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.


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

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/