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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Gene Rank description Interaction Map Value Type network_comparison Filtered Network Comparison Type green red
Results: HTML CSV LaTeX Showing element 501 to 550 of 14920 in total
Interaction Map  : High confidence
Network Comparison Type  : Divided
Rank
description
Value Type
network_comparison
Filtered
green
red
63 myosin xv (unconventional myosin-15). [swissprot;acc:q9ukn7] Measured 1.6231 1 2765.82 4489.19
oligosaccharyl transferase stt3 subunit homolog (b5) (integral membrane protein 1) (tmc). [swissprot;acc:p46977] Ranked 1.34428 0 11453 8519.83
protein phosphatase inhibitor 2 (ipp-2). [swissprot;acc:p41236] Squared 3.3984 0.365145 1.24091
spir-2 protein (fragment). [sptrembl;acc:q8wwl2] Measured 1.80709 56.278 31.1429
64 1,4-alpha-glucan branching enzyme (ec 2.4.1.18) (glycogen branching enzyme) (brancher enzyme). [swissprot;acc:q04446] Rooted 1.35128 1 47.2654 63.8686
glycogen phosphorylase, muscle form (ec 2.4.1.1) (myophosphorylase). [swissprot;acc:p11217] Measured 1.6231 2765.82 4489.19
guanine nucleotide-binding protein g(i)/g(s)/g(o) gamma-11 subunit. [swissprot;acc:p50152] Ranked 1.25965 336.159 266.868
melanoma antigen, family b, 6. [refseq;acc:nm_173523] Squared 1.68808 129762 219048
muscle-specific beta 1 integrin binding protein. [refseq;acc:nm_014446] Rooted 1.43422 0 22.5496 15.7225
phosphatidylinositol-4-phosphate 3-kinase c2 domain-containing beta polypeptide (ec 2.7.1.154) (phosphoinositide 3-kinase-c2-beta) (ptdins-3-kinase c2 beta) (pi3k-c2beta) (c2-pi3k). [swissprot;acc:o00750] Measured 1800000 18 0.00001
similar to lysozyme c-1 (1,4-beta-n-acylmuramidase c, ec 3.2.1.17). [refseq;acc:nm_032517] Ranked 1.33563 20387 15264
tyrosinase-related gene segment, exon 5 (fragment). [sptrembl;acc:q15677] Squared 3.33542 15.2519 50.8715
65 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] 3.33538 15.1833 50.642
60s ribosomal protein l21. [swissprot;acc:p46778] Rooted 1.42072 29.2291 20.5734
e1a binding protein p400; p400 swi2/snf2-related protein; cagh32 protein; trinucleotide repeat containing 12. [refseq;acc:nm_015409] Ranked 1.32502 10406.3 7853.67
glycogen phosphorylase, brain form (ec 2.4.1.1). [swissprot;acc:p11216] Rooted 1.35128 1 47.2654 63.8686
guanine nucleotide-binding protein g(q), alpha subunit. [swissprot;acc:p50148] Ranked 1.25807 336.077 267.136
melanoma-associated antigen 4 (mage-4 antigen) (mage-x2) (mage-41). [swissprot;acc:p43358] Squared 1.68808 129762 219048
neuralized-like. [refseq;acc:nm_004210] Measured 1.6229 2690.25 1657.68
rna helicase-related protein; rna helicase-like protein; sf3b125 dead-box protein. [refseq;acc:nm_007372] 1800000 0 0.00001 18
66 dj820b18.1 (similar to nuclear cap binding protein) (fragment). [sptrembl;acc:q8wwk2] Squared 3.2204 558.241 1797.76
glycogen phosphorylase, liver form (ec 2.4.1.1). [swissprot;acc:p06737] Rooted 1.35128 1 47.2654 63.8686
guanine nucleotide-binding protein g(y), alpha subunit (alpha-11). [swissprot;acc:p29992] Ranked 1.25807 336.077 267.136
heparan sulfate 6-o-sulfotransferase 2. [refseq;acc:nm_147174] 1.32449 0 15180 11461
melanoma-associated antigen 9 (mage-9 antigen). [swissprot;acc:p43362] Squared 1.68808 1 129762 219048
nadh-ubiquinone oxidoreductase subunit b17.2 (ec 1.6.5.3) (ec 1.6.99.3) (complex i-b17.2) (ci-b17.2) (cib17.2) (13 kda differentiation-associated protein). [swissprot;acc:q9ui09] Measured 1.61795 3221.38 1991.03
oligosaccharyl transferase stt3 subunit homolog (b5) (integral membrane protein 1) (tmc). [swissprot;acc:p46977] Rooted 1.40854 0 21.9983 30.9855
soluble liver antigen/liver pancreas antigen. [refseq;acc:nm_153825] Measured 1.78524 385.626 688.436
67 beta-arrestin 2 (arrestin, beta 2). [swissprot;acc:p32121] 1.59177 1 10307.5 6475.5
filamin a (alpha-filamin) (filamin 1) (endothelial actin-binding protein) (abp-280) (nonmuscle filamin). [swissprot;acc:p21333] 1.78508 0 898 1603
Squared 3.1865 190.865 608.191
guanine nucleotide-binding protein g(t), alpha-2 subunit (transducin alpha-2 chain). [swissprot;acc:p19087] Ranked 1.25805 1 336.075 267.14
isoleucyl-trna synthetase, cytoplasmic (ec 6.1.1.5) (isoleucine--trna ligase) (ilers) (irs). [swissprot;acc:p41252] Rooted 1.39177 0 15.3166 11.0051
melanoma-associated antigen 8 (mage-8 antigen). [swissprot;acc:p43361] Squared 1.68808 1 129762 219048
myosin xv (unconventional myosin-15). [swissprot;acc:q9ukn7] Rooted 1.35128 47.2654 63.8686
presenilin enhancer 2; hematopoietic stem/progenitor cells protein mds033. [refseq;acc:nm_172341] Ranked 1.32408 0 14291.5 10793.5
68 alpha crystallin a chain. [swissprot;acc:p02489] Rooted 1.38766 8.63381 6.22183
beta-arrestin 1 (arrestin, beta 1). [swissprot;acc:p49407] Measured 1.59177 1 10307.5 6475.5
glycogen phosphorylase, muscle form (ec 2.4.1.1) (myophosphorylase). [swissprot;acc:p11217] Rooted 1.35128 47.2654 63.8686
guanine nucleotide-binding protein g(z), alpha subunit (g(x) alpha chain) (gz-alpha). [swissprot;acc:p19086] Ranked 1.25805 336.075 267.139
melanoma-associated antigen c1 (mage-c1 antigen) (cancer-testis antigen ct7). [swissprot;acc:o60732] Squared 1.68808 129762 219048
mitochondrial 28s ribosomal protein s32 (s32mt) (mrp-s32) (ptd007) (hspc204). [swissprot;acc:q9y6g3] 3136000 0 0.00001 31.36
protein regulator of cytokinesis 1; protein regulating cytokinesis 1. [refseq;acc:nm_003981] Measured 1.76802 351.772 198.964
purine nucleoside phosphorylase (ec 2.4.2.1) (inosine phosphorylase) (pnp). [swissprot;acc:p00491] Ranked 1.32362 11823.3 8932.56
69 cartilage oligomeric matrix protein precursor (comp). [swissprot;acc:p49747] Rooted 1.38596 13.5207 18.7392
collagen alpha 5(iv) chain precursor. [swissprot;acc:p29400] Ranked 1.32051 10174.1 7704.7
dj570f3.6 (novel protein similar to lysophospholipase ii (lypla2)). [sptrembl;acc:q9uge0] Measured 1.7602 2804 1593
guanine nucleotide-binding protein g(t), alpha-1 subunit (transducin alpha-1 chain). [swissprot;acc:p11488] Ranked 1.25805 1 336.075 267.14
melanoma-associated antigen 12 (mage-12 antigen) (mage12f). [swissprot;acc:p43365] Squared 1.68808 129762 219048
neurogenic differentiation factor 2 (neurod2). [swissprot;acc:q15784] Rooted 1.33581 37.2872 27.9136

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/