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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description Rank Gene Network Comparison Type network_comparison Value Type green Filtered red Interaction Map
Results: HTML CSV LaTeX Showing element 1 to 50 of 9634 in total
Network Comparison Type  : Divided
Value Type  : Ranked
description
Rank
network_comparison
green
Filtered
red
Interaction Map
1,4-alpha-glucan branching enzyme (ec 2.4.1.18) (glycogen branching enzyme) (brancher enzyme). [swissprot;acc:q04446] 18 1.32082 245.247 1 185.678 High confidence
242 1.09822 13895.8 0 15260.6
629 1.02915 13590.3 13205.3 Low confidence
4130 1.01062 201.5 1 199.383
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 1.03148 181.041 186.741 High confidence
1328 1.02218 194.038 198.342 Low confidence
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 1.03162 180.943 186.664 High confidence
1322 1.0222 194.014 198.322 Low confidence
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 1.03039 185.859 191.507
1048 1.031 182.308 187.96 High confidence
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 1.029 186.751 192.166 Low confidence
1043 1.03128 182.137 187.834 High confidence
1-aminocyclopropane-1-carboxylate synthase. [refseq;acc:nm_032592] 3423 1.01523 196.707 199.702 Low confidence
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 1 0.00001 0.00001 High confidence
3585 1.01447 199.628 202.517 Low confidence
10 kda heat shock protein, mitochondrial (hsp10) (10 kda chaperonin) (cpn10). [swissprot;acc:q04984] 1963 1.00978 213.703 211.633 High confidence
2659 1.0177 196.574 200.053 Low confidence
10-formyltetrahydrofolate dehydrogenase (ec 1.5.1.6) (10-fthfdh). [swissprot;acc:o75891] 1873 1.01985 199.455 203.414
2922 1 0.00001 0.00001 High confidence
130 kda leucine-rich protein (lrp 130) (gp130) (leucine-rich ppr-motif containing protein). [swissprot;acc:p42704] 4255 1.00954 200.395 202.306 Low confidence
14-3-3 protein beta/alpha (protein kinase c inhibitor protein-1) (kcip-1) (protein 1054). [swissprot;acc:p31946] 2076 1.01928 194.83 198.587
2439 1.00337 221.425 220.681 High confidence
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 1.01713 197.043 200.418 Low confidence
3088 1 0.00001 0.00001 High confidence
14-3-3 protein zeta/delta (protein kinase c inhibitor protein-1) (kcip-1) (factor activating exoenzyme s) (fas). [swissprot;acc:p29312] 2108 1.01923 194.902 198.65 Low confidence
2396 1.00375 221.51 220.683 High confidence
14.5 kda translational inhibitor protein (p14.5) (uk114 antigen homolog). [swissprot;acc:p52758] 1044 1.02415 196.966 201.723 Low confidence
2366 1.00407 202.529 203.353 High confidence
15 kda selenoprotein precursor. [swissprot;acc:o60613] 1948 1.00984 212.432 214.522
4465 1.00907 201.104 202.928 Low confidence
15-hydroxyprostaglandin dehydrogenase [nad(+)] (ec 1.1.1.141) (pgdh). [swissprot;acc:p15428] 2855 1 0.00001 0.00001 High confidence
4126 1.01062 195.778 197.858 Low confidence
16.7kd protein. [refseq;acc:nm_016139] 3267 1.01575 195.864 198.949
17 beta-hydroxysteroid dehydrogenase. [sptrembl;acc:q13034] 1051 1.03097 217.998 211.449 High confidence
1803 1.02012 195.655 199.592 Low confidence
17-beta-hydroxysteroid dehydrogenase type vii-like. [refseq;acc:nm_182829] 627 1.02953 10050.9 0 10347.7
2142 1.01915 192.884 1 196.577
2,4-dienoyl coa reductase 2, peroxisomal; peroxisomal 2,4-dienoyl-coa reductase. [refseq;acc:nm_020664] 3846 1.01306 198.422 201.014
2-hydroxyacylsphingosine 1-beta-galactosyltransferase precursor (ec 2.4.1.45) (udp-galactose-ceramide galactosyltransferase) (ceramide udp-galactosyltransferase) (cerebroside synthase). [swissprot;acc:q16880] 4455 1.00928 205.097 207
2-hydroxyphytanoyl-coa lyase (ec 4.1.-.-) (2-hpcl) (hspc279). [swissprot;acc:q9uj83] 941 1.02493 201.99 207.026
2007 1.00919 222.969 225.019 High confidence
2-oxoglutarate dehydrogenase e1 component, mitochondrial precursor (ec 1.2.4.2) (alpha-ketoglutarate dehydrogenase). [swissprot;acc:q02218] 994 1.02457 196.729 201.562 Low confidence
1160 1.02633 214.041 208.55 High confidence
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 1.0191 202.726 198.927
4541 1.00806 201.202 202.824 Low confidence
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 1.02148 213.875 218.47 High confidence
1439 1.0217 198.891 203.206 Low confidence
20 kda nuclear cap binding protein (ncbp 20 kda subunit) (cbp20) (ncbp interacting protein 1) (nip1). [swissprot;acc:p52298] 183 1.153 198.011 228.306 High confidence
276 1.04421 191.474 199.939 Low confidence
25 kda brain-specific protein (p25-alpha). [swissprot;acc:o94811] 1085 1.02382 199.188 203.933

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/