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 green Rank Gene Value Type Filtered Interaction Map network_comparison red Network Comparison Type
Results: HTML CSV LaTeX Showing element 1 to 50 of 38536 in total
Network Comparison Type  : Divided
description
green
Rank
Value Type
Filtered
Interaction Map
network_comparison
red
1,4-alpha-glucan branching enzyme (ec 2.4.1.18) (glycogen branching enzyme) (brancher enzyme). [swissprot;acc:q04446] 17.0804 537 Rooted 0 Low confidence 1.04801 16.298
18.0183 53 High confidence 1.5213 11.844
47.2654 64 1 1.35128 63.8686
72.6287 4914 Low confidence 1.00944 71.9496
201.5 4130 Ranked 1.01062 199.383
245.247 18 High confidence 1.32082 185.678
851.77 131 Measured 0 Low confidence 1.31954 645.504
934.348 37 High confidence 2.79409 334.401
1034.13 Squared 10.2338 101.05
1268.51 146 Low confidence 1.63527 775.72
2765.82 60 Measured 1 High confidence 1.6231 4489.19
6768.05 245 Squared 1.31131 8875.01
7900.54 4914 Measured Low confidence 1.00597 7853.62
13590.3 629 Ranked 0 1.02915 13205.3
13895.8 242 High confidence 1.09822 15260.6
41688.5 1119 Squared 1 Low confidence 1.04654 43628.5
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] 76.3375 1092 Rooted 1.0386 73.5001
79.1513 805 High confidence 1.0645 74.3557
181.041 1038 Ranked 1.03148 186.741
194.038 1328 Low confidence 1.02218 198.342
8585.64 885 Measured 1.03993 8255.95
8630.06 509 High confidence 1.14278 7551.8
39351.7 295 Squared 1.27733 30807.7
45736 4562 Low confidence 1.01928 46617.7
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] 76.3467 1084 Rooted 1.03863 73.5068
79.1931 804 High confidence 1.0646 74.3877
180.943 1032 Ranked 1.03162 186.664
194.014 1322 Low confidence 1.0222 198.322
8587.03 880 Measured 1.04001 8256.68
8636.87 508 High confidence 1.14293 7556.75
39383.9 294 Squared 1.2776 30826.5
45740.5 4569 Low confidence 1.01914 46616.1
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] 78.5795 822 Rooted High confidence 1.06393 73.8577
79.5804 378 Low confidence 1.04871 75.8843
182.308 1048 Ranked High confidence 1.031 187.96
185.859 588 Low confidence 1.03039 191.507
8532.02 514 Measured High confidence 1.1411 7477
9081.29 237 Low confidence 1.06457 8530.51
38866.5 311 Squared High confidence 1.27154 30566.4
47372.8 4138 Low confidence 1.02676 46138.2
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] 78.6514 811 Rooted High confidence 1.06415 73.9102
79.1997 427 Low confidence 1.04731 75.6219
182.137 1043 Ranked High confidence 1.03128 187.834
186.751 637 Low confidence 1.029 192.166
8543.66 513 Measured High confidence 1.14143 7485.08
9018.94 252 Low confidence 1.06194 8492.92
38919.9 308 Squared High confidence 1.27205 30596.2
47088.3 4418 Low confidence 1.02256 46049.4
1-aminocyclopropane-1-carboxylate synthase. [refseq;acc:nm_032592] 74.9741 2766 Rooted 1.03282 72.5914
196.707 3423 Ranked 1.01523 199.702

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/