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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description Rank Gene green Value Type Filtered Interaction Map Network Comparison Type network_comparison red
Results: HTML CSV LaTeX Showing element 1 to 50 of 9634 in total
Value Type  : Ranked
Network Comparison Type  : Divided
description
Rank
green
Filtered
Interaction Map
network_comparison
red
1,4-alpha-glucan branching enzyme (ec 2.4.1.18) (glycogen branching enzyme) (brancher enzyme). [swissprot;acc:q04446] 18 245.247 1 High confidence 1.32082 185.678
242 13895.8 0 1.09822 15260.6
629 13590.3 Low confidence 1.02915 13205.3
4130 201.5 1 1.01062 199.383
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 181.041 High confidence 1.03148 186.741
1328 194.038 Low confidence 1.02218 198.342
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 180.943 High confidence 1.03162 186.664
1322 194.014 Low confidence 1.0222 198.322
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] 588 185.859 1.03039 191.507
1048 182.308 High confidence 1.031 187.96
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] 637 186.751 Low confidence 1.029 192.166
1043 182.137 High confidence 1.03128 187.834
1-aminocyclopropane-1-carboxylate synthase. [refseq;acc:nm_032592] 3423 196.707 Low confidence 1.01523 199.702
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 0.00001 High confidence 1 0.00001
3585 199.628 Low confidence 1.01447 202.517
10 kda heat shock protein, mitochondrial (hsp10) (10 kda chaperonin) (cpn10). [swissprot;acc:q04984] 1963 213.703 High confidence 1.00978 211.633
2659 196.574 Low confidence 1.0177 200.053
10-formyltetrahydrofolate dehydrogenase (ec 1.5.1.6) (10-fthfdh). [swissprot;acc:o75891] 1873 199.455 1.01985 203.414
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] 4255 200.395 Low confidence 1.00954 202.306
14-3-3 protein beta/alpha (protein kinase c inhibitor protein-1) (kcip-1) (protein 1054). [swissprot;acc:p31946] 2076 194.83 1.01928 198.587
2439 221.425 High confidence 1.00337 220.681
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 197.043 Low confidence 1.01713 200.418
3088 0.00001 High confidence 1 0.00001
14-3-3 protein zeta/delta (protein kinase c inhibitor protein-1) (kcip-1) (factor activating exoenzyme s) (fas). [swissprot;acc:p29312] 2108 194.902 Low confidence 1.01923 198.65
2396 221.51 High confidence 1.00375 220.683
14.5 kda translational inhibitor protein (p14.5) (uk114 antigen homolog). [swissprot;acc:p52758] 1044 196.966 Low confidence 1.02415 201.723
2366 202.529 High confidence 1.00407 203.353
15 kda selenoprotein precursor. [swissprot;acc:o60613] 1948 212.432 1.00984 214.522
4465 201.104 Low confidence 1.00907 202.928
15-hydroxyprostaglandin dehydrogenase [nad(+)] (ec 1.1.1.141) (pgdh). [swissprot;acc:p15428] 2855 0.00001 High confidence 1 0.00001
4126 195.778 Low confidence 1.01062 197.858
16.7kd protein. [refseq;acc:nm_016139] 3267 195.864 1.01575 198.949
17 beta-hydroxysteroid dehydrogenase. [sptrembl;acc:q13034] 1051 217.998 High confidence 1.03097 211.449
1803 195.655 Low confidence 1.02012 199.592
17-beta-hydroxysteroid dehydrogenase type vii-like. [refseq;acc:nm_182829] 627 10050.9 0 1.02953 10347.7
2142 192.884 1 1.01915 196.577
2,4-dienoyl coa reductase 2, peroxisomal; peroxisomal 2,4-dienoyl-coa reductase. [refseq;acc:nm_020664] 3846 198.422 1.01306 201.014
2-hydroxyacylsphingosine 1-beta-galactosyltransferase precursor (ec 2.4.1.45) (udp-galactose-ceramide galactosyltransferase) (ceramide udp-galactosyltransferase) (cerebroside synthase). [swissprot;acc:q16880] 4455 205.097 1.00928 207
2-hydroxyphytanoyl-coa lyase (ec 4.1.-.-) (2-hpcl) (hspc279). [swissprot;acc:q9uj83] 941 201.99 1.02493 207.026
2007 222.969 High confidence 1.00919 225.019
2-oxoglutarate dehydrogenase e1 component, mitochondrial precursor (ec 1.2.4.2) (alpha-ketoglutarate dehydrogenase). [swissprot;acc:q02218] 994 196.729 Low confidence 1.02457 201.562
1160 214.041 High confidence 1.02633 208.55
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] 1484 202.726 1.0191 198.927
4541 201.202 Low confidence 1.00806 202.824
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] 1389 213.875 High confidence 1.02148 218.47
1439 198.891 Low confidence 1.0217 203.206
20 kda nuclear cap binding protein (ncbp 20 kda subunit) (cbp20) (ncbp interacting protein 1) (nip1). [swissprot;acc:p52298] 183 198.011 High confidence 1.153 228.306
276 191.474 Low confidence 1.04421 199.939
25 kda brain-specific protein (p25-alpha). [swissprot;acc:o94811] 1085 199.188 1.02382 203.933

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/