MK5 Microarray Data

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	description	green	Filtered	network_comparison	Value Type	red	Interaction Map	Network Comparison Type	Rank

Results: HTML CSV LaTeX

Showing element 1 to 32 of 32 in total

Rank  : 46

description	green	Filtered	network_comparison	Value Type	red	Interaction Map	Network Comparison Type
60s ribosomal protein l37a. [swissprot;acc:p12751]	18499.2	0	1.42943	Ranked	12941.7	High confidence	Divided
apg3p; pc3-96 protein. [refseq;acc:nm_022488]	73157.5	1	1.77148	Squared	129597
atlastin; guanylate-binding protein 3. [refseq;acc:nm_015915]	67.6572		7.9751	Rooted	75.6323	Low confidence	Subtracted
beta-tubulin 4q. [sptrembl;acc:q8wz78]	35675.5	0	5005.7	Squared	40681.2
cleavage and polyadenylation specific factor 4, 30kd subunit; cleavage-polyadenylation specificity factor, 30kd; no arches-like (zebrafish) zinc finger protein; cleavage-polyadenylation specificity factor. [refseq;acc:nm_006693]	20431.7	1	4464.7	Measured	24896.4	High confidence
deltex 2. [refseq;acc:nm_020892]	43.9629		1.5909	Rooted	27.634		Divided
ephrin type-b receptor 4 precursor (ec 2.7.1.112) (tyrosine-protein kinase receptor htk). [swissprot;acc:p54760]	67	0	2.79167	Measured	24	Low confidence
folylpolyglutamate synthase, mitochondrial precursor (ec 6.3.2.17) (folylpoly-gamma-glutamate synthetase) (fpgs). [swissprot;acc:q05932]	24837.5		5357.5	Squared	30195	High confidence	Subtracted
fos-related antigen 1 (fra-1). [swissprot;acc:p15407]	161.068	1	1.27053	Ranked	204.642		Divided
fos39347_1. [sptrembl;acc:o75863]	9.07489	0	5.67971	Rooted	14.7546	Low confidence	Subtracted
heat shock 70 kda protein 1 (hsp70.1) (hsp70-1/hsp70-2). [swissprot;acc:p08107]	9264.5		4054	Ranked	5210.5	High confidence
heparan sulfate 6-o-sulfotransferase 2. [refseq;acc:nm_147174]	7.48331		1.67439	Rooted	12.53		Divided
hepatocyte growth factor-regulated tyrosine kinase substrate; human growth factor-regulated tyrosine kinase substrate. [refseq;acc:nm_004712]	33.2721		8.102		25.1701		Subtracted
jun dimerization protein. [refseq;acc:nm_130469]	75.4064	1	1.13252		66.5831	Low confidence	Divided
melanoma antigen, family d, 4 isoform 1; mage1 protein; mage-e1 protein; maged4 protein. [refseq;acc:nm_030801]	120.823		16.623		137.446	High confidence	Subtracted
melanoma-associated antigen 10 (mage-10 antigen). [swissprot;acc:p43363]	5.80679	0	1.69589		9.84765	Low confidence	Divided
melanoma-associated antigen 11 (mage-11 antigen). [swissprot;acc:p43364]	17020.5		3195	Ranked	13825.5		Subtracted
melanoma-associated antigen 9 (mage-9 antigen). [swissprot;acc:p43362]	61881.5	1	20466.3	Squared	82347.8
melanoma-associated antigen b1 (mage-b1 antigen) (mage-xp antigen) (dss-ahc critical interval mage superfamily 10) (dam10). [swissprot;acc:p43366]			1.33073				Divided
nadh-ubiquinone oxidoreductase 13 kda-b subunit (ec 1.6.5.3) (ec 1.6.99.3) (complex i-13kd-b) (ci-13kd-b) (complex i subunit b13). [swissprot;acc:q16718]	98.4675	0	5.87971		16.747
neuralized-like. [refseq;acc:nm_004210]	266.948	1	65.378	Ranked	332.326	High confidence	Subtracted
neurogenic differentiation factor 2 (neurod2). [swissprot;acc:q15784]	1390.33		1.78438	Measured	779.167		Divided
poly(a) polymerase alpha (ec 2.7.7.19) (pap) (polynucleotide adenylyltransferase alpha) (fragment). [swissprot;acc:p51003]	136779		73666	Squared	210445		Subtracted
protein phosphatase 1, regulatory (inhibitor) subunit 14c; serologically defined breast cancer antigen ny-br-81; pkc-potentiated pp1 inhibitory protein. [refseq;acc:nm_030949]	217.217		25.525	Ranked	242.742	Low confidence
protein phosphatase 1, regulatory subunit 14d; pkc-dependent pp1 inhibitory protein. [refseq;acc:nm_017726]			1.11751				Divided
putative dynein light chain protein dj8b22.1. [swissprot;acc:q9y3p0]	4196.79	0	411.04	Measured	4607.83		Subtracted
septin 7 (cdc10 protein homolog). [swissprot;acc:q16181]	12942.3	1	1326.3		11616
small glutamine rich protein with tetratricopeptide repeats 2. [refseq;acc:nm_019072]	2436.4	0	587.45		3023.85	High confidence
synbindin (trs23 homolog) (hematopoietic stem/progenitor cell protein 172) (hspc172) (ptd009) (cgi-104). [swissprot;acc:q9y296]	13210.4		1.31424	Ranked	17361.7	Low confidence	Divided
tigger transposable element derived 1; jerky (mouse) homolog-like. [refseq;acc:nm_145702]	83.274		5.60534	Squared	14.8562	High confidence
tigger transposable element derived 7; jerky (mouse) homolog-like. [refseq;acc:nm_033208]	438.035		2.16674	Measured	202.163
transcription regulator protein bach1 (btb and cnc homolog 1) (ha2303). [swissprot;acc:o14867]	9645.34	1	1.16027		8313.02	Low confidence

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.