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 Rank Value Type network_comparison green description Network Comparison Type Filtered Interaction Map red
Results: HTML CSV LaTeX Showing element 451 to 500 of 19268 in total
Value Type  : Measured
Rank
network_comparison
green
description
Network Comparison Type
Filtered
Interaction Map
red
57 1.89769 142.417 5,6-dihydroxyindole-2-carboxylic acid oxidase precursor (ec 1.14.18.-) (dhica oxidase) (tyrosinase-related protein 1) (trp-1) (trp1) (trp) (catalase b) (glycoprotein-75) (melanoma antigen gp75). [swissprot;acc:p17643] Divided 0 High confidence 270.264
2.16674 438.035 tigger transposable element derived 7; jerky (mouse) homolog-like. [refseq;acc:nm_033208] Low confidence 202.163
383.35 1973.79 zinc finger protein 32 (zinc finger protein kox30) (fragment). [swissprot;acc:p17041] Subtracted 2357.14
500.43 1729.7 udp-glucuronosyltransferase 2b15 precursor, microsomal (ec 2.4.1.17) (udpgt) (udpgth-3) (hlug4). [swissprot;acc:p54855] High confidence 2230.13
1119.66 7600.25 fos-related antigen 2. [swissprot;acc:p15408] 1 Low confidence 6480.59
3997.5 24908.5 ras-related gtp binding c; rag c protein. [refseq;acc:nm_022157] High confidence 20911
58 1.13635 17572.7 homeobox protein hox-c5 (hox-3d) (cp11). [swissprot;acc:q00444] Divided Low confidence 15464.1
1.63302 2664.55 kh domain containing, rna binding, signal transduction associated 1; gap-associated tyrosine phosphoprotein p62 (sam68). [refseq;acc:nm_006559] High confidence 1631.67
1.85588 81.2233 40s ribosomal protein s26. [swissprot;acc:p02383] 0 150.741
2.16672 438.016 tigger transposable element derived 1; jerky (mouse) homolog-like. [refseq;acc:nm_145702] Low confidence 202.156
383.26 1972.76 zinc finger protein 95 homolog (zfp-95). [swissprot;acc:q9y2l8] Subtracted 2356.02
499.4 12011.7 imp2 inner mitochondrial membrane protease-like; inner mitochondrial membrane peptidase 2 like. [refseq;acc:nm_032549] High confidence 11512.3
1118.99 7600.61 protein fosb (g0/g1 switch regulatory protein 3). [swissprot;acc:p53539] 1 Low confidence 6481.62
3997.5 24908.5 ras-related gtp binding b short isoform; gtp-binding protein ragb. [refseq;acc:nm_006064] High confidence 20911
59 1.13635 17572.7 homeobox protein hox-c6 (hox-3c) (hho.c8) (cp25). [swissprot;acc:p09630] Divided Low confidence 15464.1
1.63302 2664.55 kh domain-containing, rna-binding, signal transduction-associated protein 2; sam68-like mammalian protein 1. [refseq;acc:nm_152688] High confidence 1631.67
1.85328 279.24 f-actin capping protein alpha-2 subunit (capz alpha-2). [swissprot;acc:p47755] 0 150.673
2.14473 315.505 nadph oxidase, ef hand calcium-binding domain 5. [refseq;acc:nm_024505] Low confidence 147.107
383.25 1972.55 zinc finger protein 80 (znfpt17). [swissprot;acc:p51504] Subtracted 2355.8
499.4 12011.7 microsomal signal peptidase 18 kda subunit (ec 3.4.-.-) (spase 18 kda subunit) (spc18) (endopeptidase sp18). [swissprot;acc:p21378] High confidence 11512.3
1116.76 7601.81 fos-related antigen 1 (fra-1). [swissprot;acc:p15407] 1 Low confidence 6485.05
3997.5 24908.5 anillin, actin binding protein (scraps homolog, drosophila); anillin (drosophila scraps homolog), actin binding protein. [refseq;acc:nm_018685] High confidence 20911
60 1.13635 17572.7 homeobox protein hox-d4 (hox-4b) (hox-5.1) (hho.c13). [swissprot;acc:p09016] Divided Low confidence 15464.1
1.6231 2765.82 1,4-alpha-glucan branching enzyme (ec 2.4.1.18) (glycogen branching enzyme) (brancher enzyme). [swissprot;acc:q04446] High confidence 4489.19
1.8441 87.5499 adapter-related protein complex 1 sigma 1b subunit (sigma-adaptin 1b) (adaptor protein complex ap-1 sigma-1b subunit) (golgi adaptor ha1/ap1 adaptin sigma-1b subunit) (clathrin assembly protein complex 1 sigma- 1b small chain) (sigma 1b subunit of ap-1 clathrin) (dc22). [swissprot;acc:p56377] 0 47.4756
2.14463 315.567 nadph oxidase homolog 1 (nox-1) (noh-1) (nadh/nadph mitogenic oxidase subunit p65-mox) (mitogenic oxidase 1) (mox1). [swissprot;acc:q9y5s8] Low confidence 147.143
383.23 1972.44 zinc finger protein 187. [refseq;acc:nm_152736] Subtracted 2355.67
475 4827.7 tyrosine aminotransferase (ec 2.6.1.5) (l-tyrosine:2-oxoglutarate aminotransferase) (tat). [swissprot;acc:p17735] High confidence 5302.7
1108.2 12479.2 tumor protein p53 inducible protein 3; quinone oxidoreductase homolog; p53-induced gene 3 protein. [refseq;acc:nm_004881] 1 Low confidence 11371
3882.4 12889.1 ubiquitin activating enzyme e1-like protein. [refseq;acc:nm_006395] High confidence 16771.5
61 1.13635 17572.7 homeobox protein hox-b5 (hox-2a) (hho.c10) (hu-1). [swissprot;acc:p09067] Divided Low confidence 15464.1
1.6231 2765.82 glycogen phosphorylase, brain form (ec 2.4.1.1). [swissprot;acc:p11216] High confidence 4489.19
1.82804 593.094 glutathione s-transferase theta 2 (ec 2.5.1.18) (gst class-theta). [swissprot;acc:p30712] 0 324.442
2.09722 151 selenide,water dikinase 2 (ec 2.7.9.3) (selenophosphate synthetase 2) (selenium donor protein 2). [swissprot;acc:q99611] Low confidence 72
383.23 1972.44 zinc finger protein 302 (znf135-like) (znf140-like). [swissprot;acc:q9nr11] Subtracted 2355.67
467.286 403.196 deltex homolog 1; hdx-1. [refseq;acc:nm_004416] High confidence 870.482
1065.74 7680.25 transcription factor jun-d. [swissprot;acc:p17535] 1 Low confidence 6614.51
3832 10307.5 beta-arrestin 2 (arrestin, beta 2). [swissprot;acc:p32121] High confidence 6475.5
62 1.13635 17572.7 homeobox protein hox-a5 (hox-1c). [swissprot;acc:p20719] Divided Low confidence 15464.1
1.6231 2765.82 glycogen phosphorylase, liver form (ec 2.4.1.1). [swissprot;acc:p06737] High confidence 4489.19
1.82385 384.407 dipeptidyl peptidase 8 isoform 2; dipeptidyl peptidase 8. [refseq;acc:nm_017743] 0 210.767
2.09222 4356 anchor attachment protein 1; glycophosphatidylinositol anchor attachment 1; anchor attachment protein 1 (gaa1p, yeast) homolog. [refseq;acc:nm_003801] Low confidence 2082
383.22 1972.28 zinc finger protein zfp6 (fragment). [sptrembl;acc:q92967] Subtracted 2355.5
465 977 putative phosphoglycerate mutase 3 (ec 5.4.2.1) (ec 5.4.2.4) (ec 3.1.3.13). [swissprot;acc:q8n0y7] High confidence 1442
1065.34 7678.76 transcription factor jun-b. [swissprot;acc:p17275] 1 Low confidence 6613.42
3832 10307.5 beta-arrestin 1 (arrestin, beta 1). [swissprot;acc:p49407] High confidence 6475.5
63 1.13635 17572.7 homeobox protein hox-a4 (hox-1d) (hox-1.4). [swissprot;acc:q00056] Divided Low confidence 15464.1
1.6231 2765.82 myosin xv (unconventional myosin-15). [swissprot;acc:q9ukn7] High confidence 4489.19
1.80709 56.278 spir-2 protein (fragment). [sptrembl;acc:q8wwl2] 0 31.1429
2.03842 75.6508 laminin beta-1 chain precursor (laminin b1 chain). [swissprot;acc:p07942] Low confidence 154.208

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/