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 - Divided Values

Type II network, divided values. Interestingly most of the proteins in the first 100 positions in this table would occur in the divided ranks table between position 100 and 200, indicating a difference in emphasis between the two simulations but not in the overall function. The fully annotated table, include Ensembl gene identifiers and network values can be found in the supplementary data.


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 [...,...].
description Gene Rank Value Type Network Comparison Type Interaction Map Filtered red green network_comparison
Results: HTML CSV LaTeX Showing element 1 to 50 of 9634 in total
Value Type  : Measured
Network Comparison Type  : Divided
description
Rank
Interaction Map
Filtered
red
green
network_comparison
1,4-alpha-glucan branching enzyme (ec 2.4.1.18) (glycogen branching enzyme) (brancher enzyme). [swissprot;acc:q04446] 37 High confidence 0 334.401 934.348 2.79409
60 1 4489.19 2765.82 1.6231
131 Low confidence 0 645.504 851.77 1.31954
4914 1 7853.62 7900.54 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] 509 High confidence 7551.8 8630.06 1.14278
885 Low confidence 8255.95 8585.64 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] 508 High confidence 7556.75 8636.87 1.14293
880 Low confidence 8256.68 8587.03 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] 237 8530.51 9081.29 1.06457
514 High confidence 7477 8532.02 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] 252 Low confidence 8492.92 9018.94 1.06194
513 High confidence 7485.08 8543.66 1.14143
1-aminocyclopropane-1-carboxylate synthase. [refseq;acc:nm_032592] 2035 Low confidence 8065.05 8323.04 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 7948.01 8175.27 1.02859
3126 High confidence 0.00001 0.00001 1
10 kda heat shock protein, mitochondrial (hsp10) (10 kda chaperonin) (cpn10). [swissprot;acc:q04984] 1136 5790.65 6303.92 1.08864
2182 Low confidence 8130.62 8386.58 1.03148
10-formyltetrahydrofolate dehydrogenase (ec 1.5.1.6) (10-fthfdh). [swissprot;acc:o75891] 1693 7981.12 8246.34 1.03323
2922 High confidence 0.00001 0.00001 1
130 kda leucine-rich protein (lrp 130) (gp130) (leucine-rich ppr-motif containing protein). [swissprot;acc:p42704] 4071 Low confidence 7896.47 8067.47 1.02166
14-3-3 protein beta/alpha (protein kinase c inhibitor protein-1) (kcip-1) (protein 1054). [swissprot;acc:p31946] 575 8572.9 8965.49 1.04579
1411 High confidence 5812.02 6262.07 1.07743
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] 3088 0.00001 0.00001 1
3095 Low confidence 8144.39 8370.12 1.02772
14-3-3 protein zeta/delta (protein kinase c inhibitor protein-1) (kcip-1) (factor activating exoenzyme s) (fas). [swissprot;acc:p29312] 591 8566.17 8956.98 1.04562
1415 High confidence 5815.33 6265.44 1.0774
14.5 kda translational inhibitor protein (p14.5) (uk114 antigen homolog). [swissprot;acc:p52758] 993 Low confidence 7982.87 8288.57 1.03829
1600 High confidence 6336.22 6788.96 1.07145
15 kda selenoprotein precursor. [swissprot;acc:o60613] 1043 6344.41 6933.36 1.09283
3577 Low confidence 7881.96 8083.96 1.02563
15-hydroxyprostaglandin dehydrogenase [nad(+)] (ec 1.1.1.141) (pgdh). [swissprot;acc:p15428] 2067 8165.8 8425.81 1.03184
2855 High confidence 0.00001 0.00001 1
16.7kd protein. [refseq;acc:nm_016139] 4005 Low confidence 8297.71 8483.17 1.02235
17 beta-hydroxysteroid dehydrogenase. [sptrembl;acc:q13034] 1051 8189.31 8498.04 1.0377
2521 High confidence 5964.17 6113.96 1.02511
17-beta-hydroxysteroid dehydrogenase type vii-like. [refseq;acc:nm_182829] 631 Low confidence 8316.12 8689.28 1.04487
778 0 4825.89 4869.42 1.00902
2,4-dienoyl coa reductase 2, peroxisomal; peroxisomal 2,4-dienoyl-coa reductase. [refseq;acc:nm_020664] 4609 1 8218.07 8354 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] 2443 7480.51 7708.55 1.03048
2-hydroxyphytanoyl-coa lyase (ec 4.1.-.-) (2-hpcl) (hspc279). [swissprot;acc:q9uj83] 1393 High confidence 5743.36 6192.72 1.07824
1973 Low confidence 7690.22 7938.52 1.03229
2-oxoglutarate dehydrogenase e1 component, mitochondrial precursor (ec 1.2.4.2) (alpha-ketoglutarate dehydrogenase). [swissprot;acc:q02218] 1032 8029.13 8332.97 1.03784
2506 High confidence 6200.39 6362.25 1.0261
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] 2451 6737.15 6957.34 1.03268
3458 Low confidence 7848.62 8054.46 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] 2288 High confidence 5783.76 6048.94 1.04585
4165 Low confidence 7871.26 8033.99 1.02067
20 kda nuclear cap binding protein (ncbp 20 kda subunit) (cbp20) (ncbp interacting protein 1) (nip1). [swissprot;acc:p52298] 107 High confidence 4266.04 5843.51 1.36977
234 Low confidence 7647.22 8143.47 1.06489
25 kda brain-specific protein (p25-alpha). [swissprot;acc:o94811] 863 7697.01 8007.43 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/