Scientific

MK5 Microarray Data

Affected Genes - Ontology Breakdown - Gene Enrichment - Proteome Analysis

These are the micro-array results of a differential gene expression microarray experiments and the subsequent analysis steps performed on them. The up/down- regulation ratio was obtained by measuring WT cells against MK5 activated cells. See material and methods for technical information as well as the data usage policy.

MK5 Proteome Analysis

Table 3: Type II network, divided ranks. This table presents the output of the simulation of a type-II network in which we relied on the high confidence interactions and micro-array results. The output of the micro-array was then ranked and these ranks used as input into the network simulation. After performing two such simulations (one for the MK5 off and one for the MK5 on microarray output), we divided the ranks and sorted the results accordingly. The output of this technique is a collection of proteins that cluster naturally together.


Navigation/Query Panel:
Click on the attribute name to hide/unhide it. The green arrows can be used to shift columns left/right. Exact word match is written as =..., regular expressions can be matched with ~.... To select all values larger or equal than use >.... This would be <... for values smaller or equal than. To select all values within a specific range use [...,...].
description Rank Gene Value Type Network Comparison Type Interaction Map Filtered red green network_comparison
Results: HTML CSV LaTeX Showing element 2630 to 2679 of 7460 in total
Value Type  : Ranked
Interaction Map  : High confidence
description
Rank
Network Comparison Type
Filtered
red
green
network_comparison
glutaryl-coa dehydrogenase, mitochondrial precursor (ec 1.3.99.7) (gcd). [swissprot;acc:q92947] 2167 Divided 1 215.925 214.481 1.00673
glutathione reductase, mitochondrial precursor (ec 1.8.1.7) (gr) (grase). [swissprot;acc:p00390] 1299 Subtracted 207.387 212.275 4.888
1304 Divided 1.02357
glutathione s-transferase p (ec 2.5.1.18) (gst class-pi) (gstp1-1). [swissprot;acc:p09211] 1658 Subtracted 218.654 221.732 3.078
1677 Divided 1.01408
glutathione s-transferase theta 1 (ec 2.5.1.18) (gst class-theta) (glutathione transferase t1-1). [swissprot;acc:p30711] 1294 Subtracted 228.646 223.744 4.902
1371 Divided 1.02191
glutathione s-transferase theta 2 (ec 2.5.1.18) (gst class-theta). [swissprot;acc:p30712] 43 0 12143.8 8356.02 1.4533
51 Subtracted 3787.78
1284 1 228.642 223.726 4.916
1359 Divided 1.02197
glutathione transferase omega 1 (ec 2.5.1.18) (gsto 1-1). [swissprot;acc:p78417] 183 Subtracted 227.357 254.15 26.793
239 Divided 1.11785
glyceraldehyde 3-phosphate dehydrogenase, liver (ec 1.2.1.12) (gapdh). [swissprot;acc:p04406] 2337 Subtracted 217.057 218.03 0.973
2348 Divided 1.00448
glycerol kinase (ec 2.7.1.30) (atp:glycerol 3-phosphotransferase) (glycerokinase) (gk). [swissprot;acc:p32189] 349 Subtracted 0 16699.2 17267.9 568.7
398 Divided 1.03406
2549 1 206.902 206.519 1.00185
2550 Subtracted 0.383
glycerol kinase, testis specific 1 (ec 2.7.1.30) (atp:glycerol 3- phosphotransferase) (glycerokinase) (gk). [swissprot;acc:q14409] 350 0 16703.1 17271.4 568.3
399 Divided 1.03402
2548 1 206.899 206.516 1.00185
2549 Subtracted 0.383
glycerol kinase, testis specific 2 (ec 2.7.1.30) (atp:glycerol 3- phosphotransferase) (glycerokinase) (gk). [swissprot;acc:q14410] 351 0 16711 17278.4 567.4
400 Divided 1.03395
2547 1 206.894 206.51 1.00186
2548 Subtracted 0.384
glycerol-3-phosphate acyltransferase, mitochondrial precursor (ec 2.3.1.15) (gpat). [swissprot;acc:q9hcl2] 3033 Divided 0.00001 0.00001 1
Subtracted 0 0 0
glycerol-3-phosphate dehydrogenase [nad+], cytoplasmic (ec 1.1.1.8) (gpd-c) (gpdh-c). [swissprot;acc:p21695] 2662 214.575 214.354 0.221
2669 Divided 1.00103
glycerol-3-phosphate dehydrogenase, mitochondrial precursor (ec 1.1.99.5) (gpd-m) (gpdh-m). [swissprot;acc:p43304] 2534 208 207.555 1.00214
Subtracted 0.445
glycerol-3-phosphate transporter (g-3-p transporter) (g-3-p permease). [swissprot;acc:p57057] 1296 Divided 209.062 204.174 1.02394
1298 Subtracted 4.888
glycine cleavage system h protein, mitochondrial precursor. [swissprot;acc:p23434] 310 Divided 0 9328.78 8741.55 1.06718
344 Subtracted 587.23
2343 Divided 1 212.222 211.27 1.00451
2345 Subtracted 0.952
glycine dehydrogenase [decarboxylating], mitochondrial precursor (ec 1.4.4.2) (glycine decarboxylase) (glycine cleavage system p- protein). [swissprot;acc:p23378] 366 Divided 0 8614.89 9017.27 1.04671
384 Subtracted 402.38
2448 Divided 1 212.446 211.766 1.00321
2453 Subtracted 0.68
glycine receptor alpha-1 chain precursor (glycine receptor 48 kda subunit) (strychnine binding subunit). [swissprot;acc:p23415] 2919 Divided 0.00001 0.00001 1
Subtracted 0 0 0
glycine receptor alpha-2 chain precursor. [swissprot;acc:p23416] 3121 Divided 0.00001 0.00001 1
Subtracted 0 0 0
glycine receptor alpha-3 chain precursor. [swissprot;acc:o75311] 59 0 9418.7 12695.6 3276.9
62 Divided 1.34791
2920 1 0.00001 0.00001 1

Legend:
- Rank is the rank after comparing the two networks
- Gene is the ensembl human gene identifier measured by 1 or more probes on the microarray
- Value Type describes how the microarray measurement was processed. Ranked indicates that we sorted all measurements and use the rank as red and green value. Measured is the normal measurement. Squared and Rooted are the square and square root respecitcely. This might be valueable to compensate for non linear light distributions.
- Network Comparison Type describes whether we divided the red and green types or whether we sutractcted them
- Interaction Map specifies whether we used only the hig hconfidence protein-protein interactions or also included the low confidence interactions.
- Filtered specifies whether we only included the high confidence microarry measurements or not.
- http://analysis.yellowcouch.org/