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.


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Gene Value Type description Network Comparison Type Filtered Rank green Interaction Map network_comparison red
Results: HTML CSV LaTeX Showing element 1 to 50 of 38536 in total
Value Type  : Measured
Network Comparison Type  : Divided
description
Filtered
Rank
green
Interaction Map
network_comparison
red
1,4-alpha-glucan branching enzyme (ec 2.4.1.18) (glycogen branching enzyme) (brancher enzyme). [swissprot;acc:q04446] 0 37 934.348 High confidence 2.79409 334.401
131 851.77 Low confidence 1.31954 645.504
1 60 2765.82 High confidence 1.6231 4489.19
4914 7900.54 Low confidence 1.00597 7853.62
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 8630.06 High confidence 1.14278 7551.8
885 8585.64 Low confidence 1.03993 8255.95
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 8636.87 High confidence 1.14293 7556.75
880 8587.03 Low confidence 1.04001 8256.68
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 9081.29 1.06457 8530.51
514 8532.02 High confidence 1.1411 7477
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 9018.94 Low confidence 1.06194 8492.92
513 8543.66 High confidence 1.14143 7485.08
1-aminocyclopropane-1-carboxylate synthase. [refseq;acc:nm_032592] 2035 8323.04 Low confidence 1.03199 8065.05
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 8175.27 1.02859 7948.01
3126 0.00001 High confidence 1 0.00001
10 kda heat shock protein, mitochondrial (hsp10) (10 kda chaperonin) (cpn10). [swissprot;acc:q04984] 1136 6303.92 1.08864 5790.65
2182 8386.58 Low confidence 1.03148 8130.62
10-formyltetrahydrofolate dehydrogenase (ec 1.5.1.6) (10-fthfdh). [swissprot;acc:o75891] 1693 8246.34 1.03323 7981.12
2922 0.00001 High confidence 1 0.00001
130 kda leucine-rich protein (lrp 130) (gp130) (leucine-rich ppr-motif containing protein). [swissprot;acc:p42704] 4071 8067.47 Low confidence 1.02166 7896.47
14-3-3 protein beta/alpha (protein kinase c inhibitor protein-1) (kcip-1) (protein 1054). [swissprot;acc:p31946] 575 8965.49 1.04579 8572.9
1411 6262.07 High confidence 1.07743 5812.02
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 1 0.00001
3095 8370.12 Low confidence 1.02772 8144.39
14-3-3 protein zeta/delta (protein kinase c inhibitor protein-1) (kcip-1) (factor activating exoenzyme s) (fas). [swissprot;acc:p29312] 591 8956.98 1.04562 8566.17
1415 6265.44 High confidence 1.0774 5815.33
14.5 kda translational inhibitor protein (p14.5) (uk114 antigen homolog). [swissprot;acc:p52758] 993 8288.57 Low confidence 1.03829 7982.87
1600 6788.96 High confidence 1.07145 6336.22
15 kda selenoprotein precursor. [swissprot;acc:o60613] 1043 6933.36 1.09283 6344.41
3577 8083.96 Low confidence 1.02563 7881.96
15-hydroxyprostaglandin dehydrogenase [nad(+)] (ec 1.1.1.141) (pgdh). [swissprot;acc:p15428] 2067 8425.81 1.03184 8165.8
2855 0.00001 High confidence 1 0.00001
16.7kd protein. [refseq;acc:nm_016139] 4005 8483.17 Low confidence 1.02235 8297.71
17 beta-hydroxysteroid dehydrogenase. [sptrembl;acc:q13034] 1051 8498.04 1.0377 8189.31
2521 6113.96 High confidence 1.02511 5964.17
17-beta-hydroxysteroid dehydrogenase type vii-like. [refseq;acc:nm_182829] 0 778 4869.42 Low confidence 1.00902 4825.89
1 631 8689.28 1.04487 8316.12
2,4-dienoyl coa reductase 2, peroxisomal; peroxisomal 2,4-dienoyl-coa reductase. [refseq;acc:nm_020664] 4609 8354 1.01654 8218.07
2-hydroxyacylsphingosine 1-beta-galactosyltransferase precursor (ec 2.4.1.45) (udp-galactose-ceramide galactosyltransferase) (ceramide udp-galactosyltransferase) (cerebroside synthase). [swissprot;acc:q16880] 2443 7708.55 1.03048 7480.51
2-hydroxyphytanoyl-coa lyase (ec 4.1.-.-) (2-hpcl) (hspc279). [swissprot;acc:q9uj83] 1393 6192.72 High confidence 1.07824 5743.36
1973 7938.52 Low confidence 1.03229 7690.22
2-oxoglutarate dehydrogenase e1 component, mitochondrial precursor (ec 1.2.4.2) (alpha-ketoglutarate dehydrogenase). [swissprot;acc:q02218] 1032 8332.97 1.03784 8029.13
2506 6362.25 High confidence 1.0261 6200.39
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 6957.34 1.03268 6737.15
3458 8054.46 Low confidence 1.02623 7848.62
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 6048.94 High confidence 1.04585 5783.76
4165 8033.99 Low confidence 1.02067 7871.26
20 kda nuclear cap binding protein (ncbp 20 kda subunit) (cbp20) (ncbp interacting protein 1) (nip1). [swissprot;acc:p52298] 107 5843.51 High confidence 1.36977 4266.04
234 8143.47 Low confidence 1.06489 7647.22
25 kda brain-specific protein (p25-alpha). [swissprot;acc:o94811] 863 8007.43 1.04033 7697.01

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/