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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Network Comparison Type description network_comparison Rank Filtered green red Gene Value Type Interaction Map
Results: HTML CSV LaTeX Showing element 1 to 50 of 9634 in total
Network Comparison Type  : Divided
Value Type  : Ranked
description
network_comparison
Rank
Filtered
green
red
Interaction Map
1,4-alpha-glucan branching enzyme (ec 2.4.1.18) (glycogen branching enzyme) (brancher enzyme). [swissprot;acc:q04446] 1.01062 4130 1 201.5 199.383 Low confidence
1.02915 629 0 13590.3 13205.3
1.09822 242 13895.8 15260.6 High confidence
1.32082 18 1 245.247 185.678
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] 1.02218 1328 194.038 198.342 Low confidence
1.03148 1038 181.041 186.741 High 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] 1.0222 1322 194.014 198.322 Low confidence
1.03162 1032 180.943 186.664 High 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] 1.03039 588 185.859 191.507 Low confidence
1.031 1048 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] 1.029 637 186.751 192.166 Low confidence
1.03128 1043 182.137 187.834 High confidence
1-aminocyclopropane-1-carboxylate synthase. [refseq;acc:nm_032592] 1.01523 3423 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] 1 3126 0.00001 0.00001 High confidence
1.01447 3585 199.628 202.517 Low confidence
10 kda heat shock protein, mitochondrial (hsp10) (10 kda chaperonin) (cpn10). [swissprot;acc:q04984] 1.00978 1963 213.703 211.633 High confidence
1.0177 2659 196.574 200.053 Low confidence
10-formyltetrahydrofolate dehydrogenase (ec 1.5.1.6) (10-fthfdh). [swissprot;acc:o75891] 1 2922 0.00001 0.00001 High confidence
1.01985 1873 199.455 203.414 Low confidence
130 kda leucine-rich protein (lrp 130) (gp130) (leucine-rich ppr-motif containing protein). [swissprot;acc:p42704] 1.00954 4255 200.395 202.306
14-3-3 protein beta/alpha (protein kinase c inhibitor protein-1) (kcip-1) (protein 1054). [swissprot;acc:p31946] 1.00337 2439 221.425 220.681 High confidence
1.01928 2076 194.83 198.587 Low 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] 1 3088 0.00001 0.00001 High confidence
1.01713 2864 197.043 200.418 Low confidence
14-3-3 protein zeta/delta (protein kinase c inhibitor protein-1) (kcip-1) (factor activating exoenzyme s) (fas). [swissprot;acc:p29312] 1.00375 2396 221.51 220.683 High confidence
1.01923 2108 194.902 198.65 Low confidence
14.5 kda translational inhibitor protein (p14.5) (uk114 antigen homolog). [swissprot;acc:p52758] 1.00407 2366 202.529 203.353 High confidence
1.02415 1044 196.966 201.723 Low confidence
15 kda selenoprotein precursor. [swissprot;acc:o60613] 1.00907 4465 201.104 202.928
1.00984 1948 212.432 214.522 High confidence
15-hydroxyprostaglandin dehydrogenase [nad(+)] (ec 1.1.1.141) (pgdh). [swissprot;acc:p15428] 1 2855 0.00001 0.00001
1.01062 4126 195.778 197.858 Low confidence
16.7kd protein. [refseq;acc:nm_016139] 1.01575 3267 195.864 198.949
17 beta-hydroxysteroid dehydrogenase. [sptrembl;acc:q13034] 1.02012 1803 195.655 199.592
1.03097 1051 217.998 211.449 High confidence
17-beta-hydroxysteroid dehydrogenase type vii-like. [refseq;acc:nm_182829] 1.01915 2142 192.884 196.577 Low confidence
1.02953 627 0 10050.9 10347.7
2,4-dienoyl coa reductase 2, peroxisomal; peroxisomal 2,4-dienoyl-coa reductase. [refseq;acc:nm_020664] 1.01306 3846 1 198.422 201.014
2-hydroxyacylsphingosine 1-beta-galactosyltransferase precursor (ec 2.4.1.45) (udp-galactose-ceramide galactosyltransferase) (ceramide udp-galactosyltransferase) (cerebroside synthase). [swissprot;acc:q16880] 1.00928 4455 205.097 207
2-hydroxyphytanoyl-coa lyase (ec 4.1.-.-) (2-hpcl) (hspc279). [swissprot;acc:q9uj83] 1.00919 2007 222.969 225.019 High confidence
1.02493 941 201.99 207.026 Low confidence
2-oxoglutarate dehydrogenase e1 component, mitochondrial precursor (ec 1.2.4.2) (alpha-ketoglutarate dehydrogenase). [swissprot;acc:q02218] 1.02457 994 196.729 201.562
1.02633 1160 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] 1.00806 4541 201.202 202.824 Low confidence
1.0191 1484 202.726 198.927 High 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] 1.02148 1389 213.875 218.47
1.0217 1439 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] 1.04421 276 191.474 199.939
1.153 183 198.011 228.306 High confidence
25 kda brain-specific protein (p25-alpha). [swissprot;acc:o94811] 1.02382 1085 199.188 203.933 Low confidence

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/