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.


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Value Type description Filtered green Interaction Map network_comparison red Gene Network Comparison Type Rank
Results: HTML CSV LaTeX Showing element 1 to 50 of 77072 in total
Value Type  : Measured
description
Filtered
green
Interaction Map
network_comparison
red
Network Comparison Type
Rank
1,4-alpha-glucan branching enzyme (ec 2.4.1.18) (glycogen branching enzyme) (brancher enzyme). [swissprot;acc:q04446] 0 851.77 Low confidence 1.31954 645.504 Divided 131
206.266 Subtracted 273
934.348 High confidence 2.79409 334.401 Divided 37
599.947 Subtracted 45
1 2765.82 1.6231 4489.19 Divided 60
1723.37 Subtracted 164
7900.54 Low confidence 1.00597 7853.62 Divided 4914
46.92 Subtracted 4909
1-acyl-sn-glycerol-3-phosphate acyltransferase alpha (ec 2.3.1.51) (1- agp acyltransferase 1) (1-agpat 1) (lysophosphatidic acid acyltransferase-alpha) (lpaat-alpha) (1-acylglycerol-3-phosphate o- acyltransferase 1) (g15 protein). [swissprot;acc:q99943] 8585.64 1.03993 8255.95 Divided 885
329.69 Subtracted 780
8630.06 High confidence 1.14278 7551.8 Divided 509
1078.26 Subtracted 310
1-acyl-sn-glycerol-3-phosphate acyltransferase beta (ec 2.3.1.51) (1- agp acyltransferase 2) (1-agpat 2) (lysophosphatidic acid acyltransferase-beta) (lpaat-beta) (1-acylglycerol-3-phosphate o- acyltransferase 2). [swissprot;acc:o15120] 8587.03 Low confidence 1.04001 8256.68 Divided 880
330.35 Subtracted 773
8636.87 High confidence 1.14293 7556.75 Divided 508
1080.12 Subtracted 307
1-acyl-sn-glycerol-3-phosphate acyltransferase delta (ec 2.3.1.51) (1- agp acyltransferase 4) (1-agpat 4) (lysophosphatidic acid acyltransferase-delta) (lpaat-delta) (1-acylglycerol-3-phosphate o- acyltransferase 4). [swissprot;acc:q9nrz5] 8532.02 1.1411 7477 Divided 514
1055.02 Subtracted 319
9081.29 Low confidence 1.06457 8530.51 Divided 237
550.78 Subtracted 210
1-acyl-sn-glycerol-3-phosphate acyltransferase gamma (ec 2.3.1.51) (1- agp acyltransferase 3) (1-agpat 3) (lysophosphatidic acid acyltransferase-gamma) (lpaat-gamma) (1-acylglycerol-3-phosphate o- acyltransferase 3). [swissprot;acc:q9nrz7] 8543.66 High confidence 1.14143 7485.08 Divided 513
1058.58 Subtracted 318
9018.94 Low confidence 1.06194 8492.92 Divided 252
526.02 Subtracted 230
1-aminocyclopropane-1-carboxylate synthase. [refseq;acc:nm_032592] 8323.04 1.03199 8065.05 Divided 2035
257.99 Subtracted 1941
1-phosphatidylinositol-4,5-bisphosphate phosphodiesterase beta 4 (ec 3.1.4.11) (phosphoinositide phospholipase c) (plc-beta-4) (phospholipase c-beta-4). [swissprot;acc:q15147] 0 High confidence 0 0 3126
0.00001 1 0.00001 Divided
8175.27 Low confidence 1.02859 7948.01 2882
227.26 Subtracted 2902
10 kda heat shock protein, mitochondrial (hsp10) (10 kda chaperonin) (cpn10). [swissprot;acc:q04984] 6303.92 High confidence 1.08864 5790.65 Divided 1136
513.27 Subtracted 1140
8386.58 Low confidence 1.03148 8130.62 Divided 2182
255.96 Subtracted 2020
10-formyltetrahydrofolate dehydrogenase (ec 1.5.1.6) (10-fthfdh). [swissprot;acc:o75891] 0 High confidence 0 0 2922
0.00001 1 0.00001 Divided
8246.34 Low confidence 1.03323 7981.12 1693
265.22 Subtracted 1700
130 kda leucine-rich protein (lrp 130) (gp130) (leucine-rich ppr-motif containing protein). [swissprot;acc:p42704] 8067.47 1.02166 7896.47 Divided 4071
171 Subtracted 4228
14-3-3 protein beta/alpha (protein kinase c inhibitor protein-1) (kcip-1) (protein 1054). [swissprot;acc:p31946] 6262.07 High confidence 1.07743 5812.02 Divided 1411
450.05 Subtracted 1422
8965.49 Low confidence 1.04579 8572.9 Divided 575
392.59 Subtracted 490
14-3-3 protein epsilon (mitochondrial import stimulation factor l subunit) (protein kinase c inhibitor protein-1) (kcip-1) (14-3-3e). [swissprot;acc:p42655] 0 High confidence 0 0 3088
0.00001 1 0.00001 Divided
8370.12 Low confidence 1.02772 8144.39 3095
225.73 Subtracted 2941
14-3-3 protein zeta/delta (protein kinase c inhibitor protein-1) (kcip-1) (factor activating exoenzyme s) (fas). [swissprot;acc:p29312] 6265.44 High confidence 1.0774 5815.33 Divided 1415
450.11 Subtracted 1418

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/