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 Value Type description Network Comparison Type Filtered green Rank Interaction Map red network_comparison
Results: HTML CSV LaTeX Showing element 1 to 50 of 38536 in total
Value Type  : Measured
Network Comparison Type  : Divided
description
Filtered
green
Rank
Interaction Map
red
network_comparison
1,4-alpha-glucan branching enzyme (ec 2.4.1.18) (glycogen branching enzyme) (brancher enzyme). [swissprot;acc:q04446] 0 851.77 131 Low confidence 645.504 1.31954
934.348 37 High confidence 334.401 2.79409
1 2765.82 60 4489.19 1.6231
7900.54 4914 Low confidence 7853.62 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] 8585.64 885 8255.95 1.03993
8630.06 509 High confidence 7551.8 1.14278
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] 8587.03 880 Low confidence 8256.68 1.04001
8636.87 508 High confidence 7556.75 1.14293
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] 8532.02 514 7477 1.1411
9081.29 237 Low confidence 8530.51 1.06457
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] 8543.66 513 High confidence 7485.08 1.14143
9018.94 252 Low confidence 8492.92 1.06194
1-aminocyclopropane-1-carboxylate synthase. [refseq;acc:nm_032592] 8323.04 2035 8065.05 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] 0.00001 3126 High confidence 0.00001 1
8175.27 2882 Low confidence 7948.01 1.02859
10 kda heat shock protein, mitochondrial (hsp10) (10 kda chaperonin) (cpn10). [swissprot;acc:q04984] 6303.92 1136 High confidence 5790.65 1.08864
8386.58 2182 Low confidence 8130.62 1.03148
10-formyltetrahydrofolate dehydrogenase (ec 1.5.1.6) (10-fthfdh). [swissprot;acc:o75891] 0.00001 2922 High confidence 0.00001 1
8246.34 1693 Low confidence 7981.12 1.03323
130 kda leucine-rich protein (lrp 130) (gp130) (leucine-rich ppr-motif containing protein). [swissprot;acc:p42704] 8067.47 4071 7896.47 1.02166
14-3-3 protein beta/alpha (protein kinase c inhibitor protein-1) (kcip-1) (protein 1054). [swissprot;acc:p31946] 6262.07 1411 High confidence 5812.02 1.07743
8965.49 575 Low confidence 8572.9 1.04579
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] 0.00001 3088 High confidence 0.00001 1
8370.12 3095 Low confidence 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] 6265.44 1415 High confidence 5815.33 1.0774
8956.98 591 Low confidence 8566.17 1.04562
14.5 kda translational inhibitor protein (p14.5) (uk114 antigen homolog). [swissprot;acc:p52758] 6788.96 1600 High confidence 6336.22 1.07145
8288.57 993 Low confidence 7982.87 1.03829
15 kda selenoprotein precursor. [swissprot;acc:o60613] 6933.36 1043 High confidence 6344.41 1.09283
8083.96 3577 Low confidence 7881.96 1.02563
15-hydroxyprostaglandin dehydrogenase [nad(+)] (ec 1.1.1.141) (pgdh). [swissprot;acc:p15428] 0.00001 2855 High confidence 0.00001 1
8425.81 2067 Low confidence 8165.8 1.03184
16.7kd protein. [refseq;acc:nm_016139] 8483.17 4005 8297.71 1.02235
17 beta-hydroxysteroid dehydrogenase. [sptrembl;acc:q13034] 6113.96 2521 High confidence 5964.17 1.02511
8498.04 1051 Low confidence 8189.31 1.0377
17-beta-hydroxysteroid dehydrogenase type vii-like. [refseq;acc:nm_182829] 0 4869.42 778 4825.89 1.00902
1 8689.28 631 8316.12 1.04487
2,4-dienoyl coa reductase 2, peroxisomal; peroxisomal 2,4-dienoyl-coa reductase. [refseq;acc:nm_020664] 8354 4609 8218.07 1.01654
2-hydroxyacylsphingosine 1-beta-galactosyltransferase precursor (ec 2.4.1.45) (udp-galactose-ceramide galactosyltransferase) (ceramide udp-galactosyltransferase) (cerebroside synthase). [swissprot;acc:q16880] 7708.55 2443 7480.51 1.03048
2-hydroxyphytanoyl-coa lyase (ec 4.1.-.-) (2-hpcl) (hspc279). [swissprot;acc:q9uj83] 6192.72 1393 High confidence 5743.36 1.07824
7938.52 1973 Low confidence 7690.22 1.03229
2-oxoglutarate dehydrogenase e1 component, mitochondrial precursor (ec 1.2.4.2) (alpha-ketoglutarate dehydrogenase). [swissprot;acc:q02218] 6362.25 2506 High confidence 6200.39 1.0261
8332.97 1032 Low confidence 8029.13 1.03784
2-oxoisovalerate dehydrogenase alpha subunit, mitochondrial precursor (ec 1.2.4.4) (branched-chain alpha-keto acid dehydrogenase e1 component alpha chain) (bckdh e1-alpha). [swissprot;acc:p12694] 6957.34 2451 High confidence 6737.15 1.03268
8054.46 3458 Low confidence 7848.62 1.02623
2-oxoisovalerate dehydrogenase beta subunit, mitochondrial precursor (ec 1.2.4.4) (branched-chain alpha-keto acid dehydrogenase e1 component beta chain) (bckdh e1-beta). [swissprot;acc:p21953] 6048.94 2288 High confidence 5783.76 1.04585
8033.99 4165 Low confidence 7871.26 1.02067
20 kda nuclear cap binding protein (ncbp 20 kda subunit) (cbp20) (ncbp interacting protein 1) (nip1). [swissprot;acc:p52298] 5843.51 107 High confidence 4266.04 1.36977
8143.47 234 Low confidence 7647.22 1.06489
25 kda brain-specific protein (p25-alpha). [swissprot;acc:o94811] 8007.43 863 7697.01 1.04033

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/