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 green network_comparison description Network Comparison Type Interaction Map Filtered red
Results: HTML CSV LaTeX Showing element 451 to 500 of 19268 in total
Value Type  : Measured
Rank
green
network_comparison
description
Network Comparison Type
Interaction Map
Filtered
red
57 1729.7 500.43 udp-glucuronosyltransferase 2b15 precursor, microsomal (ec 2.4.1.17) (udpgt) (udpgth-3) (hlug4). [swissprot;acc:p54855] Subtracted High confidence 0 2230.13
1973.79 383.35 zinc finger protein 32 (zinc finger protein kox30) (fragment). [swissprot;acc:p17041] Low confidence 2357.14
2664.55 1.63302 kh domain containing, rna binding, signal transduction associated 3; sam68-like phosphotyrosine protein, t-star. [refseq;acc:nm_006558] Divided High confidence 1 1631.67
7600.25 1119.66 fos-related antigen 2. [swissprot;acc:p15408] Subtracted Low confidence 6480.59
17572.7 1.13635 homeobox protein hox-b4 (hox-2f) (hox-2.6). [swissprot;acc:p17483] Divided 15464.1
24908.5 3997.5 ras-related gtp binding c; rag c protein. [refseq;acc:nm_022157] Subtracted High confidence 20911
58 81.2233 1.85588 40s ribosomal protein s26. [swissprot;acc:p02383] Divided 0 150.741
438.016 2.16672 tigger transposable element derived 1; jerky (mouse) homolog-like. [refseq;acc:nm_145702] Low confidence 202.156
1972.76 383.26 zinc finger protein 95 homolog (zfp-95). [swissprot;acc:q9y2l8] Subtracted 2356.02
2664.55 1.63302 kh domain containing, rna binding, signal transduction associated 1; gap-associated tyrosine phosphoprotein p62 (sam68). [refseq;acc:nm_006559] Divided High confidence 1 1631.67
7600.61 1118.99 protein fosb (g0/g1 switch regulatory protein 3). [swissprot;acc:p53539] Subtracted Low confidence 6481.62
12011.7 499.4 imp2 inner mitochondrial membrane protease-like; inner mitochondrial membrane peptidase 2 like. [refseq;acc:nm_032549] High confidence 0 11512.3
17572.7 1.13635 homeobox protein hox-c5 (hox-3d) (cp11). [swissprot;acc:q00444] Divided Low confidence 1 15464.1
24908.5 3997.5 ras-related gtp binding b short isoform; gtp-binding protein ragb. [refseq;acc:nm_006064] Subtracted High confidence 20911
59 279.24 1.85328 f-actin capping protein alpha-2 subunit (capz alpha-2). [swissprot;acc:p47755] Divided 0 150.673
315.505 2.14473 nadph oxidase, ef hand calcium-binding domain 5. [refseq;acc:nm_024505] Low confidence 147.107
1972.55 383.25 zinc finger protein 80 (znfpt17). [swissprot;acc:p51504] Subtracted 2355.8
2664.55 1.63302 kh domain-containing, rna-binding, signal transduction-associated protein 2; sam68-like mammalian protein 1. [refseq;acc:nm_152688] Divided High confidence 1 1631.67
7601.81 1116.76 fos-related antigen 1 (fra-1). [swissprot;acc:p15407] Subtracted Low confidence 6485.05
12011.7 499.4 microsomal signal peptidase 18 kda subunit (ec 3.4.-.-) (spase 18 kda subunit) (spc18) (endopeptidase sp18). [swissprot;acc:p21378] High confidence 0 11512.3
17572.7 1.13635 homeobox protein hox-c6 (hox-3c) (hho.c8) (cp25). [swissprot;acc:p09630] Divided Low confidence 1 15464.1
24908.5 3997.5 anillin, actin binding protein (scraps homolog, drosophila); anillin (drosophila scraps homolog), actin binding protein. [refseq;acc:nm_018685] Subtracted High confidence 20911
60 87.5499 1.8441 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] Divided 0 47.4756
315.567 2.14463 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
1972.44 383.23 zinc finger protein 187. [refseq;acc:nm_152736] Subtracted 2355.67
2765.82 1.6231 1,4-alpha-glucan branching enzyme (ec 2.4.1.18) (glycogen branching enzyme) (brancher enzyme). [swissprot;acc:q04446] Divided High confidence 1 4489.19
4827.7 475 tyrosine aminotransferase (ec 2.6.1.5) (l-tyrosine:2-oxoglutarate aminotransferase) (tat). [swissprot;acc:p17735] Subtracted 0 5302.7
12479.2 1108.2 tumor protein p53 inducible protein 3; quinone oxidoreductase homolog; p53-induced gene 3 protein. [refseq;acc:nm_004881] Low confidence 1 11371
12889.1 3882.4 ubiquitin activating enzyme e1-like protein. [refseq;acc:nm_006395] High confidence 16771.5
17572.7 1.13635 homeobox protein hox-d4 (hox-4b) (hox-5.1) (hho.c13). [swissprot;acc:p09016] Divided Low confidence 15464.1
61 151 2.09722 selenide,water dikinase 2 (ec 2.7.9.3) (selenophosphate synthetase 2) (selenium donor protein 2). [swissprot;acc:q99611] 0 72
403.196 467.286 deltex homolog 1; hdx-1. [refseq;acc:nm_004416] Subtracted High confidence 870.482
593.094 1.82804 glutathione s-transferase theta 2 (ec 2.5.1.18) (gst class-theta). [swissprot;acc:p30712] Divided 324.442
1972.44 383.23 zinc finger protein 302 (znf135-like) (znf140-like). [swissprot;acc:q9nr11] Subtracted Low confidence 2355.67
2765.82 1.6231 glycogen phosphorylase, brain form (ec 2.4.1.1). [swissprot;acc:p11216] Divided High confidence 1 4489.19
7680.25 1065.74 transcription factor jun-d. [swissprot;acc:p17535] Subtracted Low confidence 6614.51
10307.5 3832 beta-arrestin 2 (arrestin, beta 2). [swissprot;acc:p32121] High confidence 6475.5
17572.7 1.13635 homeobox protein hox-b5 (hox-2a) (hho.c10) (hu-1). [swissprot;acc:p09067] Divided Low confidence 15464.1
62 384.407 1.82385 dipeptidyl peptidase 8 isoform 2; dipeptidyl peptidase 8. [refseq;acc:nm_017743] High confidence 0 210.767
977 465 putative phosphoglycerate mutase 3 (ec 5.4.2.1) (ec 5.4.2.4) (ec 3.1.3.13). [swissprot;acc:q8n0y7] Subtracted 1442
1972.28 383.22 zinc finger protein zfp6 (fragment). [sptrembl;acc:q92967] Low confidence 2355.5
2765.82 1.6231 glycogen phosphorylase, liver form (ec 2.4.1.1). [swissprot;acc:p06737] Divided High confidence 1 4489.19
4356 2.09222 anchor attachment protein 1; glycophosphatidylinositol anchor attachment 1; anchor attachment protein 1 (gaa1p, yeast) homolog. [refseq;acc:nm_003801] Low confidence 0 2082
7678.76 1065.34 transcription factor jun-b. [swissprot;acc:p17275] Subtracted 1 6613.42
10307.5 3832 beta-arrestin 1 (arrestin, beta 1). [swissprot;acc:p49407] High confidence 6475.5
17572.7 1.13635 homeobox protein hox-a5 (hox-1c). [swissprot;acc:p20719] Divided Low confidence 15464.1
63 56.278 1.80709 spir-2 protein (fragment). [sptrembl;acc:q8wwl2] High confidence 0 31.1429
75.6508 2.03842 laminin beta-1 chain precursor (laminin b1 chain). [swissprot;acc:p07942] Low confidence 154.208
977 465 phosphoglycerate mutase 1 (ec 5.4.2.1) (ec 5.4.2.4) (ec 3.1.3.13) (phosphoglycerate mutase isozyme b) (pgam-b) (bpg-dependent pgam 1). [swissprot;acc:p18669] Subtracted High confidence 1442
1972.19 383.22 zinc finger protein 8 (zinc finger protein hf.18) (fragment). [swissprot;acc:p17098] Low confidence 2355.41

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/