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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Gene description Interaction Map Value Type Rank green Filtered Network Comparison Type red network_comparison
Results: HTML CSV LaTeX Showing element 1 to 50 of 19268 in total
Value Type  : Ranked
description
Interaction Map
Rank
green
Filtered
Network Comparison Type
red
network_comparison
1,4-alpha-glucan branching enzyme (ec 2.4.1.18) (glycogen branching enzyme) (brancher enzyme). [swissprot;acc:q04446] High confidence 18 245.247 1 Divided 185.678 1.32082
54 Subtracted 59.569
172 13895.8 0 15260.6 1364.8
242 Divided 1.09822
Low confidence 600 13590.3 Subtracted 13205.3 385
629 Divided 1.02915
4130 201.5 1 199.383 1.01062
4141 Subtracted 2.117
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] High confidence 1038 181.041 Divided 186.741 1.03148
1120 Subtracted 5.7
Low confidence 1328 194.038 Divided 198.342 1.02218
1408 Subtracted 4.304
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] High confidence 1032 180.943 Divided 186.664 1.03162
1115 Subtracted 5.721
Low confidence 1322 194.014 Divided 198.322 1.0222
1406 Subtracted 4.308
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] High confidence 1048 182.308 Divided 187.96 1.031
1128 Subtracted 5.652
Low confidence 588 185.859 Divided 191.507 1.03039
664 Subtracted 5.648
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] High confidence 1043 182.137 Divided 187.834 1.03128
1121 Subtracted 5.697
Low confidence 637 186.751 Divided 192.166 1.029
737 Subtracted 5.415
1-aminocyclopropane-1-carboxylate synthase. [refseq;acc:nm_032592] 3423 196.707 Divided 199.702 1.01523
3432 Subtracted 2.995
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] High confidence 3126 0 0 0
0.00001 Divided 0.00001 1
Low confidence 3567 199.628 Subtracted 202.517 2.889
3585 Divided 1.01447
10 kda heat shock protein, mitochondrial (hsp10) (10 kda chaperonin) (cpn10). [swissprot;acc:q04984] High confidence 1933 213.703 Subtracted 211.633 2.07
1963 Divided 1.00978
Low confidence 2659 196.574 200.053 1.0177
2668 Subtracted 3.479
10-formyltetrahydrofolate dehydrogenase (ec 1.5.1.6) (10-fthfdh). [swissprot;acc:o75891] High confidence 2922 0 0 0
0.00001 Divided 0.00001 1
Low confidence 1795 199.455 Subtracted 203.414 3.959
1873 Divided 1.01985
130 kda leucine-rich protein (lrp 130) (gp130) (leucine-rich ppr-motif containing protein). [swissprot;acc:p42704] 4255 200.395 202.306 1.00954
4263 Subtracted 1.911
14-3-3 protein beta/alpha (protein kinase c inhibitor protein-1) (kcip-1) (protein 1054). [swissprot;acc:p31946] High confidence 2421 221.425 220.681 0.744
2439 Divided 1.00337
Low confidence 2076 194.83 198.587 1.01928
2165 Subtracted 3.757
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] High confidence 3088 0 0 0
0.00001 Divided 0.00001 1
Low confidence 2864 197.043 200.418 1.01713
2895 Subtracted 3.375
14-3-3 protein zeta/delta (protein kinase c inhibitor protein-1) (kcip-1) (factor activating exoenzyme s) (fas). [swissprot;acc:p29312] High confidence 2391 221.51 220.683 0.827
2396 Divided 1.00375

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/