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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Gene description Network Comparison Type Rank Value Type Filtered Interaction Map red network_comparison green
Results: HTML CSV LaTeX Showing element 51 to 100 of 19268 in total
Value Type  : Ranked
description
Network Comparison Type
Rank
Filtered
Interaction Map
red
network_comparison
green
14-3-3 protein zeta/delta (protein kinase c inhibitor protein-1) (kcip-1) (factor activating exoenzyme s) (fas). [swissprot;acc:p29312] Subtracted 2185 1 Low confidence 198.65 3.748 194.902
2391 High confidence 220.683 0.827 221.51
14.5 kda translational inhibitor protein (p14.5) (uk114 antigen homolog). [swissprot;acc:p52758] Divided 1044 Low confidence 201.723 1.02415 196.966
2366 High confidence 203.353 1.00407 202.529
Subtracted 1035 Low confidence 201.723 4.757 196.966
2393 High confidence 203.353 0.824 202.529
15 kda selenoprotein precursor. [swissprot;acc:o60613] Divided 1948 214.522 1.00984 212.432
4465 Low confidence 202.928 1.00907 201.104
Subtracted 1920 High confidence 214.522 2.09 212.432
4468 Low confidence 202.928 1.824 201.104
15-hydroxyprostaglandin dehydrogenase [nad(+)] (ec 1.1.1.141) (pgdh). [swissprot;acc:p15428] Divided 2855 High confidence 0.00001 1 0.00001
4126 Low confidence 197.858 1.01062 195.778
Subtracted 2855 High confidence 0 0 0
4182 Low confidence 197.858 2.08 195.778
16.7kd protein. [refseq;acc:nm_016139] Divided 3267 198.949 1.01575 195.864
Subtracted 3341 3.085
17 beta-hydroxysteroid dehydrogenase. [sptrembl;acc:q13034] Divided 1051 High confidence 211.449 1.03097 217.998
1803 Low confidence 199.592 1.02012 195.655
Subtracted 1029 High confidence 211.449 6.549 217.998
1836 Low confidence 199.592 3.937 195.655
17-beta-hydroxysteroid dehydrogenase type vii-like. [refseq;acc:nm_182829] Divided 627 0 10347.7 1.02953 10050.9
2142 1 196.577 1.01915 192.884
Subtracted 641 0 10347.7 296.8 10050.9
2279 1 196.577 3.693 192.884
2,4-dienoyl coa reductase 2, peroxisomal; peroxisomal 2,4-dienoyl-coa reductase. [refseq;acc:nm_020664] Divided 3846 201.014 1.01306 198.422
Subtracted 3842 2.592
2-hydroxyacylsphingosine 1-beta-galactosyltransferase precursor (ec 2.4.1.45) (udp-galactose-ceramide galactosyltransferase) (ceramide udp-galactosyltransferase) (cerebroside synthase). [swissprot;acc:q16880] Divided 4455 207 1.00928 205.097
Subtracted 4270 1.903
2-hydroxyphytanoyl-coa lyase (ec 4.1.-.-) (2-hpcl) (hspc279). [swissprot;acc:q9uj83] Divided 941 207.026 1.02493 201.99
2007 High confidence 225.019 1.00919 222.969
Subtracted 870 Low confidence 207.026 5.036 201.99
1954 High confidence 225.019 2.05 222.969
2-oxoglutarate dehydrogenase e1 component, mitochondrial precursor (ec 1.2.4.2) (alpha-ketoglutarate dehydrogenase). [swissprot;acc:q02218] Divided 994 Low confidence 201.562 1.02457 196.729
1160 High confidence 208.55 1.02633 214.041
Subtracted 992 Low confidence 201.562 4.833 196.729
1164 High confidence 208.55 5.491 214.041
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] Divided 1484 198.927 1.0191 202.726
4541 Low confidence 202.824 1.00806 201.202
Subtracted 1515 High confidence 198.927 3.799 202.726
4538 Low confidence 202.824 1.622 201.202
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] Divided 1389 High confidence 218.47 1.02148 213.875
1439 Low confidence 203.206 1.0217 198.891
Subtracted 1336 High confidence 218.47 4.595 213.875
1394 Low confidence 203.206 4.315 198.891
20 kda nuclear cap binding protein (ncbp 20 kda subunit) (cbp20) (ncbp interacting protein 1) (nip1). [swissprot;acc:p52298] Divided 183 High confidence 228.306 1.153 198.011
276 Low confidence 199.939 1.04421 191.474
Subtracted 140 High confidence 228.306 30.295 198.011
295 Low confidence 199.939 8.465 191.474
25 kda brain-specific protein (p25-alpha). [swissprot;acc:o94811] Divided 1085 203.933 1.02382 199.188
Subtracted 1046 4.745

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.
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