Experiments: 38
GSE10847, GSE1724, GSE14491, GSE13837, GSE1805, GSE1802, GSE8730, GSE5457
H2O2 Experiments: 2
GSE5339
MAPK_only Experiments: 4
GSE6521, GSE3542, GSE14934
IL-1 Experiments: 6
GSE9120, GSE973, GSE8515
MAPK_PI3K Experiments: 39
GSE6521, GSE6783, GSE13009, GSE11729, GSE8471, GSE6784, GSE3542, GSE7403, GSE14934, GSE6462, GSE14256, GSE10778
VEGF Experiments: 25
GSE18913, GSE11228, GSE3891, GSE18195, GSE837, GSE17777, GSE15464, GSE10778
PI3K_only Experiments: 11
GSE3737, GSE6521, GSE7403, GSE14934, GSE7562
Wnt Experiments: 6
GSE11916, GSE1473, GSE14107, GSE16186, GSE17385
JAK-STAT Experiments: 14
GSE1925, GSE8059, GSE8687, GSE19082, GSE440, GSE10685, GSE1432, GSE3183
TNFa Experiments: 31
GSE1474, GSE9055, GSE11467, GSE13837, GSE516, GSE2624, GSE8166, GSE2489




VEGF Data Details

GSE10778d
Cell Line:HUVEC (human umbilical vein endothelial cells)
Modification:treatment with 100ng VEGF
Time:30 min
Control Samples: GSM272122
Experimental Samples: GSM272123

GSE10778e
Cell Line:HUVEC (human umbilical vein endothelial cells)
Modification:treatment with 100ng VEGF
Time:1 h
Control Samples: GSM272122
Experimental Samples: GSM272124

GSE10778f
Cell Line:HUVEC (human umbilical vein endothelial cells)
Modification:treatment with 100ng VEGF
Time:2.5 h
Control Samples: GSM272122
Experimental Samples: GSM272125

GSE11228a
Cell Line:LEC (Human dermal lymphatic endothelial cells)
Modification:treatment with VEGF-A165 (20ng/ml)
Time:1 h
Control Samples: GSM283080, GSM283081, GSM283082
Experimental Samples: GSM283083, GSM283084, GSM283085

GSE11228b
Cell Line:LEC (Human dermal lymphatic endothelial cells)
Modification:treatment with VEGF-A165 (20 ng/ml)
Time:4 h
Control Samples: GSM283080, GSM283081, GSM283082
Experimental Samples: GSM283086, GSM283087, GSM283088

GSE11228c
Cell Line:LEC (Human dermal lymphatic endothelial cells)
Modification:treatment with VEGF-C (500 ng/ml)
Time:1 h
Control Samples: GSM283080, GSM283081, GSM283082
Experimental Samples: GSM283095, GSM283096, GSM283097

GSE11228d
Cell Line:LEC (Human dermal lymphatic endothelial cells)
Modification:treatment with VEGF-C (500 ng/ml)
Time:4 h
Control Samples: GSM283080, GSM283081, GSM283082
Experimental Samples: GSM283098, GSM283099, GSM283100

GSE15464a
Cell Line:HUVEC (human umbilical cord vein endothelial cells)
Modification:VEGF treatment (starved and then 100ng/ml VEGF-A)
Time:30 min
Control Samples: GSM385333
Experimental Samples: GSM385338

GSE15464b
Cell Line:HUVEC (human umbilical cord vein endothelial cells)
Modification:VEGF treatment (starved and then 100ng/ml VEGF-A)
Time:1 h
Control Samples: GSM385333
Experimental Samples: GSM385350

GSE15464c
Cell Line:HUVEC (human umbilical cord vein endothelial cells)
Modification:VEGF treatment (starved and then 100ng/ml VEGF-A)
Time:2.5 h
Control Samples: GSM385333
Experimental Samples: GSM385353

GSE17777
Cell Line:HMVEC (dermal human microvascular endothelial cells)
Modification:treatment with 100pg/ml VEGF
Time:4 h
Control Samples: GSM443878
Experimental Samples: GSM443879

GSE18195
Cell Line:Hec50co cells (human endometrial cancer derived cell line)
Modification:treatment with evacizumab (avastin) EGFR antibody
Time:not specified
Control Samples: GSM454881, GSM454882
Experimental Samples: GSM454883, GSM454884

GSE18913a
Cell Line:HUVEC umbilical vein endothelial cells
Modification:treated with VEGF
Time:1 h
Control Samples: GSM468603, GSM468604, GSM468621
Experimental Samples: GSM468609, GSM468610, GSM468622

GSE18913b
Cell Line:HUVEC umbilical vein endothelial cells
Modification:treated with VEGF
Time:4 h
Control Samples: GSM468603, GSM468604, GSM468621
Experimental Samples: GSM468615, GSM468616, GSM468623

GSE3891a
Cell Line:HMVEC (Human microvascular endothelial cells)
Modification:VEGF treatment
Time:30 min
Control Samples: GSM88897
Experimental Samples: GSM88898

GSE3891b
Cell Line:HMVEC (Human microvascular endothelial cells)
Modification:VEGF treatment
Time:1 h
Control Samples: GSM88897
Experimental Samples: GSM88899

GSE3891c
Cell Line:HMVEC (Human microvascular endothelial cells)
Modification:VEGF treatment
Time:2 h
Control Samples: GSM88897
Experimental Samples: GSM88900

GSE3891d
Cell Line:HMVEC (Human microvascular endothelial cells)
Modification:VEGF treatment
Time:4 h
Control Samples: GSM88897
Experimental Samples: GSM88901

GSE3891e
Cell Line:HMVEC (Human microvascular endothelial cells)
Modification:VEGF treatment
Time:30 min
Control Samples: GSM88907
Experimental Samples: GSM88908

GSE3891f
Cell Line:HMVEC (Human microvascular endothelial cells)
Modification:VEGF treatment
Time:1 h
Control Samples: GSM88907
Experimental Samples: GSM88909

GSE3891g
Cell Line:HMVEC (Human microvascular endothelial cells)
Modification:VEGF treatment
Time:2 h
Control Samples: GSM88907
Experimental Samples: GSM88910

GSE3891h
Cell Line:HMVEC (Human microvascular endothelial cells)
Modification:VEGF treatment
Time:4 h
Control Samples: GSM88907
Experimental Samples: GSM88911

GSE837a
Cell Line:HUVEC (human umbilical cord vein endothelial cells)
Modification:VEGF treatment
Time:4 h
Control Samples: GSM12900
Experimental Samples: GSM12901

GSE837b
Cell Line:HUVEC (human umbilical cord vein endothelial cells)
Modification:VEGF treatment
Time:4 h
Control Samples: GSM12902
Experimental Samples: GSM12903

GSE837c
Cell Line:HUVEC (human umbilical cord vein endothelial cells)
Modification:VEGF treatment
Time:4 h
Control Samples: GSM12904
Experimental Samples: GSM12905