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 [...,...].
Gene description Rank Value Type Network Comparison Type Filtered red Interaction Map green network_comparison
Results: HTML CSV LaTeX Showing element 1 to 50 of 19268 in total
Value Type  : Ranked
description
Rank
Network Comparison Type
Filtered
red
Interaction Map
green
network_comparison
1,4-alpha-glucan branching enzyme (ec 2.4.1.18) (glycogen branching enzyme) (brancher enzyme). [swissprot;acc:q04446] 18 Divided 1 185.678 High confidence 245.247 1.32082
54 Subtracted 59.569
172 0 15260.6 13895.8 1364.8
242 Divided 1.09822
600 Subtracted 13205.3 Low confidence 13590.3 385
629 Divided 1.02915
4130 1 199.383 201.5 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] 1038 Divided 186.741 High confidence 181.041 1.03148
1120 Subtracted 5.7
1328 Divided 198.342 Low confidence 194.038 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] 1032 Divided 186.664 High confidence 180.943 1.03162
1115 Subtracted 5.721
1322 Divided 198.322 Low confidence 194.014 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] 588 Divided 191.507 185.859 1.03039
664 Subtracted 5.648
1048 Divided 187.96 High confidence 182.308 1.031
1128 Subtracted 5.652
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] 637 Divided 192.166 Low confidence 186.751 1.029
737 Subtracted 5.415
1043 Divided 187.834 High confidence 182.137 1.03128
1121 Subtracted 5.697
1-aminocyclopropane-1-carboxylate synthase. [refseq;acc:nm_032592] 3423 Divided 199.702 Low confidence 196.707 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] 3126 Divided 0.00001 High confidence 0.00001 1
Subtracted 0 0 0
3567 202.517 Low confidence 199.628 2.889
3585 Divided 1.01447
10 kda heat shock protein, mitochondrial (hsp10) (10 kda chaperonin) (cpn10). [swissprot;acc:q04984] 1933 Subtracted 211.633 High confidence 213.703 2.07
1963 Divided 1.00978
2659 200.053 Low confidence 196.574 1.0177
2668 Subtracted 3.479
10-formyltetrahydrofolate dehydrogenase (ec 1.5.1.6) (10-fthfdh). [swissprot;acc:o75891] 1795 203.414 199.455 3.959
1873 Divided 1.01985
2922 0.00001 High confidence 0.00001 1
Subtracted 0 0 0
130 kda leucine-rich protein (lrp 130) (gp130) (leucine-rich ppr-motif containing protein). [swissprot;acc:p42704] 4255 Divided 202.306 Low confidence 200.395 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] 2076 Divided 198.587 194.83 1.01928
2165 Subtracted 3.757
2421 220.681 High confidence 221.425 0.744
2439 Divided 1.00337
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] 2864 200.418 Low confidence 197.043 1.01713
2895 Subtracted 3.375
3088 Divided 0.00001 High confidence 0.00001 1
Subtracted 0 0 0
14-3-3 protein zeta/delta (protein kinase c inhibitor protein-1) (kcip-1) (factor activating exoenzyme s) (fas). [swissprot;acc:p29312] 2108 Divided 198.65 Low confidence 194.902 1.01923
2185 Subtracted 3.748

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/