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

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

Results: HTML CSV LaTeX

Showing element 51 to 100 of 6456 in total

Value Type  : Measured
Interaction Map  : High confidence
Filtered  : 1

Rank	Network Comparison Type	description	red	network_comparison	green
26	Divided	guanine nucleotide-binding protein g(i)/g(s)/g(o) gamma-12 subunit. [swissprot;acc:q9ubi6]	1833.01	2.0534	892.67
	Subtracted	hepatocellular carcinoma-associated protein hca1. [refseq;acc:nm_020932]	23693.7	5430.7	18263
27	Divided	guanine nucleotide-binding protein g(i)/g(s)/g(o) gamma-4 subunit. [swissprot;acc:p50150]	1834.33	2.04922	895.134
	Subtracted	melanoma-associated antigen 6 (mage-6 antigen) (mage3b). [swissprot;acc:p43360]	23693.7	5430.7	18263
28	Divided	guanine nucleotide-binding protein g(i)/g(s)/g(o) gamma-3 subunit. [swissprot;acc:p29798]	1834.36	2.04912	895.194
	Subtracted	necdin. [swissprot;acc:q99608]	23693.7	5430.7	18263
29	Divided	guanine nucleotide-binding protein g(i)/g(s)/g(o) gamma-8 subunit (gamma-9). [swissprot;acc:q9uk08]	1834.52	2.04858	895.507
	Subtracted	melanoma-associated antigen d1 (mage-d1 antigen) (neurotrophin receptor-interacting mage homolog) (pro2292). [swissprot;acc:q9y5v3]	23693.7	5430.7	18263
30	Divided	guanine nucleotide-binding protein g(i)/g(s)/g(o) gamma-5 subunit. [swissprot;acc:p30670]	1834.59	2.04837	895.633
	Subtracted	melanoma-associated antigen f1 (mage-f1 antigen). [swissprot;acc:q9hay2]	23693.7	5430.7	18263
31	Divided	guanine nucleotide-binding protein g(i)/g(s)/g(o) gamma-10 subunit. [swissprot;acc:p50151]	1834.63	2.04827	895.697
	Subtracted	melanoma antigen, family b, 6. [refseq;acc:nm_173523]	23693.7	5430.7	18263
32	Divided	guanine nucleotide-binding protein g(i)/g(s)/g(o) gamma-5 like subunit. [swissprot;acc:q9y3k8]	1834.73	2.04793	895.893
	Subtracted	melanoma-associated antigen 4 (mage-4 antigen) (mage-x2) (mage-41). [swissprot;acc:p43358]	23693.7	5430.7	18263
33	Divided	guanine nucleotide-binding protein g(i)/g(s)/g(o) gamma-11 subunit. [swissprot;acc:p50152]	1835.3	2.04611	896.972
	Subtracted	melanoma-associated antigen 9 (mage-9 antigen). [swissprot;acc:p43362]	23693.7	5430.7	18263
34	Divided	guanine nucleotide-binding protein g(y), alpha subunit (alpha-11). [swissprot;acc:p29992]	1836.71	2.02382	907.546
	Subtracted	melanoma-associated antigen 8 (mage-8 antigen). [swissprot;acc:p43361]	23693.7	5430.7	18263
35	Divided	guanine nucleotide-binding protein g(q), alpha subunit. [swissprot;acc:p50148]	1836.71	2.02378	907.564
	Subtracted	melanoma-associated antigen c1 (mage-c1 antigen) (cancer-testis antigen ct7). [swissprot;acc:o60732]	23693.7	5430.7	18263
36	Divided	guanine nucleotide-binding protein g(z), alpha subunit (g(x) alpha chain) (gz-alpha). [swissprot;acc:p19086]	1836.76	2.02344	907.741
	Subtracted	melanoma-associated antigen 12 (mage-12 antigen) (mage12f). [swissprot;acc:p43365]	23693.7	5430.7	18263
37	Divided	guanine nucleotide-binding protein g(t), alpha-1 subunit (transducin alpha-1 chain). [swissprot;acc:p11488]	1836.76	2.02339	907.763
	Subtracted	melanoma-associated antigen 1 (mage-1 antigen) (antigen mz2-e). [swissprot;acc:p43355]	23693.7	5430.7	18263
38	Divided	guanine nucleotide-binding protein g(t), alpha-2 subunit (transducin alpha-2 chain). [swissprot;acc:p19087]	1836.76	2.02337	907.774
	Subtracted	melanoma-associated antigen 10 (mage-10 antigen). [swissprot;acc:p43363]	23693.7	5430.7	18263
39	Divided	guanine nucleotide-binding protein g(i), alpha-2 subunit (adenylate cyclase-inhibiting g alpha protein). [swissprot;acc:p04899]	1836.8	2.02312	907.903
	Subtracted	melanoma-associated antigen b1 (mage-b1 antigen) (mage-xp antigen) (dss-ahc critical interval mage superfamily 10) (dam10). [swissprot;acc:p43366]	23693.7	5430.7	18263
40	Divided	guanine nucleotide-binding protein g(i), alpha-1 subunit (adenylate cyclase-inhibiting g alpha protein). [swissprot;acc:p04898]	1836.81	2.02297	907.978
	Subtracted	melanoma-associated antigen d2 (mage-d2 antigen) (breast cancer associated gene 1 protein) (bcg-1) (11b6) (hepatocellular carcinoma associated protein jcl-1). [swissprot;acc:q9unf1]	23693.7	5430.7	18263
41	Divided	guanine nucleotide-binding protein g(k), alpha subunit (g(i) alpha-3). [swissprot;acc:p08754]	1836.81	2.02297	907.978
	Subtracted	trophinin. [swissprot;acc:q12816]	23693.7	5430.7	18263
42	Divided	guanine nucleotide-binding protein beta subunit 5 (transducin beta chain 5). [swissprot;acc:o14775]	1857.32	1.93827	958.237
	Subtracted	gaba-a receptor-associated protein. [sptrembl;acc:q9by60]	21785.2	5359.1	16426.1
43	Divided	guanine nucleotide-binding protein g(i)/g(s)/g(t) beta subunit 3 (transducin beta chain 3). [swissprot;acc:p16520]	1881.02	1.83093	1027.36
	Subtracted	apg3p; pc3-96 protein. [refseq;acc:nm_022488]	21785.2	5359.1	16426.1
44	Divided	guanine nucleotide-binding protein g(i)/g(s)/g(t) beta subunit 1 (transducin beta chain 1). [swissprot;acc:p04901]	1931.34	1.82652	1057.39
	Subtracted	deoxyribonuclease ii beta isoform 1 precursor; deoxyribonuclease ii beta; endonuclease dlad. [refseq;acc:nm_021233]	28136.5	5321.1	33457.6
45	Divided	guanine nucleotide-binding protein beta subunit 4 (transducin beta chain 4). [swissprot;acc:q9hav0]	1926.69	1.82448	1056.02
	Subtracted	protein phosphatase 1, regulatory subunit 7; sds22. [refseq;acc:nm_002712]	27642.5	5202.1	22440.4
46	Divided	neurogenic differentiation factor 2 (neurod2). [swissprot;acc:q15784]	779.167	1.78438	1390.33
	Subtracted	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]	24896.4	4464.7	20431.7
47	Divided	chromodomain helicase-dna-binding protein 3 (chd-3) (mi-2 autoantigen 240 kda protein) (mi2-alpha). [swissprot;acc:q12873]	779.167	1.78438	1390.33
	Subtracted	trs85 homolog. [swissprot;acc:q9y2l5]	24896.4	4464.7	20431.7
48	Divided	doc-1 related protein (doc-1r). [swissprot;acc:o75956]	779.167	1.78438	1390.33
	Subtracted	wd-repeat protein wdc146. [swissprot;acc:q9c0j8]	24806.9	4437	20369.9
49	Divided	neurogenic differentiation factor 6 (neurod6) (my051 protein). [swissprot;acc:q96nk8]	779.167	1.78438	1390.33
	Subtracted	cleavage and polyadenylation specificity factor, 160 kda subunit (cpsf 160 kda subunit). [swissprot;acc:q10570]	24806.9	4437	20369.9
50	Divided	neurogenic differentiation factor 1 (neurod1) (neurod). [swissprot;acc:q13562]	779.167	1.78438	1390.33
	Subtracted	cleavage and polyadenylation specificity factor, 100 kda subunit (cpsf 100 kda subunit) (fragment). [swissprot;acc:q9p2i0]	24473.9	4346.1	20127.8

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.