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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description Gene Rank Filtered Interaction Map Value Type Network Comparison Type green red network_comparison
Results: HTML CSV LaTeX Showing element 1 to 50 of 19268 in total
Value Type  : Measured
description
Rank
Filtered
Interaction Map
Network Comparison Type
green
red
network_comparison
1,4-alpha-glucan branching enzyme (ec 2.4.1.18) (glycogen branching enzyme) (brancher enzyme). [swissprot;acc:q04446] 37 0 High confidence Divided 934.348 334.401 2.79409
45 Subtracted 599.947
60 1 Divided 2765.82 4489.19 1.6231
131 0 Low confidence 851.77 645.504 1.31954
164 1 High confidence Subtracted 2765.82 4489.19 1723.37
273 0 Low confidence 851.77 645.504 206.266
4909 1 7900.54 7853.62 46.92
4914 Divided 1.00597
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] 310 High confidence Subtracted 8630.06 7551.8 1078.26
509 Divided 1.14278
780 Low confidence Subtracted 8585.64 8255.95 329.69
885 Divided 1.03993
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] 307 High confidence Subtracted 8636.87 7556.75 1080.12
508 Divided 1.14293
773 Low confidence Subtracted 8587.03 8256.68 330.35
880 Divided 1.04001
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] 210 Subtracted 9081.29 8530.51 550.78
237 Divided 1.06457
319 High confidence Subtracted 8532.02 7477 1055.02
514 Divided 1.1411
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] 230 Low confidence Subtracted 9018.94 8492.92 526.02
252 Divided 1.06194
318 High confidence Subtracted 8543.66 7485.08 1058.58
513 Divided 1.14143
1-aminocyclopropane-1-carboxylate synthase. [refseq;acc:nm_032592] 1941 Low confidence Subtracted 8323.04 8065.05 257.99
2035 Divided 1.03199
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] 2882 8175.27 7948.01 1.02859
2902 Subtracted 227.26
3126 High confidence Divided 0.00001 0.00001 1
Subtracted 0 0 0
10 kda heat shock protein, mitochondrial (hsp10) (10 kda chaperonin) (cpn10). [swissprot;acc:q04984] 1136 Divided 6303.92 5790.65 1.08864
1140 Subtracted 513.27
2020 Low confidence 8386.58 8130.62 255.96
2182 Divided 1.03148
10-formyltetrahydrofolate dehydrogenase (ec 1.5.1.6) (10-fthfdh). [swissprot;acc:o75891] 1693 8246.34 7981.12 1.03323
1700 Subtracted 265.22
2922 High confidence Divided 0.00001 0.00001 1
Subtracted 0 0 0
130 kda leucine-rich protein (lrp 130) (gp130) (leucine-rich ppr-motif containing protein). [swissprot;acc:p42704] 4071 Low confidence Divided 8067.47 7896.47 1.02166
4228 Subtracted 171
14-3-3 protein beta/alpha (protein kinase c inhibitor protein-1) (kcip-1) (protein 1054). [swissprot;acc:p31946] 490 8965.49 8572.9 392.59
575 Divided 1.04579
1411 High confidence 6262.07 5812.02 1.07743
1422 Subtracted 450.05
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] 2941 Low confidence 8370.12 8144.39 225.73
3088 High confidence Divided 0.00001 0.00001 1
Subtracted 0 0 0
3095 Low confidence Divided 8370.12 8144.39 1.02772
14-3-3 protein zeta/delta (protein kinase c inhibitor protein-1) (kcip-1) (factor activating exoenzyme s) (fas). [swissprot;acc:p29312] 498 Subtracted 8956.98 8566.17 390.81
591 Divided 1.04562

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/